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Conserved domains on  [gi|19921202|ref|NP_609585|]
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uncharacterized protein Dmel_CG5776, isoform A [Drosophila melanogaster]

Protein Classification

CDC48 family AAA ATPase( domain architecture ID 1001098)

CDC48 family AAA ATPase is involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus; similar to yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein)

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CDC48 super family cl36852
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 183-797 4.10e-159

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


The actual alignment was detected with superfamily member TIGR01243:

Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 480.17  E-value: 4.10e-159
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   183 QDAIALLKRDMVNRVFYKDSLIHMNFFNKSLTFrlerwqstveealagLSLDSKPLQFIQVTNVTKLHlITDDANQQEEE 262
Cdd:TIGR01243 106 RDFVDYVKEFLLGKPISKGETVIVPVLEGALPF---------------VVVSTQPAGFVYVTEATEVE-IREKPVREEIE 169

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   263 QKIShRITKCQIGGLDRQLQLVEESMEYALG----FRTLpaGLRVSRGLLLYGATGCGKSMVLEAmcaVAEErsqGHVQL 338
Cdd:TIGR01243 170 RKVP-KVTYEDIGGLKEAKEKIREMVELPMKhpelFEHL--GIEPPKGVLLYGPPGTGKTLLAKA---VANE---AGAYF 240

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   339 IRINSGEVYSKFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQEN--SDLVKRVSLAFLSLLDQLsspsqlKG- 415
Cdd:TIGR01243 241 ISINGPEIMSKYYGESEERLREIFKEAEEN--APSIIFIDEIDAIAPKREEvtGEVEKRVVAQLLTLMDGL------KGr 312

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   416 SKTFVLATSSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVEhQLSDEEVEHVASITHGYVGADLANLVY- 494
Cdd:TIGR01243 313 GRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDVDLDKLAEVTHGFVGADLAALAKe 391

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   495 AAM-------------LQAQPNP--------LQMPHLQAALTRIKPSAMREVLIECPNVQWSDIGGQSELRLAMQQAIEW 553
Cdd:TIGR01243 392 AAMaalrrfiregkinFEAEEIPaevlkelkVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEW 471

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   554 PLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAPAIVF 633
Cdd:TIGR01243 472 PLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIF 551

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   634 FDEIDAIGGERsegdGSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGLPQCEAR 713
Cdd:TIGR01243 552 FDEIDAIAPAR----GARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR 627

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   714 REILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQS--------FEAED--------VKWTDFEHAL 777
Cdd:TIGR01243 628 KEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESigspakekLEVGEeeflkdlkVEMRHFLEAL 707

                         650       660
                  ....*....|....*....|
gi 19921202   778 KAVPPRTSPELLKLYEDYLK 797
Cdd:TIGR01243 708 KKVKPSVSKEDMLRYERLAK 727
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 183-797 4.10e-159

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 480.17  E-value: 4.10e-159
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   183 QDAIALLKRDMVNRVFYKDSLIHMNFFNKSLTFrlerwqstveealagLSLDSKPLQFIQVTNVTKLHlITDDANQQEEE 262
Cdd:TIGR01243 106 RDFVDYVKEFLLGKPISKGETVIVPVLEGALPF---------------VVVSTQPAGFVYVTEATEVE-IREKPVREEIE 169

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   263 QKIShRITKCQIGGLDRQLQLVEESMEYALG----FRTLpaGLRVSRGLLLYGATGCGKSMVLEAmcaVAEErsqGHVQL 338
Cdd:TIGR01243 170 RKVP-KVTYEDIGGLKEAKEKIREMVELPMKhpelFEHL--GIEPPKGVLLYGPPGTGKTLLAKA---VANE---AGAYF 240

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   339 IRINSGEVYSKFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQEN--SDLVKRVSLAFLSLLDQLsspsqlKG- 415
Cdd:TIGR01243 241 ISINGPEIMSKYYGESEERLREIFKEAEEN--APSIIFIDEIDAIAPKREEvtGEVEKRVVAQLLTLMDGL------KGr 312

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   416 SKTFVLATSSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVEhQLSDEEVEHVASITHGYVGADLANLVY- 494
Cdd:TIGR01243 313 GRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDVDLDKLAEVTHGFVGADLAALAKe 391

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   495 AAM-------------LQAQPNP--------LQMPHLQAALTRIKPSAMREVLIECPNVQWSDIGGQSELRLAMQQAIEW 553
Cdd:TIGR01243 392 AAMaalrrfiregkinFEAEEIPaevlkelkVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEW 471

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   554 PLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAPAIVF 633
Cdd:TIGR01243 472 PLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIF 551

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   634 FDEIDAIGGERsegdGSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGLPQCEAR 713
Cdd:TIGR01243 552 FDEIDAIAPAR----GARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR 627

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   714 REILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQS--------FEAED--------VKWTDFEHAL 777
Cdd:TIGR01243 628 KEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESigspakekLEVGEeeflkdlkVEMRHFLEAL 707

                         650       660
                  ....*....|....*....|
gi 19921202   778 KAVPPRTSPELLKLYEDYLK 797
Cdd:TIGR01243 708 KKVKPSVSKEDMLRYERLAK 727
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 528-785 1.80e-112

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 345.07  E-value: 1.80e-112
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 528 ECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFS 607
Cdd:COG1222  71 ESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVS 150

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 608 MWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERsegDGSSSGSSVKeRVLTQLLTELDGVEALQNVTIVAATNRPD 687
Cdd:COG1222 151 KYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARR---TDDGTSGEVQ-RTVNQLLAELDGFESRGDVLIIAATNRPD 226

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 688 MIDKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQSfeAED 767
Cdd:COG1222 227 LLDPALLRPGRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIREG--RDT 304

                       250
                ....*....|....*...
gi 19921202 768 VKWTDFEHALKAVPPRTS 785
Cdd:COG1222 305 VTMEDLEKAIEKVKKKTE 322
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 543-705 1.08e-93

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 289.57  E-value: 1.08e-93
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 543 LRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFR 622
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 623 KARQVAPAIVFFDEIDAIGGERsegdGSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRI 702
Cdd:cd19511  81 KARQAAPCIIFFDEIDSLAPRR----GQSDSSGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDKL 156


                ...
gi 19921202 703 LYV 705
Cdd:cd19511 157 IYV 159
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 520-780 2.21e-88

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 284.42  E-value: 2.21e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  520 SAMrEVlIECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLS 599
Cdd:PRK03992 118 QAM-EV-IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIR 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  600 IKGPELFSMWVGESERAVREVFRKARQVAPAIVFFDEIDAIG---------GERSEgdgsssgssvkERVLTQLLTELDG 670
Cdd:PRK03992 196 VVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAakrtdsgtsGDREV-----------QRTLMQLLAEMDG 264

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  671 VEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAV 750
Cdd:PRK03992 265 FDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAI 344

                        250       260       270
                 ....*....|....*....|....*....|
gi 19921202  751 CHEAALRALEQsfEAEDVKWTDFEHALKAV 780
Cdd:PRK03992 345 CTEAGMFAIRD--DRTEVTMEDFLKAIEKV 372
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 572-707 3.30e-49

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 169.31  E-value: 3.30e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   572 ILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSS 651
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR-----GS 75

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 19921202   652 SGSSVKERVLTQLLTELDGVEALQ-NVTIVAATNRPDMIDKALLrpGRIDRILYVGL 707
Cdd:pfam00004  76 GGDSESRRVVNQLLTELDGFTSSNsKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 568-708 2.06e-15

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 73.95  E-value: 2.06e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202    568 PPRGILMFGPPGCSKTMIAKALATESKLN---FLSIKGPELFS--------------MWVGESERAVREVFRKARQVAPA 630
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEevldqllliivggkKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19921202    631 IVFFDEIDAIGGERSEgdgsssgssvKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPgRIDRILYVGLP 708
Cdd:smart00382  81 VLILDEITSLLDAEQE----------ALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLI 147
 
Name Accession Description Interval E-value
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 183-797 4.10e-159

AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.


Pssm-ID: 273521 [Multi-domain]  Cd Length: 733  Bit Score: 480.17  E-value: 4.10e-159
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   183 QDAIALLKRDMVNRVFYKDSLIHMNFFNKSLTFrlerwqstveealagLSLDSKPLQFIQVTNVTKLHlITDDANQQEEE 262
Cdd:TIGR01243 106 RDFVDYVKEFLLGKPISKGETVIVPVLEGALPF---------------VVVSTQPAGFVYVTEATEVE-IREKPVREEIE 169

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   263 QKIShRITKCQIGGLDRQLQLVEESMEYALG----FRTLpaGLRVSRGLLLYGATGCGKSMVLEAmcaVAEErsqGHVQL 338
Cdd:TIGR01243 170 RKVP-KVTYEDIGGLKEAKEKIREMVELPMKhpelFEHL--GIEPPKGVLLYGPPGTGKTLLAKA---VANE---AGAYF 240

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   339 IRINSGEVYSKFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQEN--SDLVKRVSLAFLSLLDQLsspsqlKG- 415
Cdd:TIGR01243 241 ISINGPEIMSKYYGESEERLREIFKEAEEN--APSIIFIDEIDAIAPKREEvtGEVEKRVVAQLLTLMDGL------KGr 312

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   416 SKTFVLATSSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVEhQLSDEEVEHVASITHGYVGADLANLVY- 494
Cdd:TIGR01243 313 GRVIVIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMP-LAEDVDLDKLAEVTHGFVGADLAALAKe 391

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   495 AAM-------------LQAQPNP--------LQMPHLQAALTRIKPSAMREVLIECPNVQWSDIGGQSELRLAMQQAIEW 553
Cdd:TIGR01243 392 AAMaalrrfiregkinFEAEEIPaevlkelkVTMKDFMEALKMVEPSAIREVLVEVPNVRWSDIGGLEEVKQELREAVEW 471

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   554 PLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAPAIVF 633
Cdd:TIGR01243 472 PLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVRGPEILSKWVGESEKAIREIFRKARQAAPAIIF 551

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   634 FDEIDAIGGERsegdGSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGLPQCEAR 713
Cdd:TIGR01243 552 FDEIDAIAPAR----GARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEAR 627

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   714 REILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQS--------FEAED--------VKWTDFEHAL 777
Cdd:TIGR01243 628 KEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAALRESigspakekLEVGEeeflkdlkVEMRHFLEAL 707

                         650       660
                  ....*....|....*....|
gi 19921202   778 KAVPPRTSPELLKLYEDYLK 797
Cdd:TIGR01243 708 KKVKPSVSKEDMLRYERLAK 727
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 528-785 1.80e-112

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 345.07  E-value: 1.80e-112
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 528 ECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFS 607
Cdd:COG1222  71 ESPDVTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVS 150

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 608 MWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERsegDGSSSGSSVKeRVLTQLLTELDGVEALQNVTIVAATNRPD 687
Cdd:COG1222 151 KYIGEGARNVREVFELAREKAPSIIFIDEIDAIAARR---TDDGTSGEVQ-RTVNQLLAELDGFESRGDVLIIAATNRPD 226

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 688 MIDKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQSfeAED 767
Cdd:COG1222 227 LLDPALLRPGRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGMFAIREG--RDT 304

                       250
                ....*....|....*...
gi 19921202 768 VKWTDFEHALKAVPPRTS 785
Cdd:COG1222 305 VTMEDLEKAIEKVKKKTE 322
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 543-705 1.08e-93

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 289.57  E-value: 1.08e-93
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 543 LRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFR 622
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 623 KARQVAPAIVFFDEIDAIGGERsegdGSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRI 702
Cdd:cd19511  81 KARQAAPCIIFFDEIDSLAPRR----GQSDSSGVTDRVVSQLLTELDGIESLKGVVVIAATNRPDMIDPALLRPGRLDKL 156


                ...
gi 19921202 703 LYV 705
Cdd:cd19511 157 IYV 159
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 520-780 2.21e-88

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 284.42  E-value: 2.21e-88
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  520 SAMrEVlIECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLS 599
Cdd:PRK03992 118 QAM-EV-IESPNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIR 195

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  600 IKGPELFSMWVGESERAVREVFRKARQVAPAIVFFDEIDAIG---------GERSEgdgsssgssvkERVLTQLLTELDG 670
Cdd:PRK03992 196 VVGSELVQKFIGEGARLVRELFELAREKAPSIIFIDEIDAIAakrtdsgtsGDREV-----------QRTLMQLLAEMDG 264

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  671 VEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAV 750
Cdd:PRK03992 265 FDPRGNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADDVDLEELAELTEGASGADLKAI 344

                        250       260       270
                 ....*....|....*....|....*....|
gi 19921202  751 CHEAALRALEQsfEAEDVKWTDFEHALKAV 780
Cdd:PRK03992 345 CTEAGMFAIRD--DRTEVTMEDFLKAIEKV 372
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 534-780 1.31e-85

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 277.56  E-value: 1.31e-85
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 534 WSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGES 613
Cdd:COG0464 156 LDDLGGLEEVKEELRELVALPLKRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGET 235

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 614 ERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSgssvkERVLTQLLTELDGVEalQNVTIVAATNRPDMIDKAL 693
Cdd:COG0464 236 EKNLREVFDKARGLAPCVLFIDEADALAGKRGEVGDGVG-----RRVVNTLLTEMEELR--SDVVVIAATNRPDLLDPAL 308

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 694 LRpgRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQsfEAEDVKWTDF 773
Cdd:COG0464 309 LR--RFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQALRL--GREPVTTEDL 384


                ....*..
gi 19921202 774 EHALKAV 780
Cdd:COG0464 385 LEALERE 391
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 547-705 3.91e-76

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 243.56  E-value: 3.91e-76
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 547 MQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQ 626
Cdd:cd19529   5 LKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFRKARQ 84

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 19921202 627 VAPAIVFFDEIDAIGGERsegdGSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:cd19529  85 VAPCVIFFDEIDSIAPRR----GTTGDSGVTERVVNQLLTELDGLEEMNGVVVIAATNRPDIIDPALLRAGRFDRLIYI 159
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 547-705 4.27e-67

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 219.30  E-value: 4.27e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 547 MQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQ 626
Cdd:cd19528   5 LQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFDKARA 84

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 19921202 627 VAPAIVFFDEIDAIGGERSEGDGSSSGSSvkERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:cd19528  85 AAPCVLFFDELDSIAKARGGNIGDAGGAA--DRVINQILTEMDGMNTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYI 161
FtsH_fam TIGR01241
ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct ...
 530-780 5.05e-66

ATP-dependent metalloprotease FtsH; HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH. [Cellular processes, Cell division, Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 273520 [Multi-domain]  Cd Length: 495  Bit Score: 227.94  E-value: 5.05e-66
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   530 PNVQWSDIGGQSELRLAMQQAIEWpLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMW 609
Cdd:TIGR01241  50 PKVTFKDVAGIDEAKEELMEIVDF-LKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMF 128

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   610 VGESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGssVKERVLTQLLTELDGVEALQNVTIVAATNRPDMI 689
Cdd:TIGR01241 129 VGVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGND--EREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVL 206

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   690 DKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQSFEAedVK 769
Cdd:TIGR01241 207 DPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKKLAPDVDLKAVARRTPGFSGADLANLLNEAALLAARKNKTE--IT 284

                         250
                  ....*....|.
gi 19921202   770 WTDFEHALKAV 780
Cdd:TIGR01241 285 MNDIEEAIDRV 295
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 541-705 1.30e-65

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 215.43  E-value: 1.30e-65
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 541 SELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREV 620
Cdd:cd19530   2 DHVREELTMSILRPIKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVRQV 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 621 FRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRID 700
Cdd:cd19530  82 FQRARASAPCVIFFDEVDALVPKR-----GDGGSWASERVVNQLLTEMDGLEERSNVFVIAATNRPDIIDPAMLRPGRLD 156


                ....*
gi 19921202 701 RILYV 705
Cdd:cd19530 157 KTLYV 161
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 528-780 2.91e-64

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 220.40  E-value: 2.91e-64
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  528 ECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFS 607
Cdd:PTZ00454 138 EKPDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQ 217

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  608 MWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGSSvkERVLTQLLTELDGVEALQNVTIVAATNRPD 687
Cdd:PTZ00454 218 KYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREV--QRILLELLNQMDGFDQTTNVKVIMATNRAD 295

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  688 MIDKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQSFEAed 767
Cdd:PTZ00454 296 TLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRKNRYV-- 373

                        250
                 ....*....|...
gi 19921202  768 VKWTDFEHALKAV 780
Cdd:PTZ00454 374 ILPKDFEKGYKTV 386
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
559-777 1.46e-62

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 220.68  E-value: 1.46e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 559 DKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVG--ESeRaVREVFRKARQVAPAIVFFDE 636
Cdd:COG0465 165 EKFTRLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVGvgAS-R-VRDLFEQAKKNAPCIIFIDE 242

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 637 IDAIGG-----------ERsegdgsssgssvkERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:COG0465 243 IDAVGRqrgaglggghdER-------------EQTLNQLLVEMDGFEGNEGVIVIAATNRPDVLDPALLRPGRFDRQVVV 309

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 19921202 706 GLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQSfeAEDVKWTDFEHAL 777
Cdd:COG0465 310 DLPDVKGREAILKVHARKKPLAPDVDLEVIARRTPGFSGADLANLVNEAALLAARRN--KKAVTMEDFEEAI 379
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 534-705 3.81e-62

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 206.42  E-value: 3.81e-62
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 534 WSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGES 613
Cdd:cd19502   2 YEDIGGLDEQIREIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEG 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 614 ERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGSSvkERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKAL 693
Cdd:cd19502  82 ARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTGGDREV--QRTMLELLNQLDGFDPRGNIKVIMATNRPDILDPAL 159

                       170
                ....*....|..
gi 19921202 694 LRPGRIDRILYV 705
Cdd:cd19502 160 LRPGRFDRKIEF 171
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 536-701 1.68e-60

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 201.75  E-value: 1.68e-60
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESER 615
Cdd:cd19503   1 DIGGLDEQIASLKELIELPLKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 616 AVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLR 695
Cdd:cd19503  81 NLREIFEEARSHAPSIIFIDEIDALAPKR-----EEDQREVERRVVAQLLTLMDGMSSRGKVVVIAATNRPDAIDPALRR 155


                ....*.
gi 19921202 696 PGRIDR 701
Cdd:cd19503 156 PGRFDR 161
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
534-778 2.24e-60

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 204.35  E-value: 2.24e-60
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 534 WSDIGGQSELRLAMQQAIEWpLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGES 613
Cdd:COG1223   1 LDDVVGQEEAKKKLKLIIKE-LRRRENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYLGET 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 614 ERAVREVFRKARQvAPAIVFFDEIDAIGGERsegdgsSSGSSVKE--RVLTQLLTELDGVEalQNVTIVAATNRPDMIDK 691
Cdd:COG1223  80 ARNLRKLFDFARR-APCVIFFDEFDAIAKDR------GDQNDVGEvkRVVNALLQELDGLP--SGSVVIAATNHPELLDS 150

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 692 ALLRpgRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQsfEAEDVKWT 771
Cdd:COG1223 151 ALWR--RFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTALKKAILE--DREKVTKE 226


                ....*..
gi 19921202 772 DFEHALK 778
Cdd:COG1223 227 DLEEALK 233
pup_AAA TIGR03689
proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some ...
 513-729 1.68e-59

proteasome ATPase; In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity. [Protein fate, Degradation of proteins, peptides, and glycopeptides]


Pssm-ID: 200312 [Multi-domain]  Cd Length: 512  Bit Score: 210.34  E-value: 1.68e-59
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   513 ALTRIKPSAMRE-VLIECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALA- 590
Cdd:TIGR03689 159 AFEAIPRTEVEDlVLEEVPDVTYADIGGLGSQIEQIRDAVELPFLHPELYREYGLKPPKGVLLYGPPGCGKTLIAKAVAn 238

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   591 ---------TESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVA----PAIVFFDEIDAIGGERSEGDGSSsgssVK 657
Cdd:TIGR03689 239 slaarigaeGGGKSYFLNIKGPELLNKYVGETERQIRLIFQRAREKAsegrPVIVFFDEMDSLFRTRGSGVSSD----VE 314

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19921202   658 ERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGLPQCEARREILKIKLRA-MPISND 729
Cdd:TIGR03689 315 TTVVPQLLAEIDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFAKYLTDdLPLPED 387
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 530-761 1.60e-58

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 205.78  E-value: 1.60e-58
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  530 PNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMW 609
Cdd:PTZ00361 178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKY 257

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  610 VGESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGSSvkERVLTQLLTELDGVEALQNVTIVAATNRPDMI 689
Cdd:PTZ00361 258 LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEI--QRTMLELLNQLDGFDSRGDVKVIMATNRIESL 335

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 19921202  690 DKALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQ 761
Cdd:PTZ00361 336 DPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGLLALRE 407
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 532-705 2.58e-58

ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc metallopeptidase for both cytoplasmic and membrane proteins. It is anchored to the cytoplasmic membrane such that the amino- and carboxy-termini are exposed to the cytoplasm. It presents a membrane-bound hexameric structure that is able to unfold and degrade protein substrates. It is comprised of an N-terminal transmembrane region and the larger C-terminal cytoplasmic region, which consists of an ATPase domain and a protease domain. This RecA-Like FTsH subfamily represents the ATPase domain, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410909 [Multi-domain]  Cd Length: 171  Bit Score: 195.91  E-value: 2.58e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 532 VQWSDIGGQSELRLAMQQAIEWpLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVG 611
Cdd:cd19501   1 VTFKDVAGCEEAKEELKEVVEF-LKNPEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 612 ESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGSsvKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDK 691
Cdd:cd19501  80 VGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGAGLGGGHDE--REQTLNQLLVEMDGFESNTGVIVIAATNRPDVLDP 157

                       170
                ....*....|....
gi 19921202 692 ALLRPGRIDRILYV 705
Cdd:cd19501 158 ALLRPGRFDRQVYV 171
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 548-705 2.58e-58

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 195.58  E-value: 2.58e-58
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 548 QQAIEwPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQV 627
Cdd:cd19481   6 REAVE-APRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFERARRL 84

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19921202 628 APAIVFFDEIDAIGGERSEGDGSSSGssvkERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:cd19481  85 APCILFIDEIDAIGRKRDSSGESGEL----RRVLNQLLTELDGVNSRSKVLVIAATNRPDLLDPALLRPGRFDEVIEF 158
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 544-704 1.40e-57

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 193.41  E-value: 1.40e-57
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 544 RLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRK 623
Cdd:cd19526   2 KKALEETIEWPSKYPKIFASSPLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFSR 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 624 ARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRIL 703
Cdd:cd19526  82 AQSAKPCILFFDEFDSIAPKR-----GHDSTGVTDRVVNQLLTQLDGVEGLDGVYVLAATSRPDLIDPALLRPGRLDKLV 156


                .
gi 19921202 704 Y 704
Cdd:cd19526 157 Y 157
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
534-758 6.47e-57

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 206.42  E-value: 6.47e-57
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  534 WSDIGGQSELRLAMQQAIEWpLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGES 613
Cdd:PRK10733 151 FADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVG 229

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  614 ERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGSsvKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKAL 693
Cdd:PRK10733 230 ASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDE--REQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPAL 307

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 19921202  694 LRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAALRA 758
Cdd:PRK10733 308 LRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFA 372
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 536-706 1.73e-56

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 190.73  E-value: 1.73e-56
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESER 615
Cdd:cd19519   1 DIGGCRKQLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESES 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 616 AVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLR 695
Cdd:cd19519  81 NLRKAFEEAEKNAPAIIFIDEIDAIAPKR-----EKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRR 155

                       170
                ....*....|.
gi 19921202 696 PGRIDRILYVG 706
Cdd:cd19519 156 FGRFDREIDIG 166
ftsH CHL00176
cell division protein; Validated
 532-756 7.80e-53

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 194.50  E-value: 7.80e-53
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  532 VQWSDIGGQSELRLAMQQAIEWpLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVG 611
Cdd:CHL00176 180 ITFRDIAGIEEAKEEFEEVVSF-LKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG 258

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  612 ESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSGSsvKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDK 691
Cdd:CHL00176 259 VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDE--REQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDA 336

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 19921202  692 ALLRPGRIDRILYVGLPQCEARREILKIKLRAMPISNDVDMEKLVQLTEGYSGAEIQAVCHEAAL 756
Cdd:CHL00176 337 ALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAI 401
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 551-705 1.57e-52

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 179.63  E-value: 1.57e-52
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 551 IEWPLLHADKFQrLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAPA 630
Cdd:cd19527   9 IQLPLEHPELFS-SGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQKARDAKPC 87

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19921202 631 IVFFDEIDAIGGERsegDGSSSGSSVKERVLTQLLTELDGVE-ALQNVTIVAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:cd19527  88 VIFFDELDSLAPSR---GNSGDSGGVMDRVVSQLLAELDGMSsSGQDVFVIGATNRPDLLDPALLRPGRFDKLLYL 160
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 572-707 3.30e-49

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 169.31  E-value: 3.30e-49
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   572 ILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSS 651
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR-----GS 75

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 19921202   652 SGSSVKERVLTQLLTELDGVEALQ-NVTIVAATNRPDMIDKALLrpGRIDRILYVGL 707
Cdd:pfam00004  76 GGDSESRRVVNQLLTELDGFTSSNsKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 536-701 9.42e-49

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 169.51  E-value: 9.42e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESER 615
Cdd:cd19518   1 DIGGMDSTLKELCELLIHPILPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 616 AVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEAL----QNVTIVAATNRPDMIDK 691
Cdd:cd19518  81 KIRELFDQAISNAPCIVFIDEIDAITPKR-----ESAQREMERRIVSQLLTCMDELNNEktagGPVLVIGATNRPDSLDP 155

                       170
                ....*....|
gi 19921202 692 ALLRPGRIDR 701
Cdd:cd19518 156 ALRRAGRFDR 165
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 537-705 2.27e-45

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 159.83  E-value: 2.27e-45
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 537 IGGQSELRLAMQQAIEWPLLHADKFqRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESERA 616
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLF-PGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKI 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 617 VREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQN--VTIVAATNRPDMIDKALL 694
Cdd:cd19509  80 VRALFALARELQPSIIFIDEIDSLLSER-----GSGEHEASRRVKTEFLVQMDGVLNKPEdrVLVLGATNRPWELDEAFL 154

                       170
                ....*....|.
gi 19921202 695 RpgRIDRILYV 705
Cdd:cd19509 155 R--RFEKRIYI 163
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 536-704 2.11e-41

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 149.20  E-value: 2.11e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATE-----SKLNFLSIKGPELFSMWV 610
Cdd:cd19517   1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITPPRGVLFHGPPGTGKTLMARALAAEcskggQKVSFFMRKGADCLSKWV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 611 GESERAVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQNVTIVAATNRPDMID 690
Cdd:cd19517  81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVR-----SSKQEQIHASIVSTLLALMDGLDNRGQVVVIGATNRPDALD 155

                       170
                ....*....|....
gi 19921202 691 KALLRPGRIDRILY 704
Cdd:cd19517 156 PALRRPGRFDREFY 169
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 522-705 1.41e-38

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 141.66  E-value: 1.41e-38
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 522 MREVLIECPNVQWSDIGGQSELRLAMQQAIEWPLLHADKFQrlGIK-PPRGILMFGPPGCSKTMIAKALATESKLNFLSI 600
Cdd:cd19525   9 MSEIMDHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFT--GLRgPPKGILLFGPPGTGKTLIGKCIASQSGATFFSI 86

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 601 KGPELFSMWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSsgssvKERVLTQLLTELDGVEAL--QNVT 678
Cdd:cd19525  87 SASSLTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQRGEGEHES-----SRRIKTEFLVQLDGATTSseDRIL 161

                       170       180
                ....*....|....*....|....*..
gi 19921202 679 IVAATNRPDMIDKALLRpgRIDRILYV 705
Cdd:cd19525 162 VVGATNRPQEIDEAARR--RLVKRLYI 186
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 530-705 7.09e-37

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 136.15  E-value: 7.09e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 530 PNVQWSDIGGQSELRLAMQQAIEWPLlhadKFQRL---GIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELF 606
Cdd:cd19521   2 PNVKWEDVAGLEGAKEALKEAVILPV----KFPHLftgNRKPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLV 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 607 SMWVGESERAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSgssvkERVLTQLLTELDGV-EALQNVTIVAATNR 685
Cdd:cd19521  78 SKWMGESEKLVKQLFAMARENKPSIIFIDEVDSLCGTRGEGESEAS-----RRIKTELLVQMNGVgNDSQGVLVLGATNI 152

                       170       180
                ....*....|....*....|
gi 19921202 686 PDMIDKALLRpgRIDRILYV 705
Cdd:cd19521 153 PWQLDSAIRR--RFEKRIYI 170
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 537-700 5.67e-35

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 131.07  E-value: 5.67e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 537 IGG-QSELRLAMQQAIEWPLLHADKFQRLGIKPPRGILMFGPPGCSKTMIAKAL-----ATESKLnflsIKGPELFSMWV 610
Cdd:cd19504   2 IGGlDKEFSDIFRRAFASRVFPPEIVEQLGCKHVKGILLYGPPGTGKTLMARQIgkmlnAREPKI----VNGPEILNKYV 77

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 611 GESERAVREVFRKARQVAPA--------IVFFDEIDAIGGERSEGDGSSSgssVKERVLTQLLTELDGVEALQNVTIVAA 682
Cdd:cd19504  78 GESEANIRKLFADAEEEQRRlgansglhIIIFDEIDAICKQRGSMAGSTG---VHDTVVNQLLSKIDGVEQLNNILVIGM 154

                       170
                ....*....|....*...
gi 19921202 683 TNRPDMIDKALLRPGRID 700
Cdd:cd19504 155 TNRKDLIDEALLRPGRLE 172
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 536-695 9.80e-35

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 129.85  E-value: 9.80e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLGI-KPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESE 614
Cdd:cd19520   1 DIGGLDEVITELKELVILPLQRPELFDNSRLlQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 615 RAVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEALQN--VTIVAATNRPDMIDKA 692
Cdd:cd19520  81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQR-----SSTDHEATAMMKAEFMSLWDGLSTDGNcrVIVMGATNRPQDLDEA 155


                ...
gi 19921202 693 LLR 695
Cdd:cd19520 156 ILR 158
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 536-705 1.35e-34

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 129.72  E-value: 1.35e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQrlGIKPP-RGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESE 614
Cdd:cd19522   1 DIADLEEAKKLLEEAVVLPMWMPEFFK--GIRRPwKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESE 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 615 RAVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSgssvKERVLTQLLTELDGV-------EALQNVTIVAATNRPD 687
Cdd:cd19522  79 KLVRLLFEMARFYAPTTIFIDEIDSICSRRGTSEEHEA----SRRVKSELLVQMDGVggasendDPSKMVMVLAATNFPW 154

                       170
                ....*....|....*...
gi 19921202 688 MIDKALLRpgRIDRILYV 705
Cdd:cd19522 155 DIDEALRR--RLEKRIYI 170
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 536-705 3.87e-34

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 128.43  E-value: 3.87e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLGiKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESER 615
Cdd:cd19524   1 DIAGQDLAKQALQEMVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 616 AVREVFRKARQVAPAIVFFDEIDAIGGERsegdgSSSGSSVKERVLTQLLTELDGVEA--LQNVTIVAATNRPDMIDKAL 693
Cdd:cd19524  80 LVRALFAVARELQPSIIFIDEVDSLLSER-----SEGEHEASRRLKTEFLIEFDGVQSngDDRVLVMGATNRPQELDDAV 154

                       170
                ....*....|..
gi 19921202 694 LRpgRIDRILYV 705
Cdd:cd19524 155 LR--RFTKRVYV 164
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 273-524 6.85e-33

ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 129.74  E-value: 6.85e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 273 QIGGLDRQLQLVEESMEYALGFRTLPA--GLRVSRGLLLYGATGCGKSMVLEAmcaVAEERsqgHVQLIRINSGEVYSKF 350
Cdd:COG1222  79 DIGGLDEQIEEIREAVELPLKNPELFRkyGIEPPKGVLLYGPPGTGKTLLAKA---VAGEL---GAPFIRVRGSELVSKY 152

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 351 LGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQE---NSDLVKRVSLAFLSLLDQLSSPSQLKgsktfVLATSSQI 427
Cdd:COG1222 153 IGEGARNVREVFELAREK--APSIIFIDEIDAIAARRTddgTSGEVQRTVNQLLAELDGFESRGDVL-----IIAATNRP 225

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 428 DTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVehQLSDEE-VEHVASITHGYVGADLANLVYAAMLQA---QPN 503
Cdd:COG1222 226 DLLDPALLRPGRFDRVIEVPLPDEEAREEILKIHLRDM--PLADDVdLDKLAKLTEGFSGADLKAIVTEAGMFAireGRD 303

                       250       260
                ....*....|....*....|.
gi 19921202 504 PLQMPHLQAALTRIKPSAMRE 524
Cdd:COG1222 304 TVTMEDLEKAIEKVKKKTETA 324
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 249-518 4.86e-32

AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle control, cell division, chromosome partitioning, Signal transduction mechanisms];


Pssm-ID: 440232 [Multi-domain]  Cd Length: 397  Bit Score: 129.26  E-value: 4.86e-32
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 249 LHLITDDANQQEEEQKISHRITKcQIGGLDRQLQLVEESMEYALGFRTLPA--GLRVSRGLLLYGATGCGKSMVleaMCA 326
Cdd:COG0464 135 LVTYEDIGGLEEELLELREAILD-DLGGLEEVKEELRELVALPLKRPELREeyGLPPPRGLLLYGPPGTGKTLL---ARA 210

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 327 VAEErSQGHvqLIRINSGEVYSKFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPK--QENSDLVKRVSLAFLSLL 404
Cdd:COG0464 211 LAGE-LGLP--LIEVDLSDLVSKYVGETEKNLREVFDKARGL--APCVLFIDEADALAGKrgEVGDGVGRRVVNTLLTEM 285

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 405 DQLSSPSqlkgsktFVLATSSQIDTLHPSIRRagRLDNEVELGAPSSQARLEIVRCLIKSVEHQlSDEEVEHVASITHGY 484
Cdd:COG0464 286 EELRSDV-------VVIAATNRPDLLDPALLR--RFDEIIFFPLPDAEERLEIFRIHLRKRPLD-EDVDLEELAEATEGL 355

                       250       260       270
                ....*....|....*....|....*....|....*..
gi 19921202 485 VGADLANLVYAAMLQA---QPNPLQMPHLQAALTRIK 518
Cdd:COG0464 356 SGADIRNVVRRAALQAlrlGREPVTTEDLLEALERED 392
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 274-446 5.77e-31

first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. This subfamily also includes the first of the two ATPase domains of NVL (nuclear VCP-like protein) 2, an isoform of NVL mainly present in the nucleolus, which is involved in ribosome biogenesis, in telomerase assembly and the regulation of telomerase activity, and in pre-rRNA processing. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410911 [Multi-domain]  Cd Length: 165  Bit Score: 119.32  E-value: 5.77e-31
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQ----LVEESMEYALGFRTLpaGLRVSRGLLLYGATGCGKSMVLEAmcaVAEERSqghVQLIRINSGEVYSK 349
Cdd:cd19503   2 IGGLDEQIAslkeLIELPLKYPELFRAL--GLKPPRGVLLHGPPGTGKTLLARA---VANEAG---ANFLSISGPSIVSK 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 350 FLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQENSD--LVKRVSLAFLSLLDQLSSpsqlkGSKTFVLATSSQI 427
Cdd:cd19503  74 YLGESEKNLREIFEEARSH--APSIIFIDEIDALAPKREEDQreVERRVVAQLLTLMDGMSS-----RGKVVVIAATNRP 146

                       170
                ....*....|....*....
gi 19921202 428 DTLHPSIRRAGRLDNEVEL 446
Cdd:cd19503 147 DAIDPALRRPGRFDREVEI 165
ycf46 CHL00195
Ycf46; Provisional
 524-795 5.05e-29

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 121.67  E-value: 5.05e-29
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  524 EVLIECP-NVQWSDIGGQSELRlamqqaiEWPLLHADKF----QRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFL 598
Cdd:CHL00195 216 EILEFYSvNEKISDIGGLDNLK-------DWLKKRSTSFskqaSNYGLPTPRGLLLVGIQGTGKSLTAKAIANDWQLPLL 288

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  599 SIKGPELFSMWVGESERAVREVFRKARQVAPAIVFFDEIDaiggERSEGDGSSSGSSVKERVLTQLLTELDgvEALQNVT 678
Cdd:CHL00195 289 RLDVGKLFGGIVGESESRMRQMIRIAEALSPCILWIDEID----KAFSNSESKGDSGTTNRVLATFITWLS--EKKSPVF 362

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  679 IVAATNRPDMIDKALLRPGRIDRILYVGLPQCEARREILKIKLRAM-PIS-NDVDMEKLVQLTEGYSGAEIQAVCHEAAL 756
Cdd:CHL00195 363 VVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFrPKSwKKYDIKKLSKLSNKFSGAEIEQSIIEAMY 442

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|...
gi 19921202  757 RAL--EQSFEAEDVKwtdfeHALKAVPP--RTSPELLKLYEDY 795
Cdd:CHL00195 443 IAFyeKREFTTDDIL-----LALKQFIPlaQTEKEQIEALQNW 480
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 562-707 1.72e-25

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 102.99  E-value: 1.72e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 562 QRLGIKPPRGILMFGPPGCSKTMIAKALATES---KLNFLSIKGPELFSMWVGESER---AVREVFRKARQVAPAIVFFD 635
Cdd:cd00009  12 EALELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELFghfLVRLLFELAEKAKPGVLFID 91

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 19921202 636 EIDAIGGErsegdgsssgssVKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYVGL 707
Cdd:cd00009  92 EIDSLSRG------------AQNALLRVLETLNDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 536-695 2.24e-25

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 103.04  E-value: 2.24e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQAIEWPLLHADKFQRLgIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESER 615
Cdd:cd19523   1 DIAGLGALKAAIKEEVLWPLLRPDAFSGL-LRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEK 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 616 AVREVFRKARQVAPAIVFFDEIDAIGGERSEGDGSSSgssvkeRVLTQLLTELDGV--EALQNVTIVAATNRPDMIDKAL 693
Cdd:cd19523  80 ILQASFLAARCRQPSVLFISDLDALLSSQDDEASPVG------RLQVELLAQLDGVlgSGEDGVLVVCTTSKPEEIDESL 153


                ..
gi 19921202 694 LR 695
Cdd:cd19523 154 RR 155
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
300-518 3.56e-25

Predicted ATPase, AAA+ superfamily [General function prediction only];


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 104.97  E-value: 3.56e-25
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 300 GLRVSRGLLLYGATGCGKSMVLEAMCavaeerSQGHVQLIRINSGEVYSKFLGETEQKLGAIFERAYNhypHPTLLLIED 379
Cdd:COG1223  31 GLWPPRKILFYGPPGTGKTMLAEALA------GELKLPLLTVRLDSLIGSYLGETARNLRKLFDFARR---APCVIFFDE 101

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 380 VHNLC----PKQENSDlVKRVSLAFLSLLDQLSSPSqlkgsktFVLATSSQIDTLHPSIRRagRLDNEVELGAPSSQARL 455
Cdd:COG1223 102 FDAIAkdrgDQNDVGE-VKRVVNALLQELDGLPSGS-------VVIAATNHPELLDSALWR--RFDEVIEFPLPDKEERK 171

                       170       180       190       200       210       220
                ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19921202 456 EIVRCLIKSVEHQLsDEEVEHVASITHGYVGADLANLVYAAMLQA---QPNPLQMPHLQAALTRIK 518
Cdd:COG1223 172 EILELNLKKFPLPF-ELDLKKLAKKLEGLSGADIEKVLKTALKKAileDREKVTKEDLEEALKQRK 236
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 295-446 3.05e-24

proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410889 [Multi-domain]  Cd Length: 158  Bit Score: 99.66  E-value: 3.05e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 295 RTLPAGLRVSRGLLLYGATGCGKSMVLEAMCAVAeersqgHVQLIRINSGEVYSKFLGETEQKLGAIFERAYNHYPHptL 374
Cdd:cd19481  17 RLRRYGLGLPKGILLYGPPGTGKTLLAKALAGEL------GLPLIVVKLSSLLSKYVGESEKNLRKIFERARRLAPC--I 88

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 19921202 375 LLIEDVHNLCPKQENSDLVKRVSLAFLSLLDQLSSPSQLKGSktFVLATSSQIDTLHPSIRRAGRLDNEVEL 446
Cdd:cd19481  89 LFIDEIDAIGRKRDSSGESGELRRVLNQLLTELDGVNSRSKV--LVIAATNRPDLLDPALLRPGRFDEVIEF 158
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 536-705 4.41e-24

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 99.37  E-value: 4.41e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 536 DIGGQSELRLAMQQ-AIEWpllhADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWVGESE 614
Cdd:cd19507   1 DVGGLDNLKDWLKKrKAAF----SKQASAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESE 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 615 RAVREVFRKARQVAPAIVFFDEID-AIGGersegDGSSSGSSVKERVLTQLLTELDgvEALQNVTIVAATNRPDMIDKAL 693
Cdd:cd19507  77 SRLRQMIQTAEAIAPCVLWIDEIEkGFSN-----ADSKGDSGTSSRVLGTFLTWLQ--EKKKPVFVVATANNVQSLPPEL 149

                       170
                ....*....|..
gi 19921202 694 LRPGRIDRILYV 705
Cdd:cd19507 150 LRKGRFDEIFFV 161
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 274-446 7.29e-24

first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410926 [Multi-domain]  Cd Length: 169  Bit Score: 99.02  E-value: 7.29e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALGFRTLPA--GLRVSRGLLLYGATGCGKSMVLEAmcaVAEERSqghVQLIRINSGEVYSKFL 351
Cdd:cd19518   2 IGGMDSTLKELCELLIHPILPPEYFQhlGVEPPRGVLLHGPPGCGKTMLANA---IAGELK---VPFLKISATEIVSGVS 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 352 GETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQENS--DLVKRVSLAFLSLLDQLSSPSQlKGSKTFVLATSSQIDT 429
Cdd:cd19518  76 GESEEKIRELFDQAISN--APCIVFIDEIDAITPKRESAqrEMERRIVSQLLTCMDELNNEKT-AGGPVLVIGATNRPDS 152

                       170
                ....*....|....*..
gi 19921202 430 LHPSIRRAGRLDNEVEL 446
Cdd:cd19518 153 LDPALRRAGRFDREICL 169
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 274-447 8.45e-24

first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the first of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r1-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410927 [Multi-domain]  Cd Length: 166  Bit Score: 98.66  E-value: 8.45e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALG----FRTLpaGLRVSRGLLLYGATGCGKSMVLEAmcaVAEERSqghVQLIRINSGEVYSK 349
Cdd:cd19519   2 IGGCRKQLAQIREMVELPLRhpelFKAI--GIKPPRGILLYGPPGTGKTLIARA---VANETG---AFFFLINGPEIMSK 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 350 FLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQE--NSDLVKRVSLAFLSLLDQLSSPSQLkgsktFVLATSSQI 427
Cdd:cd19519  74 LAGESESNLRKAFEEAEKN--APAIIFIDEIDAIAPKREktHGEVERRIVSQLLTLMDGLKQRAHV-----IVMAATNRP 146

                       170       180
                ....*....|....*....|
gi 19921202 428 DTLHPSIRRAGRLDNEVELG 447
Cdd:cd19519 147 NSIDPALRRFGRFDREIDIG 166
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 307-447 2.98e-18

ATPase family associated with various cellular activities (AAA); AAA family proteins often perform chaperone-like functions that assist in the assembly, operation, or disassembly of protein complexes.


Pssm-ID: 459627 [Multi-domain]  Cd Length: 130  Bit Score: 81.49  E-value: 2.98e-18
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   307 LLLYGATGCGKSMVLEAMCAVAeersqgHVQLIRINSGEVYSKFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPK 386
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKEL------GAPFIEISGSELVSKYVGESEKRLRELFEAAKKL--APCVIFIDEIDALAGS 72

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 19921202   387 QE--NSDLVKRVSLAFLSLLDQLSSpsqlKGSKTFVLATSSQIDTLHPSIRraGRLDNEVELG 447
Cdd:pfam00004  73 RGsgGDSESRRVVNQLLTELDGFTS----SNSKVIVIAATNRPDKLDPALL--GRFDRIIEFP 129
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 282-445 3.94e-18

second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as Peroxin-1)/PEX6 is a protein unfoldase; PEX1 and PEX6 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. PEX-1 is required for stability of PEX5. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410934 [Multi-domain]  Cd Length: 158  Bit Score: 82.09  E-value: 3.94e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 282 QLVEESME----YALGFRTLPagLRVSRGLLLYGATGCGKSMVLEAMCavaeerSQGHVQLIRINSGEVYSKFLGETEQK 357
Cdd:cd19526   3 KALEETIEwpskYPKIFASSP--LRLRSGILLYGPPGCGKTLLASAIA------SECGLNFISVKGPELLNKYIGASEQN 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 358 LGAIFERAynHYPHPTLLLIEDVHNLCPK--QENSDLVKRVSLAFLSLLDQLSSpsqLKGskTFVLATSSQIDTLHPSIR 435
Cdd:cd19526  75 VRDLFSRA--QSAKPCILFFDEFDSIAPKrgHDSTGVTDRVVNQLLTQLDGVEG---LDG--VYVLAATSRPDLIDPALL 147

                       170
                ....*....|
gi 19921202 436 RAGRLDNEVE 445
Cdd:cd19526 148 RPGRLDKLVY 157
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 282-441 1.46e-16

second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase domains; This subfamily includes the second of two ATPase domains of the molecular chaperone CDC48 in yeast and p97 or VCP in metazoans, Peroxisomal biogenesis factor 1 (PEX1) and -6 (PEX6), Valosin-containing protein-like ATPase (VAT), and nuclear VCP-like protein (NVL). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410919 [Multi-domain]  Cd Length: 159  Bit Score: 77.71  E-value: 1.46e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 282 QLVEESMEYALGFRTLpaGLRVSRGLLLYGATGCGKSMVLEAMCavaeerSQGHVQLIRINSGEVYSKFLGETEQKLGAI 361
Cdd:cd19511   7 EAVEWPLKHPDAFKRL--GIRPPKGVLLYGPPGCGKTLLAKALA------SEAGLNFISVKGPELFSKYVGESERAVREI 78

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 362 FERAYNhyPHPTLLLIEDVHNLCPKQENSDLVKrVSLAFLS-LLDQLSSPSQLKGskTFVLATSSQIDTLHPSIRRAGRL 440
Cdd:cd19511  79 FQKARQ--AAPCIIFFDEIDSLAPRRGQSDSSG-VTDRVVSqLLTELDGIESLKG--VVVIAATNRPDMIDPALLRPGRL 153


                .
gi 19921202 441 D 441
Cdd:cd19511 154 D 154
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 273-445 4.22e-16

proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily contains ATPase subunits of the eukaryotic 26S proteasome, and of the archaeal proteasome which carry out ATP-dependent degradation of substrates of the ubiquitin-proteasome pathway. The eukaryotic 26S proteasome consists of a proteolytic 20S core particle (CP), and a 19S regulatory particle (RP) which provides the ATP-dependence and the specificity for ubiquitinated proteins. In the archaea the RP is a homohexameric complex of proteasome-activating nucleotidase (PAN). This subfamily also includes various eukaryotic 26S subunits including, proteasome 26S subunit, ATPase 2 (PSMC2, also known as S7 and MSS1) which is a member of the 19S RP and has a chaperone like activity; and proteasome 20S subunit alpha 6 (PSMA6, also known as IOTA, p27K, and PROS27) which is a member of the 20S CP. This RecA-like_PAN subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410910 [Multi-domain]  Cd Length: 171  Bit Score: 76.61  E-value: 4.22e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 273 QIGGLDRQLQLVEESMEYALG----FRTLpaGLRVSRGLLLYGATGCGKSMVLEAmcaVAeerSQGHVQLIRINSGEVYS 348
Cdd:cd19502   4 DIGGLDEQIREIREVVELPLKhpelFEEL--GIEPPKGVLLYGPPGTGKTLLAKA---VA---NHTDATFIRVVGSELVQ 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 349 KFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQENSDL-----VKRVSLAFLSLLDQLSSPSQLKgsktfVLAT 423
Cdd:cd19502  76 KYIGEGARLVRELFEMAREK--APSIIFIDEIDAIGAKRFDSGTggdreVQRTMLELLNQLDGFDPRGNIK-----VIMA 148

                       170       180
                ....*....|....*....|..
gi 19921202 424 SSQIDTLHPSIRRAGRLDNEVE 445
Cdd:cd19502 149 TNRPDILDPALLRPGRFDRKIE 170
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 269-500 9.20e-16

26S protease regulatory subunit 6B-like protein; Provisional


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 80.19  E-value: 9.20e-16
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  269 ITKCQIGGLDRQLQLVEESMEYALGFRTLPA--GLRVSRGLLLYGATGCGKSMVLEamcAVAEERSqghVQLIRINSGEV 346
Cdd:PTZ00454 142 VTYSDIGGLDIQKQEIREAVELPLTCPELYEqiGIDPPRGVLLYGPPGTGKTMLAK---AVAHHTT---ATFIRVVGSEF 215

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  347 YSKFLGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPK----QENSDL-VKRVSLAFLSLLDQLSSPSQLKgsktfVL 421
Cdd:PTZ00454 216 VQKYLGEGPRMVRDVFRLAREN--APSIIFIDEVDSIATKrfdaQTGADReVQRILLELLNQMDGFDQTTNVK-----VI 288

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  422 ATSSQIDTLHPSIRRAGRLDNEVELGAPS-SQARLEIVRCLIKSvehQLSDE-EVEHVASITHGYVGADLANLVYAAMLQ 499
Cdd:PTZ00454 289 MATNRADTLDPALLRPGRLDRKIEFPLPDrRQKRLIFQTITSKM---NLSEEvDLEDFVSRPEKISAADIAAICQEAGMQ 365


                 .
gi 19921202  500 A 500
Cdd:PTZ00454 366 A 366
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 568-708 2.06e-15

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 73.95  E-value: 2.06e-15
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202    568 PPRGILMFGPPGCSKTMIAKALATESKLN---FLSIKGPELFS--------------MWVGESERAVREVFRKARQVAPA 630
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEDILEevldqllliivggkKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19921202    631 IVFFDEIDAIGGERSEgdgsssgssvKERVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPgRIDRILYVGLP 708
Cdd:smart00382  81 VLILDEITSLLDAEQE----------ALLLLLEELRLLLLLKSEKNLTVILTTNDEKDLGPALLRR-RFDRRIVLLLI 147
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 273-493 4.85e-15

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 77.95  E-value: 4.85e-15
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  273 QIGGLDRQLQLVEESMEYALG----FRTLpaGLRVSRGLLLYGATGCGKSMVLEamcAVAeerSQGHVQLIRINSGEVYS 348
Cdd:PRK03992 132 DIGGLEEQIREVREAVELPLKkpelFEEV--GIEPPKGVLLYGPPGTGKTLLAK---AVA---HETNATFIRVVGSELVQ 203

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  349 KFLGEteqklGA-----IFERAYNHypHPTLLLIEDVHNLCPKQENSDL-----VKRVSLAFLSLLDQLSSPSQLKgskt 418
Cdd:PRK03992 204 KFIGE-----GArlvreLFELAREK--APSIIFIDEIDAIAAKRTDSGTsgdreVQRTLMQLLAEMDGFDPRGNVK---- 272

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19921202  419 fVLATSSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRclIKSVEHQLSDE-EVEHVASITHGYVGADLANLV 493
Cdd:PRK03992 273 -IIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILK--IHTRKMNLADDvDLEELAELTEGASGADLKAIC 345
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 273-443 6.68e-15

ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces cerevisiae Yta7 is a chromatin-associated AAA-ATPase involved in regulation of chromatin dynamics. Its human ortholog ANCCA/ATAD2 transcriptionally activates pathways of malignancy in a broad range of cancers. The RecA-like_Yta7 subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410925 [Multi-domain]  Cd Length: 170  Bit Score: 73.31  E-value: 6.68e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 273 QIGGLDRQLQLVEESMEYALGFRTLPAGLRVS--RGLLLYGATGCGKSMVLEAMCAVAEERSQGHVQLIRiNSGEVYSKF 350
Cdd:cd19517   1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFKITppRGVLFHGPPGTGKTLMARALAAECSKGGQKVSFFMR-KGADCLSKW 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 351 LGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCP----KQE--NSDLVKrvslAFLSLLDQLSSPSQLkgsktFVLATS 424
Cdd:cd19517  80 VGEAERQLRLLFEEAYRM--QPSIIFFDEIDGLAPvrssKQEqiHASIVS----TLLALMDGLDNRGQV-----VVIGAT 148

                       170
                ....*....|....*....
gi 19921202 425 SQIDTLHPSIRRAGRLDNE 443
Cdd:cd19517 149 NRPDALDPALRRPGRFDRE 167
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 273-441 1.02e-14

ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of photosynthesis in cyanobacteria, especially in CO2 uptake and utilization. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410915 [Multi-domain]  Cd Length: 161  Bit Score: 72.40  E-value: 1.02e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 273 QIGGLDrQLQLVEESMEYALGFRTLPAGLRVSRGLLLYGATGCGKSMVLEAMCAVAeersqgHVQLIRINSGEVYSKFLG 352
Cdd:cd19507   1 DVGGLD-NLKDWLKKRKAAFSKQASAYGLPTPKGLLLVGIQGTGKSLTAKAIAGVW------QLPLLRLDMGRLFGGLVG 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 353 ETEQKLGAIFERAynHYPHPTLLLIEDVHNLCPKQEN---SDLVKRVSLAFLSLLdqlsspsQLKGSKTFVLATSSQIDT 429
Cdd:cd19507  74 ESESRLRQMIQTA--EAIAPCVLWIDEIEKGFSNADSkgdSGTSSRVLGTFLTWL-------QEKKKPVFVVATANNVQS 144

                       170
                ....*....|..
gi 19921202 430 LHPSIRRAGRLD 441
Cdd:cd19507 145 LPPELLRKGRFD 156
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 282-441 1.13e-14

second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ATPase domains; The Valosin-containing protein-like ATPase of Thermoplasma acidophilum (VAT), is an archaeal homolog of the ubiquitous Cdc48/p97. It is a protein unfoldase that functions in concert with the 20S proteasome by unfolding proteasome substrates and passing them on for degradation. VAT forms a homohexamer, each monomer contains two tandem ATPase domains, referred to as D1 and D2, and an N-terminal domain. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410937 [Multi-domain]  Cd Length: 159  Bit Score: 72.14  E-value: 1.13e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 282 QLVEESMEYALGFRTL--PAGLRVSRGLLLYGATGCGKSMVLEamcAVAeerSQGHVQLIRINSGEVYSKFLGETEQKLG 359
Cdd:cd19529   3 QELKEAVEWPLLKPEVfkRLGIRPPKGILLYGPPGTGKTLLAK---AVA---TESNANFISVKGPELLSKWVGESEKAIR 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 360 AIFERAYNhyPHPTLLLIEDVHNLCPKQ---ENSDLVKRVSLAFLSLLDQLSSPsqlkgSKTFVLATSSQIDTLHPSIRR 436
Cdd:cd19529  77 EIFRKARQ--VAPCVIFFDEIDSIAPRRgttGDSGVTERVVNQLLTELDGLEEM-----NGVVVIAATNRPDIIDPALLR 149


                ....*
gi 19921202 437 AGRLD 441
Cdd:cd19529 150 AGRFD 154
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 300-442 6.51e-14

second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL exists in two forms with N-terminal extensions of different lengths in mammalian cells. NVL has two alternatively spliced isoforms, a short form, NVL1, and a long form, NVL2. NVL2, the major species, is mainly present in the nucleolus, whereas NVL1 is nucleoplasmic. Each has an N-terminal domain, followed by two tandem ATPase domains; this subfamily includes the first of the two ATPase domains. NVL2 is involved in the biogenesis of the 60S ribosome subunit by associating specifically with ribosome protein L5 and modulating the function of DOB1. NVL2 is also required for telomerase assembly and the regulation of telomerase activity, and is involved in pre-rRNA processing. The role of NVL1 is unclear. This RecA-like_NVL_r1-like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410938 [Multi-domain]  Cd Length: 161  Bit Score: 70.21  E-value: 6.51e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 300 GLRVSRGLLLYGATGCGKSMVLEamcAVAEERSqghVQLIRINSGEVYSKFLGETEQKLGAIFERAYNhyPHPTLLLIED 379
Cdd:cd19530  26 GIDLPTGVLLYGPPGCGKTLLAK---AVANESG---ANFISVKGPELLNKYVGESERAVRQVFQRARA--SAPCVIFFDE 97

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 19921202 380 VHNLCPKQ--ENSDLVKRVSLAFLSLLDQLSspsqlKGSKTFVLATSSQIDTLHPSIRRAGRLDN 442
Cdd:cd19530  98 VDALVPKRgdGGSWASERVVNQLLTEMDGLE-----ERSNVFVIAATNRPDIIDPAMLRPGRLDK 157
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 558-705 8.06e-14

Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of mitochondrial respiratory chain complex III and plays an important role in the maintenance of mitochondrial tubular networks, respiratory chain assembly and formation of the LETM1 complex. RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410918 [Multi-domain]  Cd Length: 153  Bit Score: 69.69  E-value: 8.06e-14
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 558 ADKFQRLGIKPPRGILMFGPPGCSKTMIAKALATESKLNF--LSIkgpelfsmwvgeSERAVREvFRKAR--QVAP--AI 631
Cdd:cd19510  12 EDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDIcdLNL------------SEVVLTD-DRLNHllNTAPkqSI 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 19921202 632 VFFDEIDAIGGERSEGDGSSSGSSVKERV-LTQLLTELDGVEALQNVTIVAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:cd19510  79 ILLEDIDAAFESREHNKKNPSAYGGLSRVtFSGLLNALDGVASSEERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 274-457 3.49e-13

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 72.50  E-value: 3.49e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  274 IGGLDRQLQLVEESMEYALGFRTL--PAGLRVSRGLLLYGATGCGKSMVLEamcAVAEERSqghVQLIRINSGEVYSKFL 351
Cdd:PTZ00361 185 IGGLEQQIQEIKEAVELPLTHPELydDIGIKPPKGVILYGPPGTGKTLLAK---AVANETS---ATFLRVVGSELIQKYL 258

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  352 GETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQENSDL-----VKRVSLAFLSLLDQLSSPSQLKgsktfVLATSSQ 426
Cdd:PTZ00361 259 GDGPKLVRELFRVAEEN--APSIVFIDEIDAIGTKRYDATSggekeIQRTMLELLNQLDGFDSRGDVK-----VIMATNR 331

                        170       180       190
                 ....*....|....*....|....*....|.
gi 19921202  427 IDTLHPSIRRAGRLDNEVELGAPSSQARLEI 457
Cdd:PTZ00361 332 IESLDPALIRPGRIDRKIEFPNPDEKTKRRI 362
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
268-527 7.30e-13

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 71.99  E-value: 7.30e-13
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  268 RITKCQIGGLDRQLQLVEESMEYALG---FRTLpaGLRVSRGLLLYGATGCGKSMVLEAMCAVAEersqghVQLIRINSG 344
Cdd:PRK10733 148 KTTFADVAGCDEAKEEVAELVEYLREpsrFQKL--GGKIPKGVLMVGPPGTGKTLLAKAIAGEAK------VPFFTISGS 219

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  345 EVYSKFLGETEQKLGAIFERAYNhyPHPTLLLIEDVhNLCPKQENSDLVKRVSLAFLSLLDQLSSPSQLKGSK-TFVLAT 423
Cdd:PRK10733 220 DFVEMFVGVGASRVRDMFEQAKK--AAPCIIFIDEI-DAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEgIIVIAA 296

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  424 SSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVEHQlSDEEVEHVASITHGYVGADLANLV-YAAMLQAQP 502
Cdd:PRK10733 297 TNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLA-PDIDAAIIARGTPGFSGADLANLVnEAALFAARG 375

                        250       260
                 ....*....|....*....|....*..
gi 19921202  503 NP--LQMPHLQAALTRIKPSAMREVLI 527
Cdd:PRK10733 376 NKrvVSMVEFEKAKDKIMMGAERRSMV 402
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 570-705 5.02e-12

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 65.55  E-value: 5.02e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 570 RGILMFGPPGCSKTMIAKALA---------TESKLNFLSIKGPELFSMWVGESERAVREVFRKARQVAP---AIVF--FD 635
Cdd:cd19508  53 RLVLLHGPPGTGKTSLCKALAqklsirlssRYRYGQLIEINSHSLFSKWFSESGKLVTKMFQKIQELIDdkdALVFvlID 132

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 636 EIDAIGGERSEGDGSSSGSSVKeRVLTQLLTELDGVEALQNVTIVAATNRPDMIDKALLrpGRIDRILYV 705
Cdd:cd19508 133 EVESLAAARSASSSGTEPSDAI-RVVNAVLTQIDRIKRYHNNVILLTSNLLEKIDVAFV--DRADIKQYI 199
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 729-775 7.07e-12

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 60.63  E-value: 7.07e-12
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*..
gi 19921202   729 DVDMEKLVQLTEGYSGAEIQAVCHEAALRALEQSFEAedVKWTDFEH 775
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAALRRGLEA--VTQEDLEE 45
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 279-441 3.45e-11

second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP in metazoans is an ATP-dependent molecular chaperone which plays an essential role in many cellular processes, by segregating polyubiquitinated proteins from complexes or membranes. Cdc48/p97 consists of an N-terminal domain and two ATPase domains; this subfamily represents the second of the two ATPase domains. CDC48's roles include in the fragmentation of Golgi stacks during mitosis and for their reassembly after mitosis, and in the formation of the nuclear envelope, and of the transitional endoplasmic reticulum (tER). This RecA-like_cdc48_r2-like subfamily belongs to the RecA-like family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410936 [Multi-domain]  Cd Length: 161  Bit Score: 62.14  E-value: 3.45e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 279 RQLQ-LVEESMEYALGFrtLPAGLRVSRGLLLYGATGCGKSMVLEamcAVAEERSqghVQLIRINSGEVYSKFLGETEQK 357
Cdd:cd19528   3 RELQeLVQYPVEHPDKF--LKFGMTPSKGVLFYGPPGCGKTLLAK---AIANECQ---ANFISVKGPELLTMWFGESEAN 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 358 LGAIFERAynHYPHPTLLLIEDVHNLCPKQ-----ENSDLVKRVSLAFLSLLDQLSSPSQLkgsktFVLATSSQIDTLHP 432
Cdd:cd19528  75 VRDIFDKA--RAAAPCVLFFDELDSIAKARggnigDAGGAADRVINQILTEMDGMNTKKNV-----FIIGATNRPDIIDP 147


                ....*....
gi 19921202 433 SIRRAGRLD 441
Cdd:cd19528 148 AILRPGRLD 156
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 274-436 4.05e-11

ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This subfamily includes the ATPase domains of vacuolar protein sorting-associated protein 4 (VPS4), ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase), Katanin p60 ATPase-containing subunit A1 (KTNA1), Spastin, and Fidgetin-Like 1 (FIGL-1). This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410917 [Multi-domain]  Cd Length: 163  Bit Score: 61.98  E-value: 4.05e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALGFRTLPAGLR-VSRGLLLYGATGCGKSMVLEamcAVAeerSQGHVQLIRINSGEVYSKFLG 352
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRgPPRGILLYGPPGTGKTLLAR---AVA---SESGSTFFSISASSLVSKWVG 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 353 ETEQKLGAIFERAyNHYpHPTLLLIEDVHNLCPKQENSDL--VKRVSLAFLSLLDQLSSPSqlkGSKTFVLATSSQIDTL 430
Cdd:cd19509  75 ESEKIVRALFALA-REL-QPSIIFIDEIDSLLSERGSGEHeaSRRVKTEFLVQMDGVLNKP---EDRVLVLGATNRPWEL 149


                ....*.
gi 19921202 431 HPSIRR 436
Cdd:cd19509 150 DEAFLR 155
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 274-436 2.06e-10

ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein sorting-associated protein 4 (Vps4) is believed to be involved in intracellular protein transport out of a prevacuolar endosomal compartment. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410929 [Multi-domain]  Cd Length: 170  Bit Score: 60.26  E-value: 2.06e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALGFRTLPAGLRVS-RGLLLYGATGCGKSMVLEamcAVAEERSQghvQLIRINSGEVYSKFLG 352
Cdd:cd19521   9 VAGLEGAKEALKEAVILPVKFPHLFTGNRKPwSGILLYGPPGTGKSYLAK---AVATEANS---TFFSVSSSDLVSKWMG 82

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 353 ETEQKLGAIFERAYNHypHPTLLLIEDVHNLC-PKQEN-SDLVKRVSLAFLSLLDQLSSPSQlkgsKTFVLATSSQIDTL 430
Cdd:cd19521  83 ESEKLVKQLFAMAREN--KPSIIFIDEVDSLCgTRGEGeSEASRRIKTELLVQMNGVGNDSQ----GVLVLGATNIPWQL 156


                ....*.
gi 19921202 431 HPSIRR 436
Cdd:cd19521 157 DSAIRR 162
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 297-441 2.75e-10

second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as Peroxin61)/PEX1 is a protein unfoldase; PEX6 and PEX1 form a heterohexameric Type-2 AAA-ATPase complex and are essential for peroxisome biogenesis as they are required for the import of folded proteins into the peroxisomal matrix. This subfamily represents the second ATPase domain of PEX6. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410935 [Multi-domain]  Cd Length: 160  Bit Score: 59.45  E-value: 2.75e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 297 LPAGLRVSRGLLLYGATGCGKSMVLEamcAVAEERSqghVQLIRINSGEVYSKFLGETEQKLGAIFERAYNhyPHPTLLL 376
Cdd:cd19527  19 FSSGLRKRSGILLYGPPGTGKTLLAK---AIATECS---LNFLSVKGPELINMYIGESEANVREVFQKARD--AKPCVIF 90

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 19921202 377 IEDVHNLCPKQENS----DLVKRVSLAFLSLLDQLSSpsqlKGSKTFVLATSSQIDTLHPSIRRAGRLD 441
Cdd:cd19527  91 FDELDSLAPSRGNSgdsgGVMDRVVSQLLAELDGMSS----SGQDVFVIGATNRPDLLDPALLRPGRFD 155
ycf46 CHL00195
Ycf46; Provisional
 274-500 4.63e-10

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 62.73  E-value: 4.63e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  274 IGGLD--------RQLQLVEESMEYalgfrtlpaGLRVSRGLLLYGATGCGKSMVLEAMCavaeerSQGHVQLIRINSGE 345
Cdd:CHL00195 230 IGGLDnlkdwlkkRSTSFSKQASNY---------GLPTPRGLLLVGIQGTGKSLTAKAIA------NDWQLPLLRLDVGK 294

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  346 VYSKFLGETEQKLGAIFERAynHYPHPTLLLIEDVHNLCPKQEN---SDLVKRVSLAFLSLLDQLSSPsqlkgskTFVLA 422
Cdd:CHL00195 295 LFGGIVGESESRMRQMIRIA--EALSPCILWIDEIDKAFSNSESkgdSGTTNRVLATFITWLSEKKSP-------VFVVA 365

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 19921202  423 TSSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVE-HQLSDEEVEHVASITHGYVGADLANLVYAAMLQA 500
Cdd:CHL00195 366 TANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRpKSWKKYDIKKLSKLSNKFSGAEIEQSIIEAMYIA 444
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 301-447 3.12e-09

The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.


Pssm-ID: 99707 [Multi-domain]  Cd Length: 151  Bit Score: 56.39  E-value: 3.12e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 301 LRVSRGLLLYGATGCGKSMVleaMCAVAEERSQGHVQLIRINSGEVYSKFLGETEQKLGAIF-ERAYNHYPHPTLLLIED 379
Cdd:cd00009  16 LPPPKNLLLYGPPGTGKTTL---ARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRlLFELAEKAKPGVLFIDE 92

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 19921202 380 VHnlcpkqensDLVKRVSLAFLSLLDQLsSPSQLKGSKTFVLATSSQIDTLHPSIRRAGRLDNEVELG 447
Cdd:cd00009  93 ID---------SLSRGAQNALLRVLETL-NDLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIP 150
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 274-436 4.97e-09

ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ATPase family AAA domain-containing protein 1 (ATAD1, also known as Thorase) is an ATPase that plays a critical role in regulating the surface expression of alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors, thereby regulating synaptic plasticity, learning and memory. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410928 [Multi-domain]  Cd Length: 166  Bit Score: 56.28  E-value: 4.97e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALGFRTLPAG---LRVSRGLLLYGATGCGKSMVLEAMCAVAEERsqghvqLIRINSGEVYSKF 350
Cdd:cd19520   2 IGGLDEVITELKELVILPLQRPELFDNsrlLQPPKGVLLYGPPGCGKTMLAKATAKEAGAR------FINLQVSSLTDKW 75

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 351 LGETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQENSD--LVKRVSLAFLSLLDQLSSPSQlkgSKTFVLATSSQID 428
Cdd:cd19520  76 YGESQKLVAAVFSLASKL--QPSIIFIDEIDSFLRQRSSTDheATAMMKAEFMSLWDGLSTDGN---CRVIVMGATNRPQ 150


                ....*...
gi 19921202 429 TLHPSIRR 436
Cdd:cd19520 151 DLDEAILR 158
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 274-444 3.50e-08

Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is the catalytic subunit of the Katanin complex which is severs microtubules in an ATP-dependent manner, and is implicated in multiple aspects of microtubule dynamics. In addition to the p60 catalytic ATPase subunit, Katanin contains an accessory subunit (p80 or p80-like). The microtubule-severing activity of the ATPase is essential for female meiotic spindle assembly, and male gamete production; and the katanin complex severing microtubules is under tight regulation during the transition from the meiotic to mitotic stage to allow proper embryogenesis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410930 [Multi-domain]  Cd Length: 170  Bit Score: 53.83  E-value: 3.50e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESM-------EYALGFRtlpaglRVSRGLLLYGATGCGKSMVLEAmcaVAEERSqghVQLIRINSGEV 346
Cdd:cd19522   2 IADLEEAKKLLEEAVvlpmwmpEFFKGIR------RPWKGVLMVGPPGTGKTLLAKA---VATECG---TTFFNVSSSTL 69

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 347 YSKFLGETEQKLGAIFERAynHYPHPTLLLIEDVHNLCPKQENSD---LVKRVSLAFLSLLDQLSSPSQLKGSKTFVL-- 421
Cdd:cd19522  70 TSKYRGESEKLVRLLFEMA--RFYAPTTIFIDEIDSICSRRGTSEeheASRRVKSELLVQMDGVGGASENDDPSKMVMvl 147

                       170       180
                ....*....|....*....|....
gi 19921202 422 -ATSSQIDtLHPSIRRagRLDNEV 444
Cdd:cd19522 148 aATNFPWD-IDEALRR--RLEKRI 168
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 570-703 9.09e-08

ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase domains; ATPase AAA-domain protein 3 (ATAD3) is a ubiquitously expressed mitochondrial protein involved in mitochondrial dynamics, DNA-nucleoid structural organization, cholesterol transport and steroidogenesis. The ATAD3 gene family in human comprises three paralog genes: ATAD3A, ATAD3B and ATAD3C. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410920 [Multi-domain]  Cd Length: 150  Bit Score: 52.14  E-value: 9.09e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 570 RGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMWvGESERAVREVFRKARQVAPA-IVFFDEIDAIGGERSegd 648
Cdd:cd19512  23 RNILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMG-REGVTAIHKVFDWANTSRRGlLLFVDEADAFLRKRS--- 98

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 649 gsssgssvKERVLTQLLTELDGV-----EALQNVTIVAATNRPDMIDKALlrPGRIDRIL 703
Cdd:cd19512  99 --------TEKISEDLRAALNAFlyrtgEQSNKFMLVLASNQPEQFDWAI--NDRIDEMV 148
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 305-449 1.50e-07

ATPases associated with a variety of cellular activities; AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 51.61  E-value: 1.50e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202    305 RGLLLYGATGCGKSMVLEAMC-----------AVAEERSQGHVQLIRINSGEVYSKFLGETEQKLGAIFERAynHYPHPT 373
Cdd:smart00382   3 EVILIVGPPGSGKTTLARALArelgppgggviYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRLALALA--RKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 19921202    374 LLLIEDVHNLCPKQENSDLVKRVSLAFLSLLdqlsspsQLKGSKTFVLATSSQIDTLHPSIRRagRLDNEVELGAP 449
Cdd:smart00382  81 VLILDEITSLLDAEQEALLLLLEELRLLLLL-------KSEKNLTVILTTNDEKDLGPALLRR--RFDRRIVLLLI 147
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 274-409 7.61e-07

ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in microtubule dynamics; it specifically recognizes and cuts microtubules that are polyglutamylated. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410932 [Multi-domain]  Cd Length: 164  Bit Score: 49.85  E-value: 7.61e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALGFRTLPAGLRV-SRGLLLYGATGCGKSMVLEamcAVAEERSqghVQLIRINSGEVYSKFLG 352
Cdd:cd19524   2 IAGQDLAKQALQEMVILPSLRPELFTGLRApARGLLLFGPPGNGKTMLAK---AVAAESN---ATFFNISAASLTSKYVG 75

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 19921202 353 ETEQKLGAIFERAYNHypHPTLLLIEDVHN-LCPKQEN-SDLVKRVSLAFLSLLDQLSS 409
Cdd:cd19524  76 EGEKLVRALFAVAREL--QPSIIFIDEVDSlLSERSEGeHEASRRLKTEFLIEFDGVQS 132
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 563-705 1.16e-06

ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; however, its function remains unclear. The gene encoding YCF2 is the largest known plastid gene in angiosperms and has been used to predict phylogenetic relationships. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410913 [Multi-domain]  Cd Length: 161  Bit Score: 49.30  E-value: 1.16e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 563 RLGIKPPRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSMW--------------VGESERAVREVFRKARQVA 628
Cdd:cd19505   6 RLGLSPSKGILLIGSIETGRSYLIKSLAANSYVPLIRISLNKLLYNKpdfgnddwidgmliLKESLHRLNLQFELAKAMS 85

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 19921202 629 PAIVFFDEIDAIGGERSEGDGSSSGSSVKERVLTQLLTELDGVEALQNVTIvAATNRPDMIDKALLRPGRIDRILYV 705
Cdd:cd19505  86 PCIIWIPNIHELNVNRSTQNLEEDPKLLLGLLLNYLSRDFEKSSTRNILVI-ASTHIPQKVDPALIAPNRLDTCINI 161
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 537-640 4.16e-06

ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease HslVU. In HslVU, HslU ATPase serves to unfold and translocate protein substrate, and the HslV protease degrades the unfolded proteins. This RecA-like_HslU subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410906 [Multi-domain]  Cd Length: 183  Bit Score: 48.14  E-value: 4.16e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 537 IGGQSELRLAMQQAI--EWPLLHADKFQRLGIKPpRGILMFGPPGCSKTMIAKALATESKLNFLSIKGPELFSM-WVGes 613
Cdd:cd19498  13 IIGQDEAKRAVAIALrnRWRRMQLPEELRDEVTP-KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATKFTEVgYVG-- 89

                        90       100
                ....*....|....*....|....*..
gi 19921202 614 eravREVFRKARQVAPAIVFFDEIDAI 640
Cdd:cd19498  90 ----RDVESIIRDLVEGIVFIDEIDKI 112
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 471-500 4.20e-06

AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the C-terminus of AAA domains.


Pssm-ID: 465537 [Multi-domain]  Cd Length: 45  Bit Score: 44.07  E-value: 4.20e-06
                          10        20        30
                  ....*....|....*....|....*....|
gi 19921202   471 DEEVEHVASITHGYVGADLANLVYAAMLQA 500
Cdd:pfam17862   1 DVDLEELAERTEGFSGADLEALCREAALAA 30
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 274-436 1.42e-05

ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410931 [Multi-domain]  Cd Length: 163  Bit Score: 46.03  E-value: 1.42e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVEESMEYALgFRT--LPAGLRVSRGLLLYGATGCGKSMVLEAMCavaeerSQGHVQLIRINSGEVYSKFL 351
Cdd:cd19523   2 IAGLGALKAAIKEEVLWPL-LRPdaFSGLLRLPRSILLFGPRGTGKTLLGRCLA------SQLGATFLRLRGSTLVAKWA 74

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 352 GETEQKLGAIFERAYNHypHPTLLLIEDVHNLCPKQ-ENSDLVKRVSLAFLSLLDQ-LSSPSQlkgsKTFVLATSSQIDT 429
Cdd:cd19523  75 GEGEKILQASFLAARCR--QPSVLFISDLDALLSSQdDEASPVGRLQVELLAQLDGvLGSGED----GVLVVCTTSKPEE 148


                ....*..
gi 19921202 430 LHPSIRR 436
Cdd:cd19523 149 IDESLRR 155
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 300-436 1.47e-05

ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; it may be involved in DNA double-strand break repair via homologous recombination. Caenorhabditis elegans FIGL-1 is a nuclear protein and controls the mitotic progression in the germ line and mouse FIGL-1 may be involved in the control of male meiosis. human FIGL-1 has been shown to be a centrosome protein involved in ciliogenesis perhaps as a microtubule-severing protein. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410933 [Multi-domain]  Cd Length: 186  Bit Score: 46.52  E-value: 1.47e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 300 GLRVS-RGLLLYGATGCGKSMVleAMCAVaeerSQGHVQLIRINSGEVYSKFLGETEQKLGAIFERAynHYPHPTLLLIE 378
Cdd:cd19525  50 GLRGPpKGILLFGPPGTGKTLI--GKCIA----SQSGATFFSISASSLTSKWVGEGEKMVRALFSVA--RCKQPAVIFID 121

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 379 DVHNLCPKQENS--DLVKRVSLAFLSLLDQLSSPSQlkgSKTFVLATSSQIDTLHPSIRR 436
Cdd:cd19525 122 EIDSLLSQRGEGehESSRRIKTEFLVQLDGATTSSE---DRILVVGATNRPQEIDEAARR 178
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 274-446 1.67e-05

first of two ATPase domains of NSF and SEC18, and similar ATPase domains; N-ethylmaleimide-sensitive factor (NSF) and Saccharomyces cerevisiae Vesicular-fusion protein Sec18, key factors for eukaryotic trafficking, are ATPases and SNARE disassembly chaperones. NSF/Sec18 activate or prime SNAREs, the terminal catalysts of membrane fusion. Sec18/NSF associates with SNARE complexes through binding Sec17/alpha-SNAP. Sec18 has an N-terminal cap domain and two nucleotide-binding domains (D1 and D2) which form the two rings of the hexameric complex. The hydrolysis of ATP by D1 generates most of the energy necessary to disassemble inactive SNARE bundles, while the D2 ring binds ATP to stabilize the homohexamer. This subfamily includes the first (D1) ATPase domain of NSF/Sec18, and belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410912 [Multi-domain]  Cd Length: 177  Bit Score: 45.94  E-value: 1.67e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 274 IGGLDRQLQLVeesMEYALGFRTLPA------GLRVSRGLLLYGATGCGKSMVLEAMCAVAEERSQGHVqliriNSGEVY 347
Cdd:cd19504   2 IGGLDKEFSDI---FRRAFASRVFPPeiveqlGCKHVKGILLYGPPGTGKTLMARQIGKMLNAREPKIV-----NGPEIL 73

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 348 SKFLGETEQKLGAIFERAYNHY----PHPTLLLI--EDVHNLCpKQENS--------DLVKRVSLAFLSLLDQLSSpsql 413
Cdd:cd19504  74 NKYVGESEANIRKLFADAEEEQrrlgANSGLHIIifDEIDAIC-KQRGSmagstgvhDTVVNQLLSKIDGVEQLNN---- 148

                       170       180       190
                ....*....|....*....|....*....|...
gi 19921202 414 kgskTFVLATSSQIDTLHPSIRRAGRLDNEVEL 446
Cdd:cd19504 149 ----ILVIGMTNRKDLIDEALLRPGRLEVQMEI 177
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
428-493 7.28e-05

ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 46.18  E-value: 7.28e-05
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 19921202 428 DTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSVehQLSDE-EVEHVASITHGYVGADLANLV 493
Cdd:COG0465 291 DVLDPALLRPGRFDRQVVVDLPDVKGREAILKVHARKK--PLAPDvDLEVIARRTPGFSGADLANLV 355
ftsH CHL00176
cell division protein; Validated
 420-501 1.48e-04

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 45.43  E-value: 1.48e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  420 VLATSSQIDTLHPSIRRAGRLDNEVELGAPSSQARLEIVRCLIKSvEHQLSDEEVEHVASITHGYVGADLANLV-YAAML 498
Cdd:CHL00176 324 VIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARN-KKLSPDVSLELIARRTPGFSGADLANLLnEAAIL 402


                 ...
gi 19921202  499 QAQ 501
Cdd:CHL00176 403 TAR 405
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 572-637 1.51e-04

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 45.08  E-value: 1.51e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202  572 ILmFGPPGCSKTMIAKALATESKLNFLSIKGpeLFSmwvGESEraVREVFRKARQVAPA----IVFFDEI 637
Cdd:PRK13342  40 IL-WGPPGTGKTTLARIIAGATDAPFEALSA--VTS---GVKD--LREVIEEARQRRSAgrrtILFIDEI 101
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
570-627 3.50e-04

DNA helicase TIP49, TBP-interacting protein [Transcription];


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 43.81  E-value: 3.50e-04
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 19921202 570 RGILMFGPPGCSKTMIAKALATE--SKLNFLSIKGPELFSMWVGESE---RAVREV----FRKARQV 627
Cdd:COG1224  65 KGILIVGPPGTGKTALAVAIARElgEDTPFVAISGSEIYSAELKKTEflmQALRKAigvrVREKRKV 131
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 571-695 5.99e-04

AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400191 [Multi-domain]  Cd Length: 135  Bit Score: 40.74  E-value: 5.99e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   571 GILMFGPPGCSKTMIAKALA-------TESKLN--FLS---IKGPelFSMWVGESERAVREVFRKARQvaPAIVFFDEID 638
Cdd:pfam07728   1 GVLLVGPPGTGKTELAERLAaalsnrpVFYVQLtrDTTeedLFGR--RNIDPGGASWVDGPLVRAARE--GEIAVLDEIN 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 19921202   639 AIGGErsegdgsssgssVKERVLTQL----LTELDGVE----ALQNVTIVAATNRPDM----IDKALLR 695
Cdd:pfam07728  77 RANPD------------VLNSLLSLLderrLLLPDGGElvkaAPDGFRLIATMNPLDRglneLSPALRS 133
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 303-430 6.08e-04

ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as Thyroid hormone receptor interactor 13 (TRIP13) and 16E1BP) is a key regulator of specific chromosomal events, like the control of G2/prophase processes such as DNA break formation and recombination, checkpoint signaling, and chromosome synapsis. This subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion


Pssm-ID: 410916 [Multi-domain]  Cd Length: 199  Bit Score: 41.66  E-value: 6.08e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 303 VSRGLLLYGATGCGKSMVLEAMCAVAEERSQG---HVQLIRINSGEVYSKFLGETEQKLGAIFERAYNHYPHPTLL---L 376
Cdd:cd19508  51 WNRLVLLHGPPGTGKTSLCKALAQKLSIRLSSryrYGQLIEINSHSLFSKWFSESGKLVTKMFQKIQELIDDKDALvfvL 130

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 19921202 377 IEDVHNLCPKQEN-------SDLVkRVSLAFLSLLDQLSspsqlKGSKTFVLATSSQIDTL 430
Cdd:cd19508 131 IDEVESLAAARSAsssgtepSDAI-RVVNAVLTQIDRIK-----RYHNNVILLTSNLLEKI 185
DnaA COG0593
Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];
307-528 6.17e-04

Chromosomal replication initiation ATPase DnaA [Replication, recombination and repair];


Pssm-ID: 440358 [Multi-domain]  Cd Length: 303  Bit Score: 42.49  E-value: 6.17e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 307 LLLYGATGCGKSMVLEAMCAVAEERSQGHVqlIRINSGEvysKFLGETEQKLGAI-FERAYNHYPHPTLLLIEDVHNLCP 385
Cdd:COG0593  37 LFLYGGVGLGKTHLLHAIGNEALENNPGAR--VVYLTAE---EFTNDFINAIRNNtIEEFKEKYRSVDVLLIDDIQFLAG 111

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 386 K---QEnsdlvkrvslAFLSLLDqlsspsQLKGSKTFVLATS----SQIDTLHPSIR---RAGRLdneVELGAPSSQARL 455
Cdd:COG0593 112 KeatQE----------EFFHTFN------ALREAGKQIVLTSdrppKELPGLEERLRsrlEWGLV---VDIQPPDLETRI 172

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 19921202 456 EIVRCLIKSVEHQLSDEEVEHVASITHGYV----GAdLANLVYAAMLQAQpnPLQMPHLQAALTRIKPSAMREVLIE 528
Cdd:COG0593 173 AILRKKAADRGLELPDEVLEYLARRIERNVreleGA-LNRLDAYALLTGR--PITLELAREVLKDLLRAQKKEITIE 246
AAA_22 pfam13401
AAA domain;
307-383 1.30e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 39.63  E-value: 1.30e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202   307 LLLYGATGCGKSMVLEamcAVAEERSQGHVQLIRIN------SGEVYSKFLGE---------TEQKLGAIFERAYNHYPH 371
Cdd:pfam13401   8 LVLTGESGTGKTTLLR---RLLEQLPEVRDSVVFVDlpsgtsPKDLLRALLRAlglplsgrlSKEELLAALQQLLLALAV 84

                          90
                  ....*....|..
gi 19921202   372 PTLLLIEDVHNL 383
Cdd:pfam13401  85 AVVLIIDEAQHL 96
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 537-638 2.09e-03

Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and eukaryotic Heat shock protein 104 (Hsp104) are ATP-dependent molecular chaperones and essential proteins of the heat-shock response. ClpB/Hsp104 ATPases, in concert with the DnaK/Hsp70 chaperone system, disaggregate and reactivate aggregated proteins. This RecA-like_ClpB_Hsp104_like subfamily belongs to the RecA-like NTPase family which includes the NTP binding domain of F1 and V1 H(+)ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. The RecA-like NTPase family also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.


Pssm-ID: 410907 [Multi-domain]  Cd Length: 178  Bit Score: 39.85  E-value: 2.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 537 IGGQSELRLAMQQAIewpllhadKFQRLGIKPPR---GILMF-GPPGCSKTMIAKALATE---SKLNFLSIKGPELFSM- 608
Cdd:cd19499  13 VVGQDEAVKAVSDAI--------RRARAGLSDPNrpiGSFLFlGPTGVGKTELAKALAELlfgDEDNLIRIDMSEYMEKh 84

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 19921202 609 -----------WVGESERAVreVFRKARQVAPAIVFFDEID 638
Cdd:cd19499  85 svsrligappgYVGYTEGGQ--LTEAVRRKPYSVVLLDEIE 123
PRK04195 PRK04195
replication factor C large subunit; Provisional
 535-592 2.27e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 41.44  E-value: 2.27e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*...
gi 19921202  535 SDIGGQSElrlAMQQAIEWpllhADKFQRLgiKPPRGILMFGPPGCSKTMIAKALATE 592
Cdd:PRK04195  14 SDVVGNEK---AKEQLREW----IESWLKG--KPKKALLLYGPPGVGKTSLAHALAND 62
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 572-591 2.78e-03

Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that catalyzes the insertion of Mg2+ into protoporphyrin IX. This is the first unique step in the synthesis of (bacterio)chlorophyll. Due to this, it is thought that Mg-chelatase has an important role in channelling inter- mediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weight between 38-42 kDa.


Pssm-ID: 426032 [Multi-domain]  Cd Length: 207  Bit Score: 39.83  E-value: 2.78e-03
                          10        20
                  ....*....|....*....|
gi 19921202   572 ILMFGPPGCSKTMIAKALAT 591
Cdd:pfam01078  25 LLMIGPPGSGKTMLAKRLPG 44
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 509-591 4.31e-03

Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 440371 [Multi-domain]  Cd Length: 502  Bit Score: 40.41  E-value: 4.31e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 19921202 509 HL--QAALTRIKPSAMREVLIECPNvqWSDIGGQSELRLAMQQAIewpllhAdkfqrlgikpprG---ILMFGPPGCSKT 583
Cdd:COG0606 166 FLrgEQPLPPAEPDAPPAEPPYEPD--LADVKGQEQAKRALEIAA------A------------GghnLLMIGPPGSGKT 225


                ....*...
gi 19921202 584 MIAKALAT 591
Cdd:COG0606 226 MLARRLPG 233
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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