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Conserved domains on  [gi|18403587|ref|NP_565791|]
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P-loop containing nucleoside triphosphate hydrolases superfamily protein [Arabidopsis thaliana]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 105-269 1.38e-87

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: 261.90  E-value: 1.38e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLI 184
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 RVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQ-KTNELVFVLAATNLPWELDAAMLRRL 263
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSER---GSGEHEASRRVKTEFLVQMDGVLnKPEDRVLVLGATNRPWELDEAFLRRF 157


                ....*.
gi 18403587 264 EKRILV 269
Cdd:cd19509 158 EKRIYI 163
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 297-334 1.86e-08

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: 49.84  E-value: 1.86e-08
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 18403587   297 DVLVEKSEGYSGSDIRILCKEAAMQPLRRTLAILEDRE 334
Cdd:pfam17862   5 EELAERTEGFSGADLEALCREAALAALRRGLEAVTQED 42
 
Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 105-269 1.38e-87

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: 261.90  E-value: 1.38e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLI 184
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 RVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQ-KTNELVFVLAATNLPWELDAAMLRRL 263
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSER---GSGEHEASRRVKTEFLVQMDGVLnKPEDRVLVLGATNRPWELDEAFLRRF 157


                ....*.
gi 18403587 264 EKRILV 269
Cdd:cd19509 158 EKRIYI 163
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 98-340 6.38e-84

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 258.40  E-value: 6.38e-84
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFN--GLLTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSK 175
Cdd:COG1222  73 PDVTFDDIGGLDEQIEEIREAVELPLKNPELFRkyGIEPP-KGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSK 151

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 176 WRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGrsEHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWEL 255
Cdd:COG1222 152 YIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDG--TSGEVQRTVNQLLAELDGFESRGD-VLIIAATNRPDLL 228

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 256 DAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMqplrrtLAILEDR 333
Cdd:COG1222 229 DPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGM------FAIREGR 302


                ....*..
gi 18403587 334 EDVVPED 340
Cdd:COG1222 303 DTVTMED 309
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 88-379 1.75e-68

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: 229.41  E-value: 1.75e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587    88 SLSRDIIRGNPNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFN 166
Cdd:TIGR01243 438 SAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMgIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIA 517

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   167 ISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEA-SRRLKTELLIQMDGLQKTNELVfV 245
Cdd:TIGR01243 518 VRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPAR---GARFDTSvTDRIVNQLLTEMDGIQELSNVV-V 593

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   246 LAATNLPWELDAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMQPL 323
Cdd:TIGR01243 594 IAATNRPDILDPALLRpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAAL 673

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18403587   324 RRTLAILEDREDVVPEDELPKIGPILPEDIDRALSNTRPSAHLHAHL-YDKFNDDYG 379
Cdd:TIGR01243 674 RESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKEDMLrYERLAKELK 730
cell_div_CdvC NF041006
cell division protein CdvC;
76-363 5.17e-66

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 213.83  E-value: 5.17e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   76 PFESAETRTLAESLSRDIIRGNPNIKWESIKGLENAKKLLKEAVVMPIKYPTYFnglltP--W-KGILLFGPPGTGKTML 152
Cdd:NF041006  76 PAEPAGPDVEKESDEELVVKEKPKVTFSDIVGLEDVKEALKEAIVYPSKRPDLF-----PlgWpRGILLYGPPGCGKTML 150

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  153 AKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDLARHHA-----PSTIFLDEIDAII----SQRGGEGrseheasr 223
Cdd:NF041006 151 AAAVANEIDSEFIHVDAASIMSKWLGEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLgvysSEVGGEV-------- 222

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  224 RLKTELLIQMDGLQKTNEL--VFVLAATNLPWELDAAMLRRLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVE 301
Cdd:NF041006 223 RVRNQFLKEMDGLQDKSENyhVYVIGATNKPWRLDEPFLRRFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAE 302

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18403587  302 KSEGYSGSDIRILCKEAAMqplrRTLAILEDREDVVPEdelpkigPILPEDIDRALSNTRPS 363
Cdd:NF041006 303 MTEGYTASDIRDIVQAAHM----RVVKEMFEKGLGEPR-------PITMEDFKEVLKIRKPS 353
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 98-340 1.17e-59

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 197.75  E-value: 1.17e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKW 176
Cdd:PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVgIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  177 RGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRS-EHEASRRLkTELLIQMDGLQKTNElVFVLAATNLPWEL 255
Cdd:PRK03992 206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSgDREVQRTL-MQLLAEMDGFDPRGN-VKIIAATNRIDIL 283

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  256 DAAMLR--RLEKRILVPLPDPEARRGMFEmlIPSQpgDEPLPHDV----LVEKSEGYSGSDIRILCKEAAMqplrrtLAI 329
Cdd:PRK03992 284 DPAILRpgRFDRIIEVPLPDEEGRLEILK--IHTR--KMNLADDVdleeLAELTEGASGADLKAICTEAGM------FAI 353

                        250
                 ....*....|.
gi 18403587  330 LEDREDVVPED 340
Cdd:PRK03992 354 RDDRTEVTMED 364
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 139-271 2.64e-55

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: 178.17  E-value: 2.64e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   139 ILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSE 218
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR---GSGG 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 18403587   219 HEASRRLKTELLIQMDGLQKTNELVFVLAATNLPWELDAAMLRRLEKRILVPL 271
Cdd:pfam00004  78 DSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 135-273 2.81e-16

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: 75.10  E-value: 2.81e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587    135 PWKGILLFGPPGTGKTMLAKAVATECNTT---FFNISAS--------------SVVSKWRGDSEKLIRVLFDLARHHAPS 197
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEdileevldqllliiVGGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18403587    198 TIFLDEIDAIIsqrggegRSEHEASRRLKTELLIQMDGLQKTNELVfVLAATNLPWELDAAMLRRLEKRILVPLPD 273
Cdd:smart00382  81 VLILDEITSLL-------DAEQEALLLLLEELRLLLLLKSEKNLTV-ILTTNDEKDLGPALLRRRFDRRIVLLLIL 148
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 297-334 1.86e-08

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: 49.84  E-value: 1.86e-08
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 18403587   297 DVLVEKSEGYSGSDIRILCKEAAMQPLRRTLAILEDRE 334
Cdd:pfam17862   5 EELAERTEGFSGADLEALCREAALAALRRGLEAVTQED 42
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 139-160 5.85e-03

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 37.84  E-value: 5.85e-03
                         10        20
                 ....*....|....*....|..
gi 18403587  139 ILLFGPPGTGKTMLAKAVATEC 160
Cdd:NF038214  93 VLLLGPPGTGKTHLAIALGYAA 114
 
Name Accession Description Interval E-value
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 105-269 1.38e-87

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: 261.90  E-value: 1.38e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLI 184
Cdd:cd19509   1 IAGLDDAKEALKEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASSLVSKWVGESEKIV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 RVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQ-KTNELVFVLAATNLPWELDAAMLRRL 263
Cdd:cd19509  81 RALFALARELQPSIIFIDEIDSLLSER---GSGEHEASRRVKTEFLVQMDGVLnKPEDRVLVLGATNRPWELDEAFLRRF 157


                ....*.
gi 18403587 264 EKRILV 269
Cdd:cd19509 158 EKRIYI 163
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 105-269 3.02e-87

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: 261.46  E-value: 3.02e-87
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLI 184
Cdd:cd19522   2 IADLEEAKKLLEEAVVLPMWMPEFFKGIRRPWKGVLMVGPPGTGKTLLAKAVATECGTTFFNVSSSTLTSKYRGESEKLV 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 RVLFDLARHHAPSTIFLDEIDAIISQRGGEgrSEHEASRRLKTELLIQMDGLQKTNE------LVFVLAATNLPWELDAA 258
Cdd:cd19522  82 RLLFEMARFYAPTTIFIDEIDSICSRRGTS--EEHEASRRVKSELLVQMDGVGGASEnddpskMVMVLAATNFPWDIDEA 159

                       170
                ....*....|.
gi 18403587 259 MLRRLEKRILV 269
Cdd:cd19522 160 LRRRLEKRIYI 170
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 98-340 6.38e-84

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 258.40  E-value: 6.38e-84
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFN--GLLTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSK 175
Cdd:COG1222  73 PDVTFDDIGGLDEQIEEIREAVELPLKNPELFRkyGIEPP-KGVLLYGPPGTGKTLLAKAVAGELGAPFIRVRGSELVSK 151

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 176 WRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGrsEHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWEL 255
Cdd:COG1222 152 YIGEGARNVREVFELAREKAPSIIFIDEIDAIAARRTDDG--TSGEVQRTVNQLLAELDGFESRGD-VLIIAATNRPDLL 228

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 256 DAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMqplrrtLAILEDR 333
Cdd:COG1222 229 DPALLRpgRFDRVIEVPLPDEEAREEILKIHLRDMPLADDVDLDKLAKLTEGFSGADLKAIVTEAGM------FAIREGR 302


                ....*..
gi 18403587 334 EDVVPED 340
Cdd:COG1222 303 DTVTMED 309
RecA-like_VPS4 cd19521
ATPase domain of vacuolar protein sorting-associated protein 4; Vacuolar protein ...
 98-269 7.25e-81

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: 245.16  E-value: 7.25e-81
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWR 177
Cdd:cd19521   2 PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFTGNRKPWSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 178 GDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQKTNELVFVLAATNLPWELDA 257
Cdd:cd19521  82 GESEKLVKQLFAMARENKPSIIFIDEVDSLCGTR---GEGESEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDS 158

                       170
                ....*....|..
gi 18403587 258 AMLRRLEKRILV 269
Cdd:cd19521 159 AIRRRFEKRIYI 170
RecA-like_Figl-1 cd19525
ATPase domain of Fidgetin-Like 1 (FIGL-1); FIGL-1 may participate in DNA repair in the nucleus; ...
 85-269 1.79e-69

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: 216.39  E-value: 1.79e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  85 LAESLSRDIIRGNPNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTF 164
Cdd:cd19525   4 MIELIMSEIMDHGPPINWADIAGLEFAKKTIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATF 83

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 165 FNISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQKT-NELV 243
Cdd:cd19525  84 FSISASSLTSKWVGEGEKMVRALFSVARCKQPAVIFIDEIDSLLSQR---GEGEHESSRRIKTEFLVQLDGATTSsEDRI 160

                       170       180
                ....*....|....*....|....*.
gi 18403587 244 FVLAATNLPWELDAAMLRRLEKRILV 269
Cdd:cd19525 161 LVVGATNRPQEIDEAARRRLVKRLYI 186
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 102-340 2.06e-69

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: 223.63  E-value: 2.06e-69
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 102 WESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDS 180
Cdd:COG0464 156 LDDLGGLEEVKEELRELVALPLKRPELREEYgLPPPRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKYVGET 235

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 181 EKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGrseHEASRRLKTELLIQMDGLQKTnelVFVLAATNLPWELDAAML 260
Cdd:COG0464 236 EKNLREVFDKARGLAPCVLFIDEADALAGKRGEVG---DGVGRRVVNTLLTEMEELRSD---VVVIAATNRPDLLDPALL 309

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 261 RRLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMQplrrtlAILEDREDVVPED 340
Cdd:COG0464 310 RRFDEIIFFPLPDAEERLEIFRIHLRKRPLDEDVDLEELAEATEGLSGADIRNVVRRAALQ------ALRLGREPVTTED 383
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 88-379 1.75e-68

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: 229.41  E-value: 1.75e-68
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587    88 SLSRDIIRGNPNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFN 166
Cdd:TIGR01243 438 SAIREVLVEVPNVRWSDIGGLEEVKQELREAVEWPLKHPEIFEKMgIRPPKGVLLFGPPGTGKTLLAKAVATESGANFIA 517

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   167 ISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEA-SRRLKTELLIQMDGLQKTNELVfV 245
Cdd:TIGR01243 518 VRGPEILSKWVGESEKAIREIFRKARQAAPAIIFFDEIDAIAPAR---GARFDTSvTDRIVNQLLTEMDGIQELSNVV-V 593

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   246 LAATNLPWELDAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMQPL 323
Cdd:TIGR01243 594 IAATNRPDILDPALLRpgRFDRLILVPPPDEEARKEIFKIHTRSMPLAEDVDLEELAEMTEGYTGADIEAVCREAAMAAL 673

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 18403587   324 RRTLAILEDREDVVPEDELPKIGPILPEDIDRALSNTRPSAHLHAHL-YDKFNDDYG 379
Cdd:TIGR01243 674 RESIGSPAKEKLEVGEEEFLKDLKVEMRHFLEALKKVKPSVSKEDMLrYERLAKELK 730
RecA-like_spastin cd19524
ATPase domain of spastin; Spastin is an ATP-dependent microtubule-severing protein involved in ...
 105-269 1.59e-66

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: 208.17  E-value: 1.59e-66
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLI 184
Cdd:cd19524   2 IAGQDLAKQALQEMVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLV 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 RVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQKT-NELVFVLAATNLPWELDAAMLRRL 263
Cdd:cd19524  82 RALFAVARELQPSIIFIDEVDSLLSER---SEGEHEASRRLKTEFLIEFDGVQSNgDDRVLVMGATNRPQELDDAVLRRF 158


                ....*.
gi 18403587 264 EKRILV 269
Cdd:cd19524 159 TKRVYV 164
cell_div_CdvC NF041006
cell division protein CdvC;
76-363 5.17e-66

cell division protein CdvC;


Pssm-ID: 468935 [Multi-domain]  Cd Length: 371  Bit Score: 213.83  E-value: 5.17e-66
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   76 PFESAETRTLAESLSRDIIRGNPNIKWESIKGLENAKKLLKEAVVMPIKYPTYFnglltP--W-KGILLFGPPGTGKTML 152
Cdd:NF041006  76 PAEPAGPDVEKESDEELVVKEKPKVTFSDIVGLEDVKEALKEAIVYPSKRPDLF-----PlgWpRGILLYGPPGCGKTML 150

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  153 AKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDLARHHA-----PSTIFLDEIDAII----SQRGGEGrseheasr 223
Cdd:NF041006 151 AAAVANEIDSEFIHVDAASIMSKWLGEAEKNVAKIFKKAREKSkeegkPAIIFIDEIDALLgvysSEVGGEV-------- 222

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  224 RLKTELLIQMDGLQKTNEL--VFVLAATNLPWELDAAMLRRLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVE 301
Cdd:NF041006 223 RVRNQFLKEMDGLQDKSENyhVYVIGATNKPWRLDEPFLRRFQKRIYIPLPDREQRLELLKYYTSKIKLENDVDLDELAE 302

                        250       260       270       280       290       300
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18403587  302 KSEGYSGSDIRILCKEAAMqplrRTLAILEDREDVVPEdelpkigPILPEDIDRALSNTRPS 363
Cdd:NF041006 303 MTEGYTASDIRDIVQAAHM----RVVKEMFEKGLGEPR-------PITMEDFKEVLKIRKPS 353
PRK03992 PRK03992
proteasome-activating nucleotidase; Provisional
 98-340 1.17e-59

proteasome-activating nucleotidase; Provisional


Pssm-ID: 179699 [Multi-domain]  Cd Length: 389  Bit Score: 197.75  E-value: 1.17e-59
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKW 176
Cdd:PRK03992 126 PNVTYEDIGGLEEQIREVREAVELPLKKPELFEEVgIEPPKGVLLYGPPGTGKTLLAKAVAHETNATFIRVVGSELVQKF 205

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  177 RGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRS-EHEASRRLkTELLIQMDGLQKTNElVFVLAATNLPWEL 255
Cdd:PRK03992 206 IGEGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSgDREVQRTL-MQLLAEMDGFDPRGN-VKIIAATNRIDIL 283

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  256 DAAMLR--RLEKRILVPLPDPEARRGMFEmlIPSQpgDEPLPHDV----LVEKSEGYSGSDIRILCKEAAMqplrrtLAI 329
Cdd:PRK03992 284 DPAILRpgRFDRIIEVPLPDEEGRLEILK--IHTR--KMNLADDVdleeLAELTEGASGADLKAICTEAGM------FAI 353

                        250
                 ....*....|.
gi 18403587  330 LEDREDVVPED 340
Cdd:PRK03992 354 RDDRTEVTMED 364
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 104-269 1.33e-55

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: 180.31  E-value: 1.33e-55
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 104 SIKGLENAKKLLKEAVVMPIKYPTYF--NGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSE 181
Cdd:cd19520   1 DIGGLDEVITELKELVILPLQRPELFdnSRLLQPPKGVLLYGPPGCGKTMLAKATAKEAGARFINLQVSSLTDKWYGESQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 182 KLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQ-KTNELVFVLAATNLPWELDAAML 260
Cdd:cd19520  81 KLVAAVFSLASKLQPSIIFIDEIDSFLRQR---SSTDHEATAMMKAEFMSLWDGLStDGNCRVIVMGATNRPQDLDEAIL 157


                ....*....
gi 18403587 261 RRLEKRILV 269
Cdd:cd19520 158 RRMPKRFHI 166
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 139-271 2.64e-55

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: 178.17  E-value: 2.64e-55
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   139 ILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSE 218
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVSKYVGESEKRLRELFEAAKKLAPCVIFIDEIDALAGSR---GSGG 77

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 18403587   219 HEASRRLKTELLIQMDGLQKTNELVFVLAATNLPWELDAAMLRRLEKRILVPL 271
Cdd:pfam00004  78 DSESRRVVNQLLTELDGFTSSNSKVIVIAATNRPDKLDPALLGRFDRIIEFPL 130
RecA-like_CDC48_r2-like cd19511
second of two ATPase domains of CDC48/p97, PEX1 and -6, VAT and NVL, and similar ATPase ...
 111-269 1.34e-54

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: 177.09  E-value: 1.34e-54
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 111 AKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFD 189
Cdd:cd19511   1 VKRELKEAVEWPLKHPDAFKRLgIRPPKGVLLYGPPGCGKTLLAKALASEAGLNFISVKGPELFSKYVGESERAVREIFQ 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 190 LARHHAPSTIFLDEIDAIISQRGGEGRSehEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAMLR--RLEKRI 267
Cdd:cd19511  81 KARQAAPCIIFFDEIDSLAPRRGQSDSS--GVTDRVVSQLLTELDGIESLKG-VVVIAATNRPDMIDPALLRpgRLDKLI 157


                ..
gi 18403587 268 LV 269
Cdd:cd19511 158 YV 159
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 78-364 4.27e-54

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: 190.12  E-value: 4.27e-54
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587    78 ESAETRTLAESLSRDIIRGNPNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAV 156
Cdd:TIGR01243 153 EATEVEIREKPVREEIERKVPKVTYEDIGGLKEAKEKIREMVELPMKHPELFEHLgIEPPKGVLLYGPPGTGKTLLAKAV 232

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   157 ATECNTTFFNISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGL 236
Cdd:TIGR01243 233 ANEAGAYFISINGPEIMSKYYGESEERLREIFKEAEENAPSIIFIDEIDAIAPKR---EEVTGEVEKRVVAQLLTLMDGL 309

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   237 QKTNElVFVLAATNLPWELDAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRIL 314
Cdd:TIGR01243 310 KGRGR-VIVIGATNRPDALDPALRRpgRFDREIVIRVPDKRARKEILKVHTRNMPLAEDVDLDKLAEVTHGFVGADLAAL 388

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 18403587   315 CKEAAMQPLRRTLAI----LEDREdvVPEDELPKIgPILPEDIDRALSNTRPSA 364
Cdd:TIGR01243 389 AKEAAMAALRRFIREgkinFEAEE--IPAEVLKEL-KVTMKDFMEALKMVEPSA 439
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 104-267 3.65e-51

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: 168.62  E-value: 3.65e-51
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 104 SIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEK 182
Cdd:cd19503   1 DIGGLDEQIASLKELIELPLKYPELFRALgLKPPRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSIVSKYLGESEK 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 183 LIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRsehEASRRLKTELLIQMDGLQKTNELVfVLAATNLPWELDAAMLR- 261
Cdd:cd19503  81 NLREIFEEARSHAPSIIFIDEIDALAPKREEDQR---EVERRVVAQLLTLMDGMSSRGKVV-VIAATNRPDAIDPALRRp 156


                ....*..
gi 18403587 262 -RLEKRI 267
Cdd:cd19503 157 gRFDREV 163
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
102-340 3.22e-50

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 168.91  E-value: 3.22e-50
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 102 WESIKGLENAKKLLKEAvvmpIKYPTYFNGL----LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWR 177
Cdd:COG1223   1 LDDVVGQEEAKKKLKLI----IKELRRRENLrkfgLWPPRKILFYGPPGTGKTMLAEALAGELKLPLLTVRLDSLIGSYL 76

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 178 GDSEKLIRVLFDLARhHAPSTIFLDEIDAIISQRGGEgrSEHEASRRLKTELLIQMDGLqktNELVFVLAATNLPWELDA 257
Cdd:COG1223  77 GETARNLRKLFDFAR-RAPCVIFFDEFDAIAKDRGDQ--NDVGEVKRVVNALLQELDGL---PSGSVVIAATNHPELLDS 150

                       170       180       190       200       210       220       230       240
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 258 AMLRRLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAamqpLRRtlAILEDREDVV 337
Cdd:COG1223 151 ALWRRFDEVIEFPLPDKEERKEILELNLKKFPLPFELDLKKLAKKLEGLSGADIEKVLKTA----LKK--AILEDREKVT 224


                ...
gi 18403587 338 PED 340
Cdd:COG1223 225 KED 227
RecA-like_PAN_like cd19502
proteasome activating nucleotidase PAN and related proteasome subunits; This subfamily ...
 102-267 5.26e-49

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: 163.28  E-value: 5.26e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 102 WESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDS 180
Cdd:cd19502   2 YEDIGGLDEQIREIREVVELPLKHPELFEELgIEPPKGVLLYGPPGTGKTLLAKAVANHTDATFIRVVGSELVQKYIGEG 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 181 EKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRSEHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAML 260
Cdd:cd19502  82 ARLVRELFEMAREKAPSIIFIDEIDAIGAKRFDSGTGGDREVQRTMLELLNQLDGFDPRGN-IKVIMATNRPDILDPALL 160


                ....*....
gi 18403587 261 R--RLEKRI 267
Cdd:cd19502 161 RpgRFDRKI 169
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 111-269 9.44e-49

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: 162.07  E-value: 9.44e-49
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 111 AKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDL 190
Cdd:cd19481   1 LKASLREAVEAPRRGSRLRRYGLGLPKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKYVGESEKNLRKIFER 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 191 ARHHAPSTIFLDEIDAIISQRGGEGrsEHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAMLR--RLEKRIL 268
Cdd:cd19481  81 ARRLAPCILFIDEIDAIGRKRDSSG--ESGELRRVLNQLLTELDGVNSRSK-VLVIAATNRPDLLDPALLRpgRFDEVIE 157


                .
gi 18403587 269 V 269
Cdd:cd19481 158 F 158
RecA-like_CDC48_r2-like cd19528
second of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or ...
 112-269 2.75e-48

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: 161.14  E-value: 2.75e-48
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 112 KKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDL 190
Cdd:cd19528   2 KRELQELVQYPVEHPDKFLKFgMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEANVRDIFDK 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 191 ARHHAPSTIFLDEIDAIISQRGGEGRSEHEASRRLKTELLIQMDGL-QKTNelVFVLAATNLPWELDAAMLR--RLEKRI 267
Cdd:cd19528  82 ARAAAPCVLFFDELDSIAKARGGNIGDAGGAADRVINQILTEMDGMnTKKN--VFIIGATNRPDIIDPAILRpgRLDQLI 159


                ..
gi 18403587 268 LV 269
Cdd:cd19528 160 YI 161
PTZ00454 PTZ00454
26S protease regulatory subunit 6B-like protein; Provisional
 98-340 4.31e-48

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


Pssm-ID: 240423 [Multi-domain]  Cd Length: 398  Bit Score: 167.63  E-value: 4.31e-48
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKW 176
Cdd:PTZ00454 140 PDVTYSDIGGLDIQKQEIREAVELPLTCPELYEQIgIDPPRGVLLYGPPGTGKTMLAKAVAHHTTATFIRVVGSEFVQKY 219

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  177 RGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRSEHEASRRLKTELLIQMDGL-QKTNelVFVLAATNLPWEL 255
Cdd:PTZ00454 220 LGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFdQTTN--VKVIMATNRADTL 297

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  256 DAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMQPLRRtlaileDR 333
Cdd:PTZ00454 298 DPALLRpgRLDRKIEFPLPDRRQKRLIFQTITSKMNLSEEVDLEDFVSRPEKISAADIAAICQEAGMQAVRK------NR 371


                 ....*..
gi 18403587  334 EDVVPED 340
Cdd:PTZ00454 372 YVILPKD 378
RecA-like_VCP_r2 cd19529
second of two ATPase domains of Valosin-containing protein-like ATPase (VAT) and similar ...
 111-269 6.43e-47

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: 157.27  E-value: 6.43e-47
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 111 AKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFD 189
Cdd:cd19529   1 VKQELKEAVEWPLLKPEVFKRLgIRPPKGILLYGPPGTGKTLLAKAVATESNANFISVKGPELLSKWVGESEKAIREIFR 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 190 LARHHAPSTIFLDEIDAIISQRGGEGRSehEASRRLKTELLIQMDGLQKTNELVfVLAATNLPWELDAAMLR--RLEKRI 267
Cdd:cd19529  81 KARQVAPCVIFFDEIDSIAPRRGTTGDS--GVTERVVNQLLTELDGLEEMNGVV-VIAATNRPDIIDPALLRagRFDRLI 157


                ..
gi 18403587 268 LV 269
Cdd:cd19529 158 YI 159
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 100-269 4.31e-44

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: 150.46  E-value: 4.31e-44
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 100 IKWESIKGLENAKKLLKEaVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRG 178
Cdd:cd19501   1 VTFKDVAGCEEAKEELKE-VVEFLKNPEKFTKLgAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFVEMFVG 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 179 DSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRG-GEGRSEHEASRRLkTELLIQMDGLqKTNELVFVLAATNLPWELDA 257
Cdd:cd19501  80 VGASRVRDLFEQAKKNAPCIVFIDEIDAVGRKRGaGLGGGHDEREQTL-NQLLVEMDGF-ESNTGVIVIAATNRPDVLDP 157

                       170
                ....*....|....
gi 18403587 258 AMLR--RLEKRILV 269
Cdd:cd19501 158 ALLRpgRFDRQVYV 171
PTZ00361 PTZ00361
26 proteosome regulatory subunit 4-like protein; Provisional
 98-340 5.15e-44

26 proteosome regulatory subunit 4-like protein; Provisional


Pssm-ID: 185575 [Multi-domain]  Cd Length: 438  Bit Score: 158.01  E-value: 5.15e-44
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   98 PNIKWESIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKW 176
Cdd:PTZ00361 178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIgIKPPKGVILYGPPGTGKTLLAKAVANETSATFLRVVGSELIQKY 257

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  177 RGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRSEHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWELD 256
Cdd:PTZ00361 258 LGDGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGD-VKVIMATNRIESLD 336

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  257 AAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMqplrrtLAILEDRE 334
Cdd:PTZ00361 337 PALIRpgRIDRKIEFPNPDEKTKRRIFEIHTSKMTLAEDVDLEEFIMAKDELSGADIKAICTEAGL------LALRERRM 410


                 ....*.
gi 18403587  335 DVVPED 340
Cdd:PTZ00361 411 KVTQAD 416
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 108-269 2.02e-41

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: 143.01  E-value: 2.02e-41
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 108 LENAKKLLKEAVVMPIKYPTYFN--GLLTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIR 185
Cdd:cd19530   1 LDHVREELTMSILRPIKRPDIYKalGIDLP-TGVLLYGPPGCGKTLLAKAVANESGANFISVKGPELLNKYVGESERAVR 79

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 186 VLFDLARHHAPSTIFLDEIDAIISQRGGEGrseHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAMLR--RL 263
Cdd:cd19530  80 QVFQRARASAPCVIFFDEVDALVPKRGDGG---SWASERVVNQLLTEMDGLEERSN-VFVIAATNRPDIIDPAMLRpgRL 155


                ....*.
gi 18403587 264 EKRILV 269
Cdd:cd19530 156 DKTLYV 161
ftsH CHL00176
cell division protein; Validated
 100-328 8.35e-41

cell division protein; Validated


Pssm-ID: 214386 [Multi-domain]  Cd Length: 638  Bit Score: 152.51  E-value: 8.35e-41
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  100 IKWESIKGLENAKKLLKEaVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRG 178
Cdd:CHL00176 180 ITFRDIAGIEEAKEEFEE-VVSFLKKPERFTAVgAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVPFFSISGSEFVEMFVG 258

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  179 DSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRG---GEGRSEHEASRrlkTELLIQMDGLQKTNELVfVLAATNLPWEL 255
Cdd:CHL00176 259 VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGagiGGGNDEREQTL---NQLLTEMDGFKGNKGVI-VIAATNRVDIL 334

                        170       180       190       200       210       220       230
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 18403587  256 DAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEAAMQPLRRTLA 328
Cdd:CHL00176 335 DAALLRpgRFDRQITVSLPDREGRLDILKVHARNKKLSPDVSLELIARRTPGFSGADLANLLNEAAILTARRKKA 409
RecA-like_fidgetin cd19523
ATPase domain of fidgetin; Fidgetin (FIGN) is a ATP-dependent microtubule severing protein. ...
 105-269 1.75e-40

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: 140.79  E-value: 1.75e-40
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLI 184
Cdd:cd19523   2 IAGLGALKAAIKEEVLWPLLRPDAFSGLLRLPRSILLFGPRGTGKTLLGRCLASQLGATFLRLRGSTLVAKWAGEGEKIL 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 RVLFDLARHHAPSTIFLDEIDAIISQRggegRSEHEASRRLKTELLIQMDG-LQKTNELVFVLAATNLPWELDAAMLRRL 263
Cdd:cd19523  82 QASFLAARCRQPSVLFISDLDALLSSQ----DDEASPVGRLQVELLAQLDGvLGSGEDGVLVVCTTSKPEEIDESLRRYF 157


                ....*.
gi 18403587 264 EKRILV 269
Cdd:cd19523 158 SKRLLV 163
RecA-like_CDC48_r1-like cd19519
first of two ATPase domains of CDC48 and similar ATPase domains; CDC48 in yeast and p97 or VCP ...
 105-270 2.88e-39

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: 137.57  E-value: 2.88e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKL 183
Cdd:cd19519   2 IGGCRKQLAQIREMVELPLRHPELFKAIgIKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESN 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 184 IRVLFDLARHHAPSTIFLDEIDAIISQRggeGRSEHEASRRLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAMLR-- 261
Cdd:cd19519  82 LRKAFEEAEKNAPAIIFIDEIDAIAPKR---EKTHGEVERRIVSQLLTLMDGLKQRAH-VIVMAATNRPNSIDPALRRfg 157


                ....*....
gi 18403587 262 RLEKRILVP 270
Cdd:cd19519 158 RFDREIDIG 166
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 104-267 9.77e-39

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: 136.38  E-value: 9.77e-39
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 104 SIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEK 182
Cdd:cd19518   1 DIGGMDSTLKELCELLIHPILPPEYFQHLgVEPPRGVLLHGPPGCGKTMLANAIAGELKVPFLKISATEIVSGVSGESEE 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 183 LIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRsehEASRRLKTELLIQMDGL---QKTNELVFVLAATNLPWELDAAM 259
Cdd:cd19518  81 KIRELFDQAISNAPCIVFIDEIDAITPKRESAQR---EMERRIVSQLLTCMDELnneKTAGGPVLVIGATNRPDSLDPAL 157

                       170
                ....*....|
gi 18403587 260 LR--RLEKRI 267
Cdd:cd19518 158 RRagRFDREI 167
hflB PRK10733
ATP-dependent zinc metalloprotease FtsH;
83-331 7.04e-38

ATP-dependent zinc metalloprotease FtsH;


Pssm-ID: 182683 [Multi-domain]  Cd Length: 644  Bit Score: 144.02  E-value: 7.04e-38
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   83 RTLAESLSRDIIRgnpnIKWESIKGLENAKKLLKEaVVMPIKYPTYFNGL--LTPwKGILLFGPPGTGKTMLAKAVATEC 160
Cdd:PRK10733 136 KSKARMLTEDQIK----TTFADVAGCDEAKEEVAE-LVEYLREPSRFQKLggKIP-KGVLMVGPPGTGKTLLAKAIAGEA 209

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  161 NTTFFNISASSVVSKWRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRSEHEASRRLKTELLIQMDGLQKtN 240
Cdd:PRK10733 210 KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEG-N 288

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  241 ELVFVLAATNLPWELDAAMLR--RLEKRILVPLPDPEARRGMFEMLIPSQPGDEPLPHDVLVEKSEGYSGSDIRILCKEA 318
Cdd:PRK10733 289 EGIIVIAATNRPDVLDPALLRpgRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEA 368

                        250
                 ....*....|....*.
gi 18403587  319 AMQPLR---RTLAILE 331
Cdd:PRK10733 369 ALFAARgnkRVVSMVE 384
RecA-like_PEX6_r2 cd19527
second of two ATPase domains of Peroxisomal biogenesis factor 6 (PEX6); PEX6(also known as ...
 112-269 8.27e-37

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: 131.10  E-value: 8.27e-37
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 112 KKLLKEAVVMPIKYPTYFNGLLTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFDLA 191
Cdd:cd19527   2 KKEILDTIQLPLEHPELFSSGLRKRSGILLYGPPGTGKTLLAKAIATECSLNFLSVKGPELINMYIGESEANVREVFQKA 81

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 192 RHHAPSTIFLDEIDAIISQRGGEGRSeHEASRRLKTELLIQMDGLQKTNELVFVLAATNLPWELDAAMLR--RLEKRILV 269
Cdd:cd19527  82 RDAKPCVIFFDELDSLAPSRGNSGDS-GGVMDRVVSQLLAELDGMSSSGQDVFVIGATNRPDLLDPALLRpgRFDKLLYL 160
RecA-like_Yta7-like cd19517
ATPase domain of Saccharomyces cerevisiae Yta7 and similar ATPase domains; Saccharomyces ...
 104-262 1.40e-34

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: 125.70  E-value: 1.40e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 104 SIKGLENAKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNT-----TFFNISASSVVSKWR 177
Cdd:cd19517   1 DIGGLSHYINQLKEMVFFPLLYPEVFAKFkITPPRGVLFHGPPGTGKTLMARALAAECSKggqkvSFFMRKGADCLSKWV 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 178 GDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRSEHEAsrrLKTELLIQMDGLQKTNELVfVLAATNLPWELDA 257
Cdd:cd19517  81 GEAERQLRLLFEEAYRMQPSIIFFDEIDGLAPVRSSKQEQIHAS---IVSTLLALMDGLDNRGQVV-VIGATNRPDALDP 156


                ....*
gi 18403587 258 AmLRR 262
Cdd:cd19517 157 A-LRR 160
HflB COG0465
ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones];
107-319 1.63e-34

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


Pssm-ID: 440233 [Multi-domain]  Cd Length: 583  Bit Score: 134.01  E-value: 1.63e-34
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 107 GLENAKKLLKEaVVMPIKYPTYFNGL--LTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVskwrgdsEKLI 184
Cdd:COG0465 146 GVDEAKEELQE-IVDFLKDPEKFTRLgaKIP-KGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDFV-------EMFV 216

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 185 -----RV--LFDLARHHAPSTIFLDEIDAIISQRG---GEGRSEHEasrrlKT--ELLIQMDGLQkTNELVFVLAATNLP 252
Cdd:COG0465 217 gvgasRVrdLFEQAKKNAPCIIFIDEIDAVGRQRGaglGGGHDERE-----QTlnQLLVEMDGFE-GNEGVIVIAATNRP 290

                       170       180       190       200       210       220       230
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 18403587 253 WELDAAMLR--RLEKRILVPLPDPEARRGMFEmlIPSQpgDEPLPHDVLVEK----SEGYSGSDIRILCKEAA 319
Cdd:COG0465 291 DVLDPALLRpgRFDRQVVVDLPDVKGREAILK--VHAR--KKPLAPDVDLEViarrTPGFSGADLANLVNEAA 359
RecA-like_PEX1_r2 cd19526
second of two ATPase domains of Peroxisomal biogenesis factor 1 (PEX1); PEX1(also known as ...
 111-268 1.79e-33

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: 122.15  E-value: 1.79e-33
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 111 AKKLLKEAVVMPIKYPTYFNGL-LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKLIRVLFD 189
Cdd:cd19526   1 VKKALEETIEWPSKYPKIFASSpLRLRSGILLYGPPGCGKTLLASAIASECGLNFISVKGPELLNKYIGASEQNVRDLFS 80

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 190 LARHHAPSTIFLDEIDAIISQRGgegrseHEAS---RRLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAMLR--RLE 264
Cdd:cd19526  81 RAQSAKPCILFFDEFDSIAPKRG------HDSTgvtDRVVNQLLTQLDGVEGLDG-VYVLAATSRPDLIDPALLRpgRLD 153


                ....
gi 18403587 265 KRIL 268
Cdd:cd19526 154 KLVY 157
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 106-271 6.33e-24

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: 96.45  E-value: 6.33e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 106 KGLENAKKLLKEAVvmpikyptyfngLLTPWKGILLFGPPGTGKTMLAKAVATEC---NTTFFNISASSVVSKWRGDSEK 182
Cdd:cd00009   1 VGQEEAIEALREAL------------ELPPPKNLLLYGPPGTGKTTLARAIANELfrpGAPFLYLNASDLLEGLVVAELF 68

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 183 ---LIRVLFDLARHHAPSTIFLDEIDAIisqrggegrseheaSRRLKTELLIQMDGL---QKTNELVFVLAATNLPWELD 256
Cdd:cd00009  69 ghfLVRLLFELAEKAKPGVLFIDEIDSL--------------SRGAQNALLRVLETLndlRIDRENVRVIGATNRPLLGD 134

                       170
                ....*....|....*..
gi 18403587 257 AAM--LRRLEKRILVPL 271
Cdd:cd00009 135 LDRalYDRLDIRIVIPL 151
RecA-like_NSF-SEC18_r1-like cd19504
first of two ATPase domains of NSF and SEC18, and similar ATPase domains; ...
 137-264 2.26e-18

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: 81.77  E-value: 2.26e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 137 KGILLFGPPGTGKTMLAKAVATECNTTFFNI-SASSVVSKWRGDSEKLIRVLF--------DLARHHAPSTIFLDEIDAI 207
Cdd:cd19504  36 KGILLYGPPGTGKTLMARQIGKMLNAREPKIvNGPEILNKYVGESEANIRKLFadaeeeqrRLGANSGLHIIIFDEIDAI 115

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 18403587 208 ISQRG--GEGRSEHEAsrrLKTELLIQMDGLQKTNElVFVLAATNLPWELDAAMLR--RLE 264
Cdd:cd19504 116 CKQRGsmAGSTGVHDT---VVNQLLSKIDGVEQLNN-ILVIGMTNRKDLIDEALLRpgRLE 172
RecA-like_Ycf46-like cd19507
ATPase domain of Ycf46 and similar ATPase domains; Ycf46 may play a role in the regulation of ...
 105-255 4.31e-18

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: 80.49  E-value: 4.31e-18
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 105 IKGLENAKK-LLKEAVVMPIKYPTYfnGLLTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDSEKL 183
Cdd:cd19507   2 VGGLDNLKDwLKKRKAAFSKQASAY--GLPTP-KGLLLVGIQGTGKSLTAKAIAGVWQLPLLRLDMGRLFGGLVGESESR 78

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18403587 184 IRVLFDLARHHAPSTIFLDEIDAIISQRGGEGrsEHEASRRLKTELLIQMDglQKTNElVFVLAATN----LPWEL 255
Cdd:cd19507  79 LRQMIQTAEAIAPCVLWIDEIEKGFSNADSKG--DSGTSSRVLGTFLTWLQ--EKKKP-VFVVATANnvqsLPPEL 149
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 135-273 2.81e-16

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: 75.10  E-value: 2.81e-16
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587    135 PWKGILLFGPPGTGKTMLAKAVATECNTT---FFNISAS--------------SVVSKWRGDSEKLIRVLFDLARHHAPS 197
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELGPPgggVIYIDGEdileevldqllliiVGGKKASGSGELRLRLALALARKLKPD 80

                           90       100       110       120       130       140       150
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18403587    198 TIFLDEIDAIIsqrggegRSEHEASRRLKTELLIQMDGLQKTNELVfVLAATNLPWELDAAMLRRLEKRILVPLPD 273
Cdd:smart00382  81 VLILDEITSLL-------DAEQEALLLLLEELRLLLLLKSEKNLTV-ILTTNDEKDLGPALLRRRFDRRIVLLLIL 148
RecA-like_Pch2-like cd19508
ATPase domain of Pachytene checkpoint 2 (Pch2) and similar ATPase domains; Pch2 (known as ...
 139-262 8.41e-13

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: 66.70  E-value: 8.41e-13
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 139 ILLFGPPGTGKTMLAKAVATE----CNTT-----FFNISASSVVSKWRGDSEKLIRVLFD-----LARHHAPSTIFLDEI 204
Cdd:cd19508  55 VLLHGPPGTGKTSLCKALAQKlsirLSSRyrygqLIEINSHSLFSKWFSESGKLVTKMFQkiqelIDDKDALVFVLIDEV 134

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....*....
gi 18403587 205 DAIISQRGG-EGRSEHEASRRLKTELLIQMDGLqKTNELVFVLAATNLPWELDAAMLRR 262
Cdd:cd19508 135 ESLAAARSAsSSGTEPSDAIRVVNAVLTQIDRI-KRYHNNVILLTSNLLEKIDVAFVDR 192
ycf46 CHL00195
Ycf46; Provisional
 97-366 1.57e-12

Ycf46; Provisional


Pssm-ID: 177094 [Multi-domain]  Cd Length: 489  Bit Score: 68.51  E-value: 1.57e-12
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   97 NPNIKWESIKGLENAKKLL-KEAVVMPIKYPTYfnGLLTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSK 175
Cdd:CHL00195 222 SVNEKISDIGGLDNLKDWLkKRSTSFSKQASNY--GLPTP-RGLLLVGIQGTGKSLTAKAIANDWQLPLLRLDVGKLFGG 298

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  176 WRGDSEKLIRVLFDLARHHAPSTIFLDEIDAIISQ---RGGEGRSeheaSRRLKTelLIQMdgLQKTNELVFVLAATN-- 250
Cdd:CHL00195 299 IVGESESRMRQMIRIAEALSPCILWIDEIDKAFSNsesKGDSGTT----NRVLAT--FITW--LSEKKSPVFVVATANni 370

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  251 --LPWEldaaMLR--RLEKRILVPLPDPEARRGMFEMLIP-SQPGD-EPLPHDVLVEKSEGYSGSDIRILCKEaAMQplr 324
Cdd:CHL00195 371 dlLPLE----ILRkgRFDEIFFLDLPSLEEREKIFKIHLQkFRPKSwKKYDIKKLSKLSNKFSGAEIEQSIIE-AMY--- 442

                        250       260       270       280
                 ....*....|....*....|....*....|....*....|..
gi 18403587  325 rtLAILEDREdvvpedelpkigpILPEDIDRALSNTRPSAHL 366
Cdd:CHL00195 443 --IAFYEKRE-------------FTTDDILLALKQFIPLAQT 469
RecA-like_IQCA1 cd19506
ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein ...
 137-268 3.69e-12

ATPase domain of IQ and AAA domain-containing protein 1 (IQCA1); IQCA1 (also known as dynein regulatory complex subunit 11, DRC11 and IQCA) is an ATPase subunit of the nexin-dynein regulatory complex (N-DRC). The 9 + 2 axoneme of most motile cilia and flagella consists of nine outer doublet microtubules arranged in a ring surrounding a central pair of two singlet microtubules. The N-DRC complex maintains alignment between outer doublet microtubules and limits microtubule sliding in motile axonemes. 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: 410914 [Multi-domain]  Cd Length: 160  Bit Score: 63.70  E-value: 3.69e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 137 KGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRGDS--EKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGE 214
Cdd:cd19506  27 KSLLLAGPSGVGKKMLVHAICTETGANLFNLSPSNIAGKYPGKNglQMMLHLVLKVARQLQPSVIWIGDAEKTFYKKVPK 106

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....
gi 18403587 215 GRSEHEaSRRLKTELLIQMDGLQKTNELVFVlAATNLPWELDAAMLRRLEKRIL 268
Cdd:cd19506 107 TEKQLD-PKRLKKDLPKILKSLKPEDRVLIV-GTTSRPFEADLKSFCKVYNKII 158
RecA-like_BCS1 cd19510
Mitochondrial chaperone BCS1; Mitochondrial chaperone BCS1 is necessary for the assembly of ...
 123-262 7.45e-12

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: 62.75  E-value: 7.45e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 123 IKYPTYFNGLLTPWK-GILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVskwrgDSEKLIRVLfdLARHHAPSTIFL 201
Cdd:cd19510   9 IKNEDWYNDRGIPYRrGYLLYGPPGTGKSSFIAALAGELDYDICDLNLSEVV-----LTDDRLNHL--LNTAPKQSIILL 81

                        90       100       110       120       130       140
                ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 18403587 202 DEIDAIISQR--GGEGRSEHEASRRLK-TELLIQMDGLQKTNELVFVLaATNLPWELDAAMLRR 262
Cdd:cd19510  82 EDIDAAFESRehNKKNPSAYGGLSRVTfSGLLNALDGVASSEERIVFM-TTNHIERLDPALIRP 144
RecA-like_ATAD3-like cd19512
ATPase domains of ATPase AAA-domain protein 3A (ATAD3A), -3B, and -3C, and similar ATPase ...
 135-267 1.68e-11

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: 61.77  E-value: 1.68e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 135 PWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKWRgDSEKLIRVLFDLARHHAPSTI-FLDEIDAIISQRGG 213
Cdd:cd19512  21 LYRNILFYGPPGTGKTLFAKKLALHSGMDYAIMTGGDVAPMGR-EGVTAIHKVFDWANTSRRGLLlFVDEADAFLRKRST 99

                        90       100       110       120       130
                ....*....|....*....|....*....|....*....|....*....|....
gi 18403587 214 EGRSehEASRRLKTELLIQMDglQKTNELVFVLaATNLPWELDAAMLRRLEKRI 267
Cdd:cd19512 100 EKIS--EDLRAALNAFLYRTG--EQSNKFMLVL-ASNQPEQFDWAINDRIDEMV 148
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 139-204 1.64e-08

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 55.83  E-value: 1.64e-08
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 18403587 139 ILLFGPPGTGKTMLAKAVATECNTTFFNISA--SSVvskwrgdseKLIRVLFDLARHHAPS---TI-FLDEI 204
Cdd:COG2256  52 MILWGPPGTGKTTLARLIANATDAEFVALSAvtSGV---------KDIREVIEEARERRAYgrrTIlFVDEI 114
AAA_lid_3 pfam17862
AAA+ lid domain; This entry represents the alpha helical AAA+ lid domain that is found to the ...
 297-334 1.86e-08

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: 49.84  E-value: 1.86e-08
                          10        20        30
                  ....*....|....*....|....*....|....*...
gi 18403587   297 DVLVEKSEGYSGSDIRILCKEAAMQPLRRTLAILEDRE 334
Cdd:pfam17862   5 EELAERTEGFSGADLEALCREAALAALRRGLEAVTQED 42
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 139-204 4.86e-08

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 54.32  E-value: 4.86e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  139 ILLFGPPGTGKTMLAKAVATECNTTFFNISASSvvskwrgDSEKLIRVLFDLARHHAPS---TI-FLDEI 204
Cdd:PRK13342  39 MILWGPPGTGKTTLARIIAGATDAPFEALSAVT-------SGVKDLREVIEEARQRRSAgrrTIlFIDEI 101
TIP49 COG1224
DNA helicase TIP49, TBP-interacting protein [Transcription];
137-187 1.11e-06

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


Pssm-ID: 440837 [Multi-domain]  Cd Length: 452  Bit Score: 50.35  E-value: 1.11e-06
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 18403587 137 KGILLFGPPGTGKTMLAKAVATEC--NTTFFNISASSVVSKWRGDSEKLIRVL 187
Cdd:COG1224  65 KGILIVGPPGTGKTALAVAIARELgeDTPFVAISGSEIYSAELKKTEFLMQAL 117
AAA_2 pfam07724
AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected ...
 139-207 1.27e-05

AAA domain (Cdc48 subfamily); This Pfam entry includes some of the AAA proteins not detected by the pfam00004 model.


Pssm-ID: 400187 [Multi-domain]  Cd Length: 168  Bit Score: 45.26  E-value: 1.27e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   139 ILLFGPPGTGKTMLAKAVA-----TECNTTFFNISA---SSVVSKWRGDSEKLIRV-----LFDLARHHAPSTIFLDEID 205
Cdd:pfam07724   6 FLFLGPTGVGKTELAKALAellfgDERALIRIDMSEymeEHSVSRLIGAPPGYVGYeeggqLTEAVRRKPYSIVLIDEIE 85


                  ..
gi 18403587   206 AI 207
Cdd:pfam07724  86 KA 87
RecA-like_HslU cd19498
ATP-dependent protease ATPase subunit HslU; HslU is a component of the ATP-dependent protease ...
 133-223 2.35e-05

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: 44.68  E-value: 2.35e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 133 LTPwKGILLFGPPGTGKTMLAKAVATECNTTFFNISAS--SVVSKWRGDSEKLIRVLFDlarhhapSTIFLDEIDAIISQ 210
Cdd:cd19498  44 VTP-KNILMIGPTGVGKTEIARRLAKLAGAPFIKVEATkfTEVGYVGRDVESIIRDLVE-------GIVFIDEIDKIAKR 115

                        90
                ....*....|...
gi 18403587 211 RGGEGrseHEASR 223
Cdd:cd19498 116 GGSSG---PDVSR 125
RecA-like_Ycf2 cd19505
ATPase domain of plant YCF2; Ycf2 is a chloroplast ATPase which has an essential function; ...
 133-267 3.72e-05

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: 43.52  E-value: 3.72e-05
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 133 LTPWKGILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKW--------------RGDSEKLIRVLFDLARHHAPST 198
Cdd:cd19505   9 LSPSKGILLIGSIETGRSYLIKSLAANSYVPLIRISLNKLLYNKpdfgnddwidgmliLKESLHRLNLQFELAKAMSPCI 88

                        90       100       110       120       130       140       150
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 18403587 199 IFLDEIDAIISQRGGEgrsEHEASRRLKTELL---IQMDGLQKTNELVFVLAATNLPWELDAAML--RRLEKRI 267
Cdd:cd19505  89 IWIPNIHELNVNRSTQ---NLEEDPKLLLGLLlnyLSRDFEKSSTRNILVIASTHIPQKVDPALIapNRLDTCI 159
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
139-204 8.40e-05

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 43.97  E-value: 8.40e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18403587  139 ILLFGPPGTGKTMLAKAVATECNTTFFNISAsSVVSKwRGDsekLIRVLFDLARHhapSTIFLDEI 204
Cdd:PRK00080  54 VLLYGPPGLGKTTLANIIANEMGVNIRITSG-PALEK-PGD---LAAILTNLEEG---DVLFIDEI 111
TIP49 pfam06068
TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and ...
 137-174 1.45e-04

TIP49 P-loop domain; This family consists of the C-terminal region of several eukaryotic and archaeal RuvB-like 1 (Pontin or TIP49a) and RuvB-like 2 (Reptin or TIP49b) proteins. The N-terminal domain contains the pfam00004 domain. In zebrafish, the liebeskummer (lik) mutation, causes development of hyperplastic embryonic hearts. lik encodes Reptin, a component of a DNA-stimulated ATPase complex. Beta-catenin and Pontin, a DNA-stimulated ATPase that is often part of complexes with Reptin, are in the same genetic pathways. The Reptin/Pontin ratio serves to regulate heart growth during development, at least in part via the beta-catenin pathway. TBP-interacting protein 49 (TIP49) was originally identified as a TBP-binding protein, and two related proteins are encoded by individual genes, tip49a and b. Although the function of this gene family has not been elucidated, they are supposed to play a critical role in nuclear events because they interact with various kinds of nuclear factors and have DNA helicase activities.TIP49a has been suggested to act as an autoantigen in some patients with autoimmune diseases.


Pssm-ID: 399217 [Multi-domain]  Cd Length: 347  Bit Score: 43.45  E-value: 1.45e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|
gi 18403587   137 KGILLFGPPGTGKTMLAKAVATECN--TTFFNISASSVVS 174
Cdd:pfam06068  51 RAVLIAGPPGTGKTALAIAISKELGedTPFTSISGSEVYS 90
RecA-like_Lon cd19500
lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an ...
 139-168 2.64e-04

lon protease homolog 2 peroxisomal; Lon protease (also known as Lon peptidase) is an evolutionarily conserved ATP-dependent serine protease, present in bacteria and eukaryotic mitochondria and peroxisomes, which mediates the selective degradation of mutant and abnormal proteins as well as certain short-lived regulatory proteins. Lon protease is both an ATP-dependent peptidase and a protein-activated ATPase. This RecA-like Lon domain 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: 410908 [Multi-domain]  Cd Length: 182  Bit Score: 41.39  E-value: 2.64e-04
                        10        20        30
                ....*....|....*....|....*....|.
gi 18403587 139 ILLF-GPPGTGKTMLAKAVATECNTTFFNIS 168
Cdd:cd19500  39 ILCLvGPPGVGKTSLGKSIARALGRKFVRIS 69
YifB COG0606
Predicted Mg-chelatase, contains ChlI-like and ATPase domains, YifB family [Posttranslational ...
 139-158 2.93e-04

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: 42.72  E-value: 2.93e-04
                        10        20
                ....*....|....*....|
gi 18403587 139 ILLFGPPGTGKTMLAKAVAT 158
Cdd:COG0606 214 LLMIGPPGSGKTMLARRLPG 233
PRK08116 PRK08116
hypothetical protein; Validated
 138-241 3.09e-04

hypothetical protein; Validated


Pssm-ID: 236153 [Multi-domain]  Cd Length: 268  Bit Score: 41.93  E-value: 3.09e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  138 GILLFGPPGTGKTMLAKAVATECnttffnisassvvskwrgdSEKLIRVLFDlarhhapSTI-FLDEIDAIISQRGGEGR 216
Cdd:PRK08116 116 GLLLWGSVGTGKTYLAACIANEL-------------------IEKGVPVIFV-------NFPqLLNRIKSTYKSSGKEDE 169

                         90       100
                 ....*....|....*....|....*..
gi 18403587  217 SEHeaSRRLK-TELLIQMD-GLQKTNE 241
Cdd:PRK08116 170 NEI--IRSLVnADLLILDDlGAERDTE 194
T7SS_EccA TIGR03922
type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the ...
 107-215 5.12e-04

type VII secretion AAA-ATPase EccA; This model represents the AAA family ATPase, EccA, of the actinobacterial flavor of type VII secretion systems. Species such as Mycobacterium tuberculosis have several instances of this system per genome, designated EccA1, EccA2, etc. [Protein fate, Protein and peptide secretion and trafficking]


Pssm-ID: 188437 [Multi-domain]  Cd Length: 557  Bit Score: 42.14  E-value: 5.12e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   107 GLENAK---KLLKEAVVMPIKYPTYfnGLLTPW--KGILLFGPPGTGKTMLAKAVATE-CNTTFF------NISASSVVS 174
Cdd:TIGR03922 280 GLERVKrqvAALKSSTAMALARAER--GLPVAQtsNHMLFAGPPGTGKTTIARVVAKIyCGLGVLrkplvrEVSRADLIG 357

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|.
gi 18403587   175 KWRGDSEKLIRVLFDLARHHApstIFLDEIDAIISQRGGEG 215
Cdd:TIGR03922 358 QYIGESEAKTNEIIDSALGGV---LFLDEAYTLVETGYGQK 395
DnaC COG1484
DNA replication protein DnaC [Replication, recombination and repair];
137-231 6.92e-04

DNA replication protein DnaC [Replication, recombination and repair];


Pssm-ID: 441093 [Multi-domain]  Cd Length: 242  Bit Score: 40.92  E-value: 6.92e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 137 KGILLFGPPGTGKTMLAKAVATECnttffnisassvvskwrgdSEKLIRVLFdlarHHAPStiFLDEI-DAIisqrgGEG 215
Cdd:COG1484 100 ENLILLGPPGTGKTHLAIALGHEA-------------------CRAGYRVRF----TTAPD--LVNELkEAR-----ADG 149

                        90
                ....*....|....*.
gi 18403587 216 RSEHEASRRLKTELLI 231
Cdd:COG1484 150 RLERLLKRLAKVDLLI 165
Mg_chelatase pfam01078
Magnesium chelatase, subunit ChlI; Magnesium-chelatase is a three-component enzyme that ...
 139-158 8.06e-04

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: 40.21  E-value: 8.06e-04
                          10        20
                  ....*....|....*....|
gi 18403587   139 ILLFGPPGTGKTMLAKAVAT 158
Cdd:pfam01078  25 LLMIGPPGSGKTMLAKRLPG 44
3a01205 TIGR00956
Pleiotropic Drug Resistance (PDR) Family protein; [Transport and binding proteins, Other]
 98-174 9.89e-04

Pleiotropic Drug Resistance (PDR) Family protein; [Transport and binding proteins, Other]


Pssm-ID: 273362 [Multi-domain]  Cd Length: 1394  Bit Score: 41.25  E-value: 9.89e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587     98 PNIKW----ESIKGLENAKKLLKEAVVMPIkyptyfNGLLTPWKGILLFGPPGTGKTMLAKAVAteCNTTFFNISASSVV 173
Cdd:TIGR00956   51 PNALLkiltRGFRKLKKFRDTKTFDILKPM------DGLIKPGELTVVLGRPGSGCSTLLKTIA--SNTDGFHIGVEGVI 122


                   .
gi 18403587    174 S 174
Cdd:TIGR00956  123 T 123
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 139-207 1.01e-03

Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions are known are 5'-3' DNA helicases that, as part of a complex with RuvA homologs serve as a 5'-3' Holliday junction helicase. RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129721 [Multi-domain]  Cd Length: 305  Bit Score: 40.75  E-value: 1.01e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 18403587   139 ILLFGPPGTGKTMLAKAVATECNTTFFNISASSVVSKwrGDsekLIRVLFDLARHhapSTIFLDEIDAI 207
Cdd:TIGR00635  33 LLLYGPPGLGKTTLAHIIANEMGVNLKITSGPALEKP--GD---LAAILTNLEEG---DVLFIDEIHRL 93
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 139-164 1.03e-03

MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway/BioSystem: Cobalamine/B12 biosynthesis


Pssm-ID: 440478 [Multi-domain]  Cd Length: 292  Bit Score: 40.54  E-value: 1.03e-03
                        10        20
                ....*....|....*....|....*.
gi 18403587 139 ILLFGPPGTGKTMLAKAVATECNTTF 164
Cdd:COG0714  34 LLLEGVPGVGKTTLAKALARALGLPF 59
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 138-263 1.65e-03

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: 38.43  E-value: 1.65e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587   138 GILLFGPPGTGKTMLAK--AVATECNTTFF-----NISASSVVSKWR---GDSEKLIRVLFDLARHhaPSTIFLDEIDai 207
Cdd:pfam07728   1 GVLLVGPPGTGKTELAErlAAALSNRPVFYvqltrDTTEEDLFGRRNidpGGASWVDGPLVRAARE--GEIAVLDEIN-- 76

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18403587   208 isqrggegRSEHEASRRLKTEL----LIQMDG---LQKTNELVFVLAATNLP----WELDAAMLRRL 263
Cdd:pfam07728  77 --------RANPDVLNSLLSLLderrLLLPDGgelVKAAPDGFRLIATMNPLdrglNELSPALRSRF 135
PRK13341 PRK13341
AAA family ATPase;
140-204 1.72e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 40.42  E-value: 1.72e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587  140 LLFGPPGTGKTMLAKAVATECNTTFFNISAssVVSkwrGDSEklIRVLFDLAR----HHAPSTI-FLDEI 204
Cdd:PRK13341  56 ILYGPPGVGKTTLARIIANHTRAHFSSLNA--VLA---GVKD--LRAEVDRAKerleRHGKRTIlFIDEV 118
RNA_helicase pfam00910
RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding ...
 139-209 1.82e-03

RNA helicase; This family includes RNA helicases thought to be involved in duplex unwinding during viral RNA replication. Members of this family are found in a variety of single stranded RNA viruses.


Pssm-ID: 459992  Cd Length: 102  Bit Score: 37.58  E-value: 1.82e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 18403587   139 ILLFGPPGTGKTMLAKAVATECNTTfFNISASSVVSK------WRGDSEKLIRVLFDLARHhaPSTIFLDEIDAIIS 209
Cdd:pfam00910   1 IWLYGPPGCGKSTLAKYLARALLKK-LGLPKDSVYSRnpdddfWDGYTGQPVVIIDDFGQN--PDGPDEAELIRLVS 74
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 139-204 2.45e-03

Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the RuvABC revolvasome which catalyzes the resolution of Holliday junctions that arise during genetic recombination and DNA repair. Branch migration is catalyzed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein. This family contains the N-terminal region of the protein.


Pssm-ID: 398900 [Multi-domain]  Cd Length: 159  Bit Score: 38.25  E-value: 2.45e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 18403587   139 ILLFGPPGTGKTMLAKAVATECNTTfFNISASSVVSKwRGDsekLIRVLFDLARHhapSTIFLDEI 204
Cdd:pfam05496  36 VLLYGPPGLGKTTLANIIANEMGVN-IRITSGPAIER-PGD---LAAILTNLEPG---DVLFIDEI 93
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 139-204 2.53e-03

Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, recombination and repair];


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 39.68  E-value: 2.53e-03
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 18403587 139 ILLFGPPGTGKTMLAKAVATECNTtffNISASS--VVSKwRGDsekLIRVLFDLARHhapSTIFLDEI 204
Cdd:COG2255  57 VLLYGPPGLGKTTLAHIIANEMGV---NIRITSgpAIEK-PGD---LAAILTNLEEG---DVLFIDEI 114
IS21_help_AAA NF038214
IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was ...
 139-160 5.85e-03

IS21-like element helper ATPase IstB; This protein family model resembles PF01695, but was built to hit full-length AAA+ ATPases of IS21 family IS (insertion sequence) elements.


Pssm-ID: 439516  Cd Length: 232  Bit Score: 37.84  E-value: 5.85e-03
                         10        20
                 ....*....|....*....|..
gi 18403587  139 ILLFGPPGTGKTMLAKAVATEC 160
Cdd:NF038214  93 VLLLGPPGTGKTHLAIALGYAA 114
RecA-like_superfamily cd01120
RecA-like_NTPases; RecA-like NTPases. This superfamily includes the NTP binding domain of F1 ...
 139-218 6.63e-03

RecA-like_NTPases; RecA-like NTPases. This superfamily 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: 410865 [Multi-domain]  Cd Length: 119  Bit Score: 36.33  E-value: 6.63e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 139 ILLFGPPGTGKTMLAKAVATE-CNTTFFNISASSVvskwrgdsEKLIRVLFDLARHHAPSTIFLDEIDAIISQRGGEGRS 217
Cdd:cd01120   1 ILITGPPGSGKTTLLLQFAEQaLLSDEPVIFISFL--------DTILEAIEDLIEEKKLDIIIIDSLSSLARASQGDRSS 72


                .
gi 18403587 218 E 218
Cdd:cd01120  73 E 73
DYN1 COG5245
Dynein, heavy chain [Cytoskeleton];
102-152 7.05e-03

Dynein, heavy chain [Cytoskeleton];


Pssm-ID: 227570 [Multi-domain]  Cd Length: 3164  Bit Score: 38.82  E-value: 7.05e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 18403587  102 WESIKG--LENAKKLLKEAVVMP----IKYPTYFNGLLTPWKGILLFGPPGTGKTML 152
Cdd:COG5245 1454 NGSIAGfeLRGERVMLRKEVVIPtsdtGFVDSFSNEALNTLRSYIYCGPPGSGKEML 1510
PRK04195 PRK04195
replication factor C large subunit; Provisional
 135-159 7.71e-03

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 38.36  E-value: 7.71e-03
                         10        20
                 ....*....|....*....|....*
gi 18403587  135 PWKGILLFGPPGTGKTMLAKAVATE 159
Cdd:PRK04195  38 PKKALLLYGPPGVGKTSLAHALAND 62
PspF COG1221
Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain ...
 108-155 7.91e-03

Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription, Signal transduction mechanisms];


Pssm-ID: 440834 [Multi-domain]  Cd Length: 835  Bit Score: 38.55  E-value: 7.91e-03
                        10        20        30        40
                ....*....|....*....|....*....|....*....|....*...
gi 18403587 108 LENAKKLLKEAvvmpIKYPTyfNGLLTpwkgiLLFGPPGTGKTMLAKA 155
Cdd:COG1221 113 LKNAIEQAKAA----ILYPP--KGLHT-----LILGPTGVGKSFFAEL 149
RecA-like_ClpB_Hsp104-like cd19499
Chaperone protein ClpB/Hsp104 subfamily; Bacterial Caseinolytic peptidase B (ClpB) and ...
 138-205 8.54e-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: 36.77  E-value: 8.54e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 138 GILLF-GPPGTGKTMLAKAVA-----TECNTTFFNISASSvvskWRGDSEKLIR------------VLFDLARHHAPSTI 199
Cdd:cd19499  42 GSFLFlGPTGVGKTELAKALAellfgDEDNLIRIDMSEYM----EKHSVSRLIGappgyvgyteggQLTEAVRRKPYSVV 117


                ....*.
gi 18403587 200 FLDEID 205
Cdd:cd19499 118 LLDEIE 123
NadR3 COG3172
Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase ...
 139-164 9.08e-03

Nicotinamide riboside kinase [Coenzyme transport and metabolism]; Nicotinamide riboside kinase is part of the Pathway/BioSystem: NAD biosynthesis


Pssm-ID: 442405 [Multi-domain]  Cd Length: 178  Bit Score: 36.72  E-value: 9.08e-03
                        10        20
                ....*....|....*....|....*.
gi 18403587 139 ILLFGPPGTGKTMLAKAVATECNTTF 164
Cdd:COG3172  11 IVLLGAESTGKTTLARALAAHYNTPW 36
RecA-like_ClpX cd19497
ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent ...
 107-207 9.09e-03

ATP-dependent Clp protease ATP-binding subunit ClpX; ClpX is a component of the ATP-dependent protease ClpXP. In ClpXP, ClpX ATPase serves to specifically recognize, unfold, and translocate protein substrates into the chamber of ClpP protease for degradation. This RecA-like_ClpX domain 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: 410905 [Multi-domain]  Cd Length: 251  Bit Score: 37.58  E-value: 9.09e-03
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 18403587 107 GLENAKKLLKEAVvmpikYPTY---FNGLLTPWKG-------ILLFGPPGTGKTMLAKAVATECNTTFFNISASSV---- 172
Cdd:cd19497  16 GQERAKKVLSVAV-----YNHYkriRNNLKQKDDDveleksnILLIGPTGSGKTLLAQTLAKILDVPFAIADATTLteag 90

                        90       100       110       120
                ....*....|....*....|....*....|....*....|.
gi 18403587 173 -VSKwrgDSEKLI-RVL----FDLARHHApSTIFLDEIDAI 207
Cdd:cd19497  91 yVGE---DVENILlKLLqaadYDVERAQR-GIVYIDEIDKI 127
 
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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