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Conserved domains on  [gi|30680264|ref|NP_179411|]
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P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

Protein Classification

ATP-binding protein( domain architecture ID 16031656)

ATP-binding protein with an AAA (ATPases Associated with various cellular Activities) domain may function as an ATPase, similar to Arabidopsis thaliana BCS1-like protein

CATH:  3.40.50.300
EC:  3.6.1.-
Gene Ontology:  GO:0005524|GO:0016887
PubMed:  15037234|18466635|16689629
SCOP:  4003976

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 222-378 8.45e-67

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: 211.83  E-value: 8.45e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 222 IIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYENAQLKSILLSTT-NRSILV 300
Cdd:cd19510   1 IIDDLKDFIKNEDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDICDLNLSEVVLTDDRLNHLLNTApKQSIIL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 30680264 301 IEDIDCSsaeVVDREADEYQEYEEGYYGRVTLSGLLNFVDGLWSSfgDERIIVFTTNHKERLDPALLRPGRMDMHINM 378
Cdd:cd19510  81 LEDIDAA---FESREHNKKNPSAYGGLSRVTFSGLLNALDGVASS--EERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
AAA_assoc pfam14363
Domain associated at C-terminal with AAA; This domain is found in association with the AAA ...
 37-130 1.15e-31

Domain associated at C-terminal with AAA; This domain is found in association with the AAA family, pfam00004.


:

Pssm-ID: 464152  Cd Length: 95  Bit Score: 116.88  E-value: 1.15e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264    37 VPERLRSYITDLLNRFFTPKSKNLTMVIDEIIGFKRNQVFDAAEVYLRNKIGPETAR-LRVGKLPKQKHFTIYIEKGEEI 115
Cdd:pfam14363   1 LPPELRDYLSSKLARLFSRFSPYLTIVIDEFDGFSRNELYDAAQTYLSTKISPSSARrLKASKSPKSKSLVLSLDDNEEV 80

                          90
                  ....*....|....*
gi 30680264   116 LDTFENSELRWTYVE 130
Cdd:pfam14363  81 TDVFEGVKLWWTLVV 95
 
Name Accession Description Interval E-value
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 222-378 8.45e-67

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: 211.83  E-value: 8.45e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 222 IIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYENAQLKSILLSTT-NRSILV 300
Cdd:cd19510   1 IIDDLKDFIKNEDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDICDLNLSEVVLTDDRLNHLLNTApKQSIIL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 30680264 301 IEDIDCSsaeVVDREADEYQEYEEGYYGRVTLSGLLNFVDGLWSSfgDERIIVFTTNHKERLDPALLRPGRMDMHINM 378
Cdd:cd19510  81 LEDIDAA---FESREHNKKNPSAYGGLSRVTFSGLLNALDGVASS--EERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
AAA_assoc pfam14363
Domain associated at C-terminal with AAA; This domain is found in association with the AAA ...
 37-130 1.15e-31

Domain associated at C-terminal with AAA; This domain is found in association with the AAA family, pfam00004.


Pssm-ID: 464152  Cd Length: 95  Bit Score: 116.88  E-value: 1.15e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264    37 VPERLRSYITDLLNRFFTPKSKNLTMVIDEIIGFKRNQVFDAAEVYLRNKIGPETAR-LRVGKLPKQKHFTIYIEKGEEI 115
Cdd:pfam14363   1 LPPELRDYLSSKLARLFSRFSPYLTIVIDEFDGFSRNELYDAAQTYLSTKISPSSARrLKASKSPKSKSLVLSLDDNEEV 80

                          90
                  ....*....|....*
gi 30680264   116 LDTFENSELRWTYVE 130
Cdd:pfam14363  81 TDVFEGVKLWWTLVV 95
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 203-376 1.66e-20

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 92.38  E-value: 1.66e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 203 LEHPS-TFETLAMDPGAKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELS 278
Cdd:COG1222  70 AESPDvTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVrgsELV 149

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 279 SIY--ENAQ-LKSI--LLSTTNRSILVIEDID---------CSSAEVvdreadeyqeyeegyygRVTLSGLLNFVDGlWS 344
Cdd:COG1222 150 SKYigEGARnVREVfeLAREKAPSIIFIDEIDaiaarrtddGTSGEV-----------------QRTVNQLLAELDG-FE 211

                       170       180       190
                ....*....|....*....|....*....|..
gi 30680264 345 SFGDERIIVfTTNHKERLDPALLRPGRMDMHI 376
Cdd:COG1222 212 SRGDVLIIA-ATNRPDLLDPALLRPGRFDRVI 242
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 247-380 1.15e-17

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: 79.17  E-value: 1.15e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   247 YLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYEN------AQLKSIL--LSTTNRSILVIEDIDCSSAEVVDREade 318
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKyvgeseKRLRELFeaAKKLAPCVIFIDEIDALAGSRGSGG--- 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680264   319 yqeyeeGYYGRVTLSGLLNFVDGLwSSFGDERIIVFTTNHKERLDPALLrpGRMDMHINMSY 380
Cdd:pfam00004  78 ------DSESRRVVNQLLTELDGF-TSSNSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 208-376 3.43e-12

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: 68.78  E-value: 3.43e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   208 TFETLAMDPGAKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY--E 282
Cdd:TIGR01243 176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISIngpEIMSKYygE 255

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   283 NAQ-LKSILLSTTNR--SILVIEDIDcssAEVVDREadeyqeYEEGYYGRVTLSGLLNFVDGLWssfGDERIIVF-TTNH 358
Cdd:TIGR01243 256 SEErLREIFKEAEENapSIIFIDEID---AIAPKRE------EVTGEVEKRVVAQLLTLMDGLK---GRGRVIVIgATNR 323

                         170
                  ....*....|....*...
gi 30680264   359 KERLDPALLRPGRMDMHI 376
Cdd:TIGR01243 324 PDALDPALRRPGRFDREI 341
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 230-376 7.36e-11

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 64.02  E-value: 7.36e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  230 LKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLKfdVFDLELSSIY--ENAQLKSILLSTTNR---SIL 299
Cdd:PTZ00361 203 LTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANetsatFLR--VVGSELIQKYlgDGPKLVRELFRVAEEnapSIV 280

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 30680264  300 VIEDIDCSSAEVVDREADEYQEYEEgyygrvTLSGLLNFVDGLWSSfGDERIIVfTTNHKERLDPALLRPGRMDMHI 376
Cdd:PTZ00361 281 FIDEIDAIGTKRYDATSGGEKEIQR------TMLELLNQLDGFDSR-GDVKVIM-ATNRIESLDPALIRPGRIDRKI 349
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 244-378 5.77e-06

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: 46.21  E-value: 5.77e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264    244 KRGYLLYGPPGTGKSSLIAAMANYLKFD-----VFDLELSSIYENAQLKSILLSTTNRSILVIEDID--CSSAE------ 310
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPPgggviYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRlaLALARklkpdv 81

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30680264    311 -VVDrEADEYQEYEEGYYGRVTLSGLLNFVDGLWSSfgdeRIIVFTTNHKERLDPALLRPgRMDMHINM 378
Cdd:smart00382  82 lILD-EITSLLDAEQEALLLLLEELRLLLLLKSEKN----LTVILTTNDEKDLGPALLRR-RFDRRIVL 144
 
Name Accession Description Interval E-value
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 222-378 8.45e-67

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: 211.83  E-value: 8.45e-67
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 222 IIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYENAQLKSILLSTT-NRSILV 300
Cdd:cd19510   1 IIDDLKDFIKNEDWYNDRGIPYRRGYLLYGPPGTGKSSFIAALAGELDYDICDLNLSEVVLTDDRLNHLLNTApKQSIIL 80

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 30680264 301 IEDIDCSsaeVVDREADEYQEYEEGYYGRVTLSGLLNFVDGLWSSfgDERIIVFTTNHKERLDPALLRPGRMDMHINM 378
Cdd:cd19510  81 LEDIDAA---FESREHNKKNPSAYGGLSRVTFSGLLNALDGVASS--EERIVFMTTNHIERLDPALIRPGRVDMKIYM 153
AAA_assoc pfam14363
Domain associated at C-terminal with AAA; This domain is found in association with the AAA ...
 37-130 1.15e-31

Domain associated at C-terminal with AAA; This domain is found in association with the AAA family, pfam00004.


Pssm-ID: 464152  Cd Length: 95  Bit Score: 116.88  E-value: 1.15e-31
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264    37 VPERLRSYITDLLNRFFTPKSKNLTMVIDEIIGFKRNQVFDAAEVYLRNKIGPETAR-LRVGKLPKQKHFTIYIEKGEEI 115
Cdd:pfam14363   1 LPPELRDYLSSKLARLFSRFSPYLTIVIDEFDGFSRNELYDAAQTYLSTKISPSSARrLKASKSPKSKSLVLSLDDNEEV 80

                          90
                  ....*....|....*
gi 30680264   116 LDTFENSELRWTYVE 130
Cdd:pfam14363  81 TDVFEGVKLWWTLVV 95
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 220-377 4.60e-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: 98.12  E-value: 4.60e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 220 KKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSI------YENAQLKSI--LL 291
Cdd:cd19481   2 KASLREAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLlskyvgESEKNLRKIfeRA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 292 STTNRSILVIEDIDcssAEVVDREAdeyqeYEEGYYGRVTLSGLLNFVDGLWSsfgDERIIVF-TTNHKERLDPALLRPG 370
Cdd:cd19481  82 RRLAPCILFIDEID---AIGRKRDS-----SGESGELRRVLNQLLTELDGVNS---RSKVLVIaATNRPDLLDPALLRPG 150


                ....*..
gi 30680264 371 RMDMHIN 377
Cdd:cd19481 151 RFDEVIE 157
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 203-376 1.66e-20

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 92.38  E-value: 1.66e-20
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 203 LEHPS-TFETLAMDPGAKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELS 278
Cdd:COG1222  70 AESPDvTFDDIGGLDEQIEEIREAVELPLKNPELFRKYGIEPPKGVLLYGPPGTGKTLLAKAVAGELGAPFIRVrgsELV 149

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 279 SIY--ENAQ-LKSI--LLSTTNRSILVIEDID---------CSSAEVvdreadeyqeyeegyygRVTLSGLLNFVDGlWS 344
Cdd:COG1222 150 SKYigEGARnVREVfeLAREKAPSIIFIDEIDaiaarrtddGTSGEV-----------------QRTVNQLLAELDG-FE 211

                       170       180       190
                ....*....|....*....|....*....|..
gi 30680264 345 SFGDERIIVfTTNHKERLDPALLRPGRMDMHI 376
Cdd:COG1222 212 SRGDVLIIA-ATNRPDLLDPALLRPGRFDRVI 242
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 230-376 1.68e-18

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: 82.72  E-value: 1.68e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 230 LKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIY------ENAQLKSILLSTTN--RSILVI 301
Cdd:cd19503  20 LKYPELFRALGLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVskylgeSEKNLREIFEEARShaPSIIFI 99

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 30680264 302 EDID--CSSAEVVDREADeyqeyeegyyGRVtLSGLLNFVDGLwsSFGDERIIVFTTNHKERLDPALLRPGRMDMHI 376
Cdd:cd19503 100 DEIDalAPKREEDQREVE----------RRV-VAQLLTLMDGM--SSRGKVVVIAATNRPDAIDPALRRPGRFDREV 163
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 247-380 1.15e-17

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: 79.17  E-value: 1.15e-17
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   247 YLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYEN------AQLKSIL--LSTTNRSILVIEDIDCSSAEVVDREade 318
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKyvgeseKRLRELFeaAKKLAPCVIFIDEIDALAGSRGSGG--- 77

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680264   319 yqeyeeGYYGRVTLSGLLNFVDGLwSSFGDERIIVFTTNHKERLDPALLrpGRMDMHINMSY 380
Cdd:pfam00004  78 ------DSESRRVVNQLLTELDGF-TSSNSKVIVIAATNRPDKLDPALL--GRFDRIIEFPL 130
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 208-376 2.55e-16

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: 76.50  E-value: 2.55e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 208 TFETLAMDPGAKKKIIDDMErFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSS-------- 279
Cdd:cd19501   2 TFKDVAGCEEAKEELKEVVE-FLKNPEKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDfvemfvgv 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 280 -------IYENAQLKSillsttnRSILVIEDIDcssaeVVDREADEYQEYEEGYYGRvTLSGLLNFVDGLWSsfgDERII 352
Cdd:cd19501  81 gasrvrdLFEQAKKNA-------PCIVFIDEID-----AVGRKRGAGLGGGHDEREQ-TLNQLLVEMDGFES---NTGVI 144

                       170       180
                ....*....|....*....|....*
gi 30680264 353 VF-TTNHKERLDPALLRPGRMDMHI 376
Cdd:cd19501 145 VIaATNRPDVLDPALLRPGRFDRQV 169
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 218-376 3.41e-15

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: 77.26  E-value: 3.41e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 218 AKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIY-----ENAQ-LKSIL- 290
Cdd:COG0464 165 VKEELRELVALPLKRPELREEYGLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVskyvgETEKnLREVFd 244

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 291 -LSTTNRSILVIEDID------CSSAEVVDREAdeyqeyeegyygrvtLSGLLNFVDGLwssfGDERIIVFTTNHKERLD 363
Cdd:COG0464 245 kARGLAPCVLFIDEADalagkrGEVGDGVGRRV---------------VNTLLTEMEEL----RSDVVVIAATNRPDLLD 305

                       170
                ....*....|...
gi 30680264 364 PALLRpgRMDMHI 376
Cdd:COG0464 306 PALLR--RFDEII 316
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 220-376 4.20e-15

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: 73.14  E-value: 4.20e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 220 KKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLKFDVFDLELSSIYENAQLKSILLSTT 294
Cdd:cd19502  13 REIREVVELPLKHPELFEELGIEPPKGVLLYGPPGTGKTLLAKAVANhtdatFIRVVGSELVQKYIGEGARLVRELFEMA 92

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 295 NR---SILVIEDIDCSSAEVV------DREADEyqeyeegyygrvTLSGLLNFVDGlWSSFGDERIIvFTTNHKERLDPA 365
Cdd:cd19502  93 REkapSIIFIDEIDAIGAKRFdsgtggDREVQR------------TMLELLNQLDG-FDPRGNIKVI-MATNRPDILDPA 158

                       170
                ....*....|.
gi 30680264 366 LLRPGRMDMHI 376
Cdd:cd19502 159 LLRPGRFDRKI 169
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 218-376 5.32e-15

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: 72.32  E-value: 5.32e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 218 AKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY--ENAQLKSILLS 292
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLGIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVkgpELFSKYvgESERAVREIFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 293 TTNR---SILVIEDIDcssAEVVDREADeyqeYEEGYYGRVtLSGLLNFVDGLwsSFGDERIIVFTTNHKERLDPALLRP 369
Cdd:cd19511  81 KARQaapCIIFFDEID---SLAPRRGQS----DSSGVTDRV-VSQLLTELDGI--ESLKGVVVIAATNRPDMIDPALLRP 150


                ....*..
gi 30680264 370 GRMDMHI 376
Cdd:cd19511 151 GRLDKLI 157
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 215-376 1.22e-12

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: 65.89  E-value: 1.22e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 215 DPGAKKKIIDDMERFL----KRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIYENAQLK 287
Cdd:cd19518   1 DIGGMDSTLKELCELLihpiLPPEYFQHLGVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKIsatEIVSGVSGESEE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 288 SI--LLSTTNR---SILVIEDIDC--SSAEVVDREADeyqeyeegyygRVTLSGLLNFVDGL--WSSFGDERIIVFTTNH 358
Cdd:cd19518  81 KIreLFDQAISnapCIVFIDEIDAitPKRESAQREME-----------RRIVSQLLTCMDELnnEKTAGGPVLVIGATNR 149

                       170
                ....*....|....*...
gi 30680264 359 KERLDPALLRPGRMDMHI 376
Cdd:cd19518 150 PDSLDPALRRAGRFDREI 167
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 218-376 1.58e-12

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: 65.21  E-value: 1.58e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 218 AKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIYENAQLKSI--LLS 292
Cdd:cd19529   1 VKQELKEAVEWPLLKPEVFKRLGIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVkgpELLSKWVGESEKAIreIFR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 293 TTNRS---ILVIEDIDcSSAEVVDREADeyqeyeEGYYGRVtLSGLLNFVDGLWSSfgDERIIVFTTNHKERLDPALLRP 369
Cdd:cd19529  81 KARQVapcVIFFDEID-SIAPRRGTTGD------SGVTERV-VNQLLTELDGLEEM--NGVVVIAATNRPDIIDPALLRA 150


                ....*..
gi 30680264 370 GRMDMHI 376
Cdd:cd19529 151 GRFDRLI 157
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 208-376 3.43e-12

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: 68.78  E-value: 3.43e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   208 TFETLAMDPGAKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY--E 282
Cdd:TIGR01243 176 TYEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYFISIngpEIMSKYygE 255

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   283 NAQ-LKSILLSTTNR--SILVIEDIDcssAEVVDREadeyqeYEEGYYGRVTLSGLLNFVDGLWssfGDERIIVF-TTNH 358
Cdd:TIGR01243 256 SEErLREIFKEAEENapSIIFIDEID---AIAPKRE------EVTGEVEKRVVAQLLTLMDGLK---GRGRVIVIgATNR 323

                         170
                  ....*....|....*...
gi 30680264   359 KERLDPALLRPGRMDMHI 376
Cdd:TIGR01243 324 PDALDPALRRPGRFDREI 341
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
209-376 5.12e-12

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 65.68  E-value: 5.12e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 209 FETLAMDPGAKKKIiDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYE------ 282
Cdd:COG1223   1 LDDVVGQEEAKKKL-KLIIKELRRRENLRKFGLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGsylget 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 283 NAQLKSIL-LSTTNRSILVIEDIDcssAEVVDREADeyqeYEEGYYGRVtLSGLLNFVDGLWSSFgderIIVFTTNHKER 361
Cdd:COG1223  80 ARNLRKLFdFARRAPCVIFFDEFD---AIAKDRGDQ----NDVGEVKRV-VNALLQELDGLPSGS----VVIAATNHPEL 147

                       170
                ....*....|....*
gi 30680264 362 LDPALLRpgRMDMHI 376
Cdd:COG1223 148 LDSALWR--RFDEVI 160
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 218-378 9.23e-12

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: 63.22  E-value: 9.23e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 218 AKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY---ENAQLKSIL- 290
Cdd:cd19519   8 QLAQIREMVELPLRHPELFKAIGIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLIngpEIMSKLageSESNLRKAFe 87

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 291 -LSTTNRSILVIEDIDCSSAEvvdREadeyqeYEEGYYGRVTLSGLLNFVDGLWSSfgDERIIVFTTNHKERLDPALLRP 369
Cdd:cd19519  88 eAEKNAPAIIFIDEIDAIAPK---RE------KTHGEVERRIVSQLLTLMDGLKQR--AHVIVMAATNRPNSIDPALRRF 156


                ....*....
gi 30680264 370 GRMDMHINM 378
Cdd:cd19519 157 GRFDREIDI 165
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 244-380 3.39e-11

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: 61.39  E-value: 3.39e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 244 KRGYLLYGPPGTGKSSLIAAMANYL---KFDVFDLELSSIYENA-----------QLKSILLSTTNRSILVIEDIDCSSA 309
Cdd:cd00009  19 PKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLvvaelfghflvRLLFELAEKAKPGVLFIDEIDSLSR 98

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 30680264 310 EVVDReadeyqeyeegyygrvtlsgLLNFVDGL--WSSFGDERIIVFTTNHKERLDPALLRPGRMDMHINMSY 380
Cdd:cd00009  99 GAQNA--------------------LLRVLETLndLRIDRENVRVIGATNRPLLGDLDRALYDRLDIRIVIPL 151
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 230-376 7.36e-11

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 64.02  E-value: 7.36e-11
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  230 LKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMAN-----YLKfdVFDLELSSIY--ENAQLKSILLSTTNR---SIL 299
Cdd:PTZ00361 203 LTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANetsatFLR--VVGSELIQKYlgDGPKLVRELFRVAEEnapSIV 280

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 30680264  300 VIEDIDCSSAEVVDREADEYQEYEEgyygrvTLSGLLNFVDGLWSSfGDERIIVfTTNHKERLDPALLRPGRMDMHI 376
Cdd:PTZ00361 281 FIDEIDAIGTKRYDATSGGEKEIQR------TMLELLNQLDGFDSR-GDVKVIM-ATNRIESLDPALIRPGRIDRKI 349
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 219-376 1.22e-10

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 63.24  E-value: 1.22e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  219 KKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKF-----------------------DVFDL 275
Cdd:PTZ00454 154 KQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTAtfirvvgsefvqkylgegprmvrDVFRL 233

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  276 ElssiYENAQlksillsttnrSILVIEDIDCSSAEVVDRE--ADeyqeyeeGYYGRVTLSgLLNFVDGLwssfgDERI-- 351
Cdd:PTZ00454 234 A----RENAP-----------SIIFIDEVDSIATKRFDAQtgAD-------REVQRILLE-LLNQMDGF-----DQTTnv 285

                        170       180
                 ....*....|....*....|....*.
gi 30680264  352 -IVFTTNHKERLDPALLRPGRMDMHI 376
Cdd:PTZ00454 286 kVIMATNRADTLDPALLRPGRLDRKI 311
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 219-373 1.84e-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: 1.84e-10
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 219 KKKIIDDMERFLKRREFYKRvGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY---ENAQLKSILLS 292
Cdd:cd19527   2 KKEILDTIQLPLEHPELFSS-GLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVkgpELINMYigeSEANVREVFQK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 293 TTNRSILVI--EDIDcSSAEVVDREADEYQEYEegyygRVtLSGLLNFVDGLwSSFGDERIIVFTTNHKERLDPALLRPG 370
Cdd:cd19527  81 ARDAKPCVIffDELD-SLAPSRGNSGDSGGVMD-----RV-VSQLLAELDGM-SSSGQDVFVIGATNRPDLLDPALLRPG 152


                ...
gi 30680264 371 RMD 373
Cdd:cd19527 153 RFD 155
ftsH CHL00176
cell division protein; Validated
 229-379 3.98e-10

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 61.99  E-value: 3.98e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  229 FLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYE------NAQLKSILLSTTNRS--ILV 300
Cdd:CHL00176 201 FLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEmfvgvgAARVRDLFKKAKENSpcIVF 280

                         90       100       110       120       130       140       150
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30680264  301 IEDIDcssaeVVDREADEYQEYEEGYYGRvTLSGLLNFVDGLWSSFGdeRIIVFTTNHKERLDPALLRPGRMDMHINMS 379
Cdd:CHL00176 281 IDEID-----AVGRQRGAGIGGGNDEREQ-TLNQLLTEMDGFKGNKG--VIVIAATNRVDILDAALLRPGRFDRQITVS 351
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
207-376 6.61e-10

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 61.59  E-value: 6.61e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  207 STFETLAMDPGAKKKIIDDMErFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIYE---- 282
Cdd:PRK10733 149 TTFADVAGCDEAKEEVAELVE-YLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEmfvg 227

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  283 --NAQLKSILLSTTNRS--ILVIEDIDcssaeVVDREADEYQEYEEGYYGRvTLSGLLNFVDGLWssfGDERIIVF-TTN 357
Cdd:PRK10733 228 vgASRVRDMFEQAKKAApcIIFIDEID-----AVGRQRGAGLGGGHDEREQ-TLNQMLVEMDGFE---GNEGIIVIaATN 298

                        170
                 ....*....|....*....
gi 30680264  358 HKERLDPALLRPGRMDMHI 376
Cdd:PRK10733 299 RPDVLDPALLRPGRFDRQV 317
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 219-376 1.67e-09

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: 56.75  E-value: 1.67e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 219 KKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY---ENAQLKSILLS 292
Cdd:cd19528   2 KRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVkgpELLTMWfgeSEANVRDIFDK 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 293 TTNRS--ILVIEDIDCssaevVDREADEYQEYEEGYYGRVtLSGLLNFVDGLWSSfgDERIIVFTTNHKERLDPALLRPG 370
Cdd:cd19528  82 ARAAApcVLFFDELDS-----IAKARGGNIGDAGGAADRV-INQILTEMDGMNTK--KNVFIIGATNRPDIIDPAILRPG 153


                ....*.
gi 30680264 371 RMDMHI 376
Cdd:cd19528 154 RLDQLI 159
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 230-376 3.38e-09

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 58.69  E-value: 3.38e-09
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  230 LKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYL--------------KF---------DVFDLelssiyenAQL 286
Cdd:PRK03992 151 LKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETnatfirvvgselvqKFigegarlvrELFEL--------ARE 222

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  287 KSillsttnRSILVIEDIDCSSAEVV------DREADEyqeyeegyygrvTLSGLLNFVDGlWSSFGDERIIVfTTNHKE 360
Cdd:PRK03992 223 KA-------PSIIFIDEIDAIAAKRTdsgtsgDREVQR------------TLMQLLAEMDG-FDPRGNVKIIA-ATNRID 281

                        170
                 ....*....|....*.
gi 30680264  361 RLDPALLRPGRMDMHI 376
Cdd:PRK03992 282 ILDPAILRPGRFDRII 297
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 230-373 4.22e-09

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: 55.57  E-value: 4.22e-09
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 230 LKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIY----ENAqLKSILLSTTNRSILVI- 301
Cdd:cd19530  16 IKRPDIYKALGIDLPTGVLLYGPPGCGKTLLAKAVANESGANFISVkgpELLNKYvgesERA-VRQVFQRARASAPCVIf 94

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 30680264 302 -EDIDCSSAEVVDREAdeyqeyeeGYYGRVtLSGLLNFVDGLwssfgDERIIVF---TTNHKERLDPALLRPGRMD 373
Cdd:cd19530  95 fDEVDALVPKRGDGGS--------WASERV-VNQLLTEMDGL-----EERSNVFviaATNRPDIIDPAMLRPGRLD 156
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 218-376 4.03e-08

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: 56.07  E-value: 4.03e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   218 AKKKIIDDMERFLKRREFYKRVGKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL---ELSSIYENAQLKSI--LLS 292
Cdd:TIGR01243 461 VKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIAVrgpEILSKWVGESEKAIreIFR 540

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264   293 TTNRS---ILVIEDIDC--------SSAEVVDReadeyqeyeegyygrvTLSGLLNFVDGLWSSFGdeRIIVFTTNHKER 361
Cdd:TIGR01243 541 KARQAapaIIFFDEIDAiapargarFDTSVTDR----------------IVNQLLTEMDGIQELSN--VVVIAATNRPDI 602

                         170
                  ....*....|....*
gi 30680264   362 LDPALLRPGRMDMHI 376
Cdd:TIGR01243 603 LDPALLRPGRFDRLI 617
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 230-368 1.65e-07

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: 50.81  E-value: 1.65e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 230 LKRREFYKRVGKAWkRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIY-----ENAQLKSILLSTTNR---SILVI 301
Cdd:cd19509  19 SLRPDLFPGLRGPP-RGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVskwvgESEKIVRALFALARElqpSIIFI 97

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30680264 302 EDID--CSSAEVVDREAdeyqeyeegyYGRVTlSGLLNFVDGLWSSFGDERIIVFTTNHKERLDPALLR 368
Cdd:cd19509  98 DEIDslLSERGSGEHEA----------SRRVK-TEFLVQMDGVLNKPEDRVLVLGATNRPWELDEAFLR 155
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 230-372 1.87e-07

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: 50.89  E-value: 1.87e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 230 LKRREFYKRvGKAWK--RGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIY-----ENAQLKSILLSTTNR---SIL 299
Cdd:cd19520  20 LQRPELFDN-SRLLQppKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTdkwygESQKLVAAVFSLASKlqpSII 98

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 30680264 300 VIEDIDC--SSAEVVDREAdeyqeyeegyyGRVTLSGLLNFVDGLWSSFGDERIIVFTTNHKERLDPALLRpgRM 372
Cdd:cd19520  99 FIDEIDSflRQRSSTDHEA-----------TAMMKAEFMSLWDGLSTDGNCRVIVMGATNRPQDLDEAILR--RM 160
PRK04195 PRK04195
replication factor C large subunit; Provisional
 206-275 4.89e-07

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 52.23  E-value: 4.89e-07
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264  206 PSTFETLAMDPGAKKKIIDDMERFLKRREfykrvgkawKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDL 275
Cdd:PRK04195  10 PKTLSDVVGNEKAKEQLREWIESWLKGKP---------KKALLLYGPPGVGKTSLAHALANDYGWEVIEL 70
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 231-368 4.98e-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: 49.46  E-value: 4.98e-07
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 231 KRREFYKRVgKAWKRGYLLYGPPGTGKSSLIAAMA---NYLKFDVFDLELSSIY--ENAQLKSILLSTTNR---SILVIE 302
Cdd:cd19524  21 LRPELFTGL-RAPARGLLLFGPPGNGKTMLAKAVAaesNATFFNISAASLTSKYvgEGEKLVRALFAVARElqpSIIFID 99

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 30680264 303 DIDCSSAEVVDREADeyqeyeegYYGRVTLSGLLNFvDGLWSSfGDERIIVF-TTNHKERLDPALLR 368
Cdd:cd19524 100 EVDSLLSERSEGEHE--------ASRRLKTEFLIEF-DGVQSN-GDDRVLVMgATNRPQELDDAVLR 156
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 244-378 5.77e-06

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: 46.21  E-value: 5.77e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264    244 KRGYLLYGPPGTGKSSLIAAMANYLKFD-----VFDLELSSIYENAQLKSILLSTTNRSILVIEDID--CSSAE------ 310
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELGPPgggviYIDGEDILEEVLDQLLLIIVGGKKASGSGELRLRlaLALARklkpdv 81

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30680264    311 -VVDrEADEYQEYEEGYYGRVTLSGLLNFVDGLWSSfgdeRIIVFTTNHKERLDPALLRPgRMDMHINM 378
Cdd:smart00382  82 lILD-EITSLLDAEQEALLLLLEELRLLLLLKSEKN----LTVILTTNDEKDLGPALLRR-RFDRRIVL 144
PRK08116 PRK08116
hypothetical protein; Validated
 207-268 9.73e-06

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 47.32  E-value: 9.73e-06
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680264  207 STFETLAMDPGAKKKIiDDMERFLKRREFYKRVGkawkRGYLLYGPPGTGKSSLIAAMANYL 268
Cdd:PRK08116  82 STFENFLFDKGSEKAY-KIARKYVKKFEEMKKEN----VGLLLWGSVGTGKTYLAACIANEL 138
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 206-368 3.17e-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: 44.59  E-value: 3.17e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 206 PSTFETLAMDPGAKKKIIDDMERFLKRREFYKRVgKAWKRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIY---- 281
Cdd:cd19525  18 PINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGL-RGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTskwv 96

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 282 -ENAQLKSILLSTTN---RSILVIEDIDCSSAEVVDREADeyqeyeegyYGRVTLSGLLNFVDGLWSSfGDERIIVF-TT 356
Cdd:cd19525  97 gEGEKMVRALFSVARckqPAVIFIDEIDSLLSQRGEGEHE---------SSRRIKTEFLVQLDGATTS-SEDRILVVgAT 166

                       170
                ....*....|..
gi 30680264 357 NHKERLDPALLR 368
Cdd:cd19525 167 NRPQEIDEAARR 178
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 234-308 3.65e-05

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: 44.20  E-value: 3.65e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 234 EFYKRVGKAWKrGYLLYGPPGTGKSSLIAAMANYLK---FDVFDLELSSIYENAQLKSI-LLSTTNR----SILVIEDID 305
Cdd:cd19522  24 EFFKGIRRPWK-GVLMVGPPGTGKTLLAKAVATECGttfFNVSSSTLTSKYRGESEKLVrLLFEMARfyapTTIFIDEID 102


                ....*
gi 30680264 306 --CSS 308
Cdd:cd19522 103 siCSR 107
PRK08939 PRK08939
primosomal protein DnaI; Reviewed
 208-269 1.37e-04

primosomal protein DnaI; Reviewed


Pssm-ID: 236353 [Multi-domain]  Cd Length: 306  Bit Score: 43.70  E-value: 1.37e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 30680264  208 TFETLAMDPGAKKKIIDDMERFLKRREFYKRVgkawkRGYLLYGPPGTGKSSLIAAMANYLK 269
Cdd:PRK08939 125 SLADIDLDDRDRLDALMAALDFLEAYPPGEKV-----KGLYLYGDFGVGKSYLLAAIANELA 181
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 248-304 2.45e-04

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 43.53  E-value: 2.45e-04
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 30680264  248 LLYGPPGTGKSSLIAAMANYLKFDVFDL--------ELSSIYENAQLksiLLSTTNRSILVIEDI 304
Cdd:PRK13342  40 ILWGPPGTGKTTLARIIAGATDAPFEALsavtsgvkDLREVIEEARQ---RRSAGRRTILFIDEI 101
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
347-376 2.82e-04

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 43.49  E-value: 2.82e-04
                        10        20        30
                ....*....|....*....|....*....|.
gi 30680264 347 GDERIIVF-TTNHKERLDPALLRPGRMDMHI 376
Cdd:COG0465 277 GNEGVIVIaATNRPDVLDPALLRPGRFDRQV 307
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 241-308 3.04e-04

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: 41.39  E-value: 3.04e-04
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 30680264 241 KAWkRGYLLYGPPGTGKSSLIAAMANYLKFDVFDLELSSIY-----ENAQLKSILLSTT---NRSILVIEDID--CSS 308
Cdd:cd19521  38 KPW-SGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVskwmgESEKLVKQLFAMArenKPSIIFIDEVDslCGT 114
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 209-289 2.08e-03

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: 39.35  E-value: 2.08e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 30680264 209 FETLAMDPGAKKKIIDDMERFLKRREfyKRVGK---AWKRGYLLYGPPGTGKSSLIAAMANYLKfdvfdLELSSIYENAQ 285
Cdd:cd19508  16 WESLIYDSNLKSRLLDYVTTTLLFSD--KNVNTnliTWNRLVLLHGPPGTGKTSLCKALAQKLS-----IRLSSRYRYGQ 88


                ....
gi 30680264 286 LKSI 289
Cdd:cd19508  89 LIEI 92
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
236-268 2.88e-03

DNA polymerase III, delta prime subunit [Replication, recombination and repair];


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 39.57  E-value: 2.88e-03
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 30680264 236 YKRVGKAWKRG-----YLLYGPPGTGKSSLIAAMANYL 268
Cdd:COG0470   5 WEQLLAAAESGrlphaLLLHGPPGIGKTTLALALARDL 42
DUF815 pfam05673
Protein of unknown function (DUF815); This family consists of several bacterial proteins of ...
 219-266 3.41e-03

Protein of unknown function (DUF815); This family consists of several bacterial proteins of unknown function.


Pssm-ID: 428578 [Multi-domain]  Cd Length: 250  Bit Score: 39.05  E-value: 3.41e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|...
gi 30680264   219 KKKIIDDMERFLkrrefykrvgkawkRGY-----LLYGPPGTGKSSLIAAMAN 266
Cdd:pfam05673  37 KEALIRNTRRFL--------------AGLpannvLLWGARGTGKSSLVKALLN 75
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 248-304 5.86e-03

Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, recombination and repair];


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 38.88  E-value: 5.86e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 30680264 248 LLYGPPGTGKSSLIAAMANYLKFDVFDL--------ELSSIYENAQLksiLLSTTNRSILVIEDI 304
Cdd:COG2256  53 ILWGPPGTGKTTLARLIANATDAEFVALsavtsgvkDIREVIEEARE---RRAYGRRTILFVDEI 114
HprK_rel_A TIGR04352
HprK-related kinase A; A number of protein families resemble HPr kinase (see TIGR00679) but do ...
 245-305 8.33e-03

HprK-related kinase A; A number of protein families resemble HPr kinase (see TIGR00679) but do not belong to that system. They include this family, which appears instead to be the marker for a different type of gene neighborhood, in which one of the conserved neighboring proteins resembles (but is distinct from) PqqD.


Pssm-ID: 275147  Cd Length: 280  Bit Score: 38.06  E-value: 8.33e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 30680264   245 RGYLLYGPPGTGKSSLIAAMAnyLK--------FDVFDLELSSIYENAQlksiLLSTTNRSILVIEDID 305
Cdd:TIGR04352 109 RALILPAPPGSGKSTLCAALA--LRgwrllsdeFALLDLEDGLLLPLPR----PISLKNESIDIIRAFA 171
 
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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