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Conserved domains on  [gi|157786594|ref|NP_001099243|]
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chromosome transmission fidelity protein 18 homolog [Rattus norvegicus]

Protein Classification

ATP-binding protein( domain architecture ID 1005821)

ATP-binding protein with an AAA (ATPases Associated with various cellular Activities) domain, similar to human ATPase family AAA domain-containing protein 5 that is involved in DNA damage response

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
PRK04195 super family cl35251
replication factor C large subunit; Provisional
 340-587 1.17e-31

replication factor C large subunit; Provisional


The actual alignment was detected with superfamily member PRK04195:

Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 130.04  E-value: 1.17e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 340 HEQVLEEMLE-AELDPSRRPrQKVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSPEAFRTRIEAATQMESVLGA 418
Cdd:PRK04195  19 NEKAKEQLREwIESWLKGKP-KKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEAATSGSLFGA 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 419 GGRpncLVI-DEIDG----APTAAINVLLSILNrkgpqEAEQggtavaaaggrrrraegglltrPIICICNDQFTPSLRQ 493
Cdd:PRK04195  98 RRK---LILlDEVDGihgnEDRGGARAILELIK-----KAKQ----------------------PIILTANDPYDPSLRE 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 494 LKQQALLLHVPPtLPSR-LVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQFLyGRGQRELSVKDVQTthVGL 572
Cdd:PRK04195 148 LRNACLMIEFKR-LSTRsIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAI-AEGYGKLTLEDVKT--LGR 223

                        250
                 ....*....|....*
gi 157786594 573 KDQRKGLFSVWQEVF 587
Cdd:PRK04195 224 RDREESIFDALDAVF 238
 
Name Accession Description Interval E-value
PRK04195 PRK04195
replication factor C large subunit; Provisional
 340-587 1.17e-31

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 130.04  E-value: 1.17e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 340 HEQVLEEMLE-AELDPSRRPrQKVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSPEAFRTRIEAATQMESVLGA 418
Cdd:PRK04195  19 NEKAKEQLREwIESWLKGKP-KKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEAATSGSLFGA 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 419 GGRpncLVI-DEIDG----APTAAINVLLSILNrkgpqEAEQggtavaaaggrrrraegglltrPIICICNDQFTPSLRQ 493
Cdd:PRK04195  98 RRK---LILlDEVDGihgnEDRGGARAILELIK-----KAKQ----------------------PIILTANDPYDPSLRE 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 494 LKQQALLLHVPPtLPSR-LVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQFLyGRGQRELSVKDVQTthVGL 572
Cdd:PRK04195 148 LRNACLMIEFKR-LSTRsIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAI-AEGYGKLTLEDVKT--LGR 223

                        250
                 ....*....|....*
gi 157786594 573 KDQRKGLFSVWQEVF 587
Cdd:PRK04195 224 RDREESIFDALDAVF 238
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 345-515 1.86e-14

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: 71.79  E-value: 1.86e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 345 EEMLEAELDPSRRPRQKVALLCGPPGLGKTTLAHVVARHAGYC---VVEMNASDDRSPEAFRTRIEA-ATQMESVLGAGG 420
Cdd:cd00009    4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPgapFLYLNASDLLEGLVVAELFGHfLVRLLFELAEKA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 421 RPNCLVIDEIDGAPTAAINVLLSILNrkgpqeaeqggtavaaaggRRRRAEGGLLTRPIICICNDqftpslrqlkqqALL 500
Cdd:cd00009   84 KPGVLFIDEIDSLSRGAQNALLRVLE-------------------TLNDLRIDRENVRVIGATNR------------PLL 132

                        170
                 ....*....|....*
gi 157786594 501 LHVPPTLPSRLVQRL 515
Cdd:cd00009  133 GDLDRALYDRLDIRI 147
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 364-447 4.22e-12

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: 64.15  E-value: 4.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594  364 LLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDR------SPEAFRTRIEAATQMesvlgaggRPNCLVIDEID------ 431
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVskyvgeSEKRLRELFEAAKKL--------APCVIFIDEIDalagsr 73

                          90       100
                  ....*....|....*....|.
gi 157786594  432 -----GAPTAAINVLLSILNR 447
Cdd:pfam00004  74 gsggdSESRRVVNQLLTELDG 94
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 359-489 6.20e-07

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


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 50.06  E-value: 6.20e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594   359 RQKVALLCGPPGLGKTTLAHVVARHA---GYCVVEMNASDDRSPEAFRTRIEAATQMESVLGAGGR------------PN 423
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRlrlalalarklkPD 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 157786594   424 CLVIDEIDGAPTAAINVLLSILNRKGPQEAEQGGTAvaaaggrrrraegglltRPIICICNDQFTP 489
Cdd:smart00382  81 VLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKN-----------------LTVILTTNDEKDL 129
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 364-394 5.03e-06

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


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 49.69  E-value: 5.03e-06
                         10        20        30
                 ....*....|....*....|....*....|.
gi 157786594 364 LLCGPPGLGKTTLAHVVARhagycvvEMNAS 394
Cdd:COG2255   58 LLYGPPGLGKTTLAHIIAN-------EMGVN 81
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 364-394 1.49e-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: 41.90  E-value: 1.49e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 157786594  364 LLCGPPGLGKTTLAHVVARhagycvvEMNAS 394
Cdd:TIGR00635  34 LLYGPPGLGKTTLAHIIAN-------EMGVN 57
 
Name Accession Description Interval E-value
PRK04195 PRK04195
replication factor C large subunit; Provisional
 340-587 1.17e-31

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 130.04  E-value: 1.17e-31
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 340 HEQVLEEMLE-AELDPSRRPrQKVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSPEAFRTRIEAATQMESVLGA 418
Cdd:PRK04195  19 NEKAKEQLREwIESWLKGKP-KKALLLYGPPGVGKTSLAHALANDYGWEVIELNASDQRTADVIERVAGEAATSGSLFGA 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 419 GGRpncLVI-DEIDG----APTAAINVLLSILNrkgpqEAEQggtavaaaggrrrraegglltrPIICICNDQFTPSLRQ 493
Cdd:PRK04195  98 RRK---LILlDEVDGihgnEDRGGARAILELIK-----KAKQ----------------------PIILTANDPYDPSLRE 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 494 LKQQALLLHVPPtLPSR-LVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQFLyGRGQRELSVKDVQTthVGL 572
Cdd:PRK04195 148 LRNACLMIEFKR-LSTRsIVPVLKRICRKEGIECDDEALKEIAERSGGDLRSAINDLQAI-AEGYGKLTLEDVKT--LGR 223

                        250
                 ....*....|....*
gi 157786594 573 KDQRKGLFSVWQEVF 587
Cdd:PRK04195 224 RDREESIFDALDAVF 238
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 345-515 1.86e-14

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: 71.79  E-value: 1.86e-14
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 345 EEMLEAELDPSRRPRQKVALLCGPPGLGKTTLAHVVARHAGYC---VVEMNASDDRSPEAFRTRIEA-ATQMESVLGAGG 420
Cdd:cd00009    4 EEAIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELFRPgapFLYLNASDLLEGLVVAELFGHfLVRLLFELAEKA 83

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 421 RPNCLVIDEIDGAPTAAINVLLSILNrkgpqeaeqggtavaaaggRRRRAEGGLLTRPIICICNDqftpslrqlkqqALL 500
Cdd:cd00009   84 KPGVLFIDEIDSLSRGAQNALLRVLE-------------------TLNDLRIDRENVRVIGATNR------------PLL 132

                        170
                 ....*....|....*
gi 157786594 501 LHVPPTLPSRLVQRL 515
Cdd:cd00009  133 GDLDRALYDRLDIRI 147
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
 508-568 3.69e-13

helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein clamp loader complex that forms a stable ATP-dependent complex with the sliding clamp, PCNA, which binds specifically to primed DNA. RFC subunits belong to the clamp loader clade of the AAA+ superfamily.


Pssm-ID: 350842 [Multi-domain]  Cd Length: 63  Bit Score: 64.86  E-value: 3.69e-13
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 157786594 508 PSRLVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQFLYgRGQRELSVKDVQTT 568
Cdd:cd18140    3 KEQIVKRLREICKKEGVKIDEEALEAIAEKSEGDMRKAINDLQAAA-AGGGVITEEDVYEV 62
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 364-447 4.22e-12

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: 64.15  E-value: 4.22e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594  364 LLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDR------SPEAFRTRIEAATQMesvlgaggRPNCLVIDEID------ 431
Cdd:pfam00004   2 LLYGPPGTGKTTLAKAVAKELGAPFIEISGSELVskyvgeSEKRLRELFEAAKKL--------APCVIFIDEIDalagsr 73

                          90       100
                  ....*....|....*....|.
gi 157786594  432 -----GAPTAAINVLLSILNR 447
Cdd:pfam00004  74 gsggdSESRRVVNQLLTELDG 94
AAA_5 pfam07728
AAA domain (dynein-related subfamily); This Pfam entry includes some of the AAA proteins not ...
 364-448 4.57e-09

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: 55.76  E-value: 4.57e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594  364 LLCGPPGLGKTTLAHVVARH-AGYCVVEMNASDDRSPEAFRTRIEAATQM----ESVLGAGGRPNC-LVIDEIDGAPTAA 437
Cdd:pfam07728   3 LLVGPPGTGKTELAERLAAAlSNRPVFYVQLTRDTTEEDLFGRRNIDPGGaswvDGPLVRAAREGEiAVLDEINRANPDV 82

                          90
                  ....*....|.
gi 157786594  438 INVLLSILNRK 448
Cdd:pfam07728  83 LNSLLSLLDER 93
PLN03025 PLN03025
replication factor C subunit; Provisional
 364-437 2.35e-08

replication factor C subunit; Provisional


Pssm-ID: 178596 [Multi-domain]  Cd Length: 319  Bit Score: 57.05  E-value: 2.35e-08
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 157786594 364 LLCGPPGLGKTTLAHVVARH---AGY--CVVEMNASDDRSPEAFRTRIEAATQMESVLgAGGRPNCLVIDEIDGAPTAA 437
Cdd:PLN03025  38 ILSGPPGTGKTTSILALAHEllgPNYkeAVLELNASDDRGIDVVRNKIKMFAQKKVTL-PPGRHKIVILDEADSMTSGA 115
AAA_22 pfam13401
AAA domain;
356-446 3.62e-08

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 53.11  E-value: 3.62e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594  356 RRPRQKVALLCGPPGLGKTTLA-HVVARHAGYC--VVEMNASDDRSPEAFRTRIEAAT---------------QMESVLG 417
Cdd:pfam13401   1 IRFGAGILVLTGESGTGKTTLLrRLLEQLPEVRdsVVFVDLPSGTSPKDLLRALLRALglplsgrlskeellaALQQLLL 80

                          90       100
                  ....*....|....*....|....*....
gi 157786594  418 AGGRPNCLVIDEIDGAPTAAINVLLSILN 446
Cdd:pfam13401  81 ALAVAVVLIIDEAQHLSLEALEELRDLLN 109
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 341-431 2.35e-07

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: 51.51  E-value: 2.35e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 341 EQVLEEMLEAELDPSRRPRQ-----KVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSPEafrtRIEAATQMESV 415
Cdd:cd19481    2 KASLREAVEAPRRGSRLRRYglglpKGILLYGPPGTGKTLLAKALAGELGLPLIVVKLSSLLSKY----VGESEKNLRKI 77

                         90
                 ....*....|....*...
gi 157786594 416 L-GAGGRPNCLV-IDEID 431
Cdd:cd19481   78 FeRARRLAPCILfIDEID 95
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 359-489 6.20e-07

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


Pssm-ID: 214640 [Multi-domain]  Cd Length: 148  Bit Score: 50.06  E-value: 6.20e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594   359 RQKVALLCGPPGLGKTTLAHVVARHA---GYCVVEMNASDDRSPEAFRTRIEAATQMESVLGAGGR------------PN 423
Cdd:smart00382   1 PGEVILIVGPPGSGKTTLARALARELgppGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGSGELRlrlalalarklkPD 80

                           90       100       110       120       130       140
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 157786594   424 CLVIDEIDGAPTAAINVLLSILNRKGPQEAEQGGTAvaaaggrrrraegglltRPIICICNDQFTP 489
Cdd:smart00382  81 VLILDEITSLLDAEQEALLLLLEELRLLLLLKSEKN-----------------LTVILTTNDEKDL 129
PRK13342 PRK13342
recombination factor protein RarA; Reviewed
 333-430 8.96e-07

recombination factor protein RarA; Reviewed


Pssm-ID: 237355 [Multi-domain]  Cd Length: 413  Bit Score: 52.39  E-value: 8.96e-07
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 333 APGKwksheqVLEEMLEAELDPSrrprqkvALLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSPEaFRTRIEAATQM 412
Cdd:PRK13342  22 GPGK------PLRRMIEAGRLSS-------MILWGPPGTGKTTLARIIAGATDAPFEALSAVTSGVKD-LREVIEEARQR 87

                         90
                 ....*....|....*...
gi 157786594 413 ESvlgAGGRPnCLVIDEI 430
Cdd:PRK13342  88 RS---AGRRT-ILFIDEI 101
RuvB COG2255
Holliday junction resolvasome RuvABC, ATP-dependent DNA helicase subunit RuvB [Replication, ...
 364-394 5.03e-06

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


Pssm-ID: 441856 [Multi-domain]  Cd Length: 337  Bit Score: 49.69  E-value: 5.03e-06
                         10        20        30
                 ....*....|....*....|....*....|.
gi 157786594 364 LLCGPPGLGKTTLAHVVARhagycvvEMNAS 394
Cdd:COG2255   58 LLYGPPGLGKTTLAHIIAN-------EMGVN 81
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 340-431 6.99e-06

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: 49.52  E-value: 6.99e-06
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 340 HEQVLEEMLEAELDPSRRPRQ---------KVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSP------EAFRT 404
Cdd:COG0464  162 LEEVKEELRELVALPLKRPELreeyglpppRGLLLYGPPGTGKTLLARALAGELGLPLIEVDLSDLVSKyvgeteKNLRE 241

                         90       100
                 ....*....|....*....|....*..
gi 157786594 405 RIEAATQMESVLgaggrpncLVIDEID 431
Cdd:COG0464  242 VFDKARGLAPCV--------LFIDEAD 260
RuvB_N pfam05496
Holliday junction DNA helicase RuvB P-loop domain; The RuvB protein makes up part of the ...
 364-394 9.61e-06

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: 46.72  E-value: 9.61e-06
                          10        20        30
                  ....*....|....*....|....*....|.
gi 157786594  364 LLCGPPGLGKTTLAHVVARhagycvvEMNAS 394
Cdd:pfam05496  37 LLYGPPGLGKTTLANIIAN-------EMGVN 60
ruvB PRK00080
Holliday junction branch migration DNA helicase RuvB;
364-394 1.19e-05

Holliday junction branch migration DNA helicase RuvB;


Pssm-ID: 234619 [Multi-domain]  Cd Length: 328  Bit Score: 48.59  E-value: 1.19e-05
                         10        20        30
                 ....*....|....*....|....*....|.
gi 157786594 364 LLCGPPGLGKTTLAHVVARhagycvvEMNAS 394
Cdd:PRK00080  55 LLYGPPGLGKTTLANIIAN-------EMGVN 78
RarA COG2256
Replication-associated recombination protein RarA (DNA-dependent ATPase) [Replication, ...
 364-430 2.37e-05

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


Pssm-ID: 441857 [Multi-domain]  Cd Length: 439  Bit Score: 47.74  E-value: 2.37e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 157786594 364 LLCGPPGLGKTTLAHVVARHAGYCVVEMNASDDRSPEaFRTRIEAAtqmESVLGAGGRPnCLVIDEI 430
Cdd:COG2256   53 ILWGPPGTGKTTLARLIANATDAEFVALSAVTSGVKD-IREVIEEA---RERRAYGRRT-ILFVDEI 114
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 341-395 5.27e-05

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 46.54  E-value: 5.27e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 157786594 341 EQVLEEMLEAELDPSRR----------PRQKVaLLCGPPGLGKTTLAHVVARHAGYCVVEMNASD 395
Cdd:COG1222   84 DEQIEEIREAVELPLKNpelfrkygiePPKGV-LLYGPPGTGKTLLAKAVAGELGAPFIRVRGSE 147
44 PHA02544
clamp loader, small subunit; Provisional
 364-556 8.80e-05

clamp loader, small subunit; Provisional


Pssm-ID: 222866 [Multi-domain]  Cd Length: 316  Bit Score: 45.75  E-value: 8.80e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 364 LLCGP-PGLGKTTLAHVVARHAGYCVVEMNASDDRSpEAFRTRIeaaTQMESVLGAGGRPNCLVIDEIDGAPTAAINVLL 442
Cdd:PHA02544  46 LLHSPsPGTGKTTVAKALCNEVGAEVLFVNGSDCRI-DFVRNRL---TRFASTVSLTGGGKVIIIDEFDRLGLADAQRHL 121

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 443 silnrKGPQEAEQGGTAvaaaggrrrraegglltrpIICICNDQ--FTPSLR------------QLKQQALLlhvpptlp 508
Cdd:PHA02544 122 -----RSFMEAYSKNCS-------------------FIITANNKngIIEPLRsrcrvidfgvptKEEQIEMM-------- 169

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*...
gi 157786594 509 SRLVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQFLYGRG 556
Cdd:PHA02544 170 KQMIVRCKGILEAEGVEVDMKVLAALVKKNFPDFRRTINELQRYASTG 217
rfc PRK00440
replication factor C small subunit; Reviewed
 364-550 2.61e-04

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 44.09  E-value: 2.61e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 364 LLCGPPGLGKTTLAHVVARHAgYC------VVEMNASDDRSPEAFRTRIEAATQMESVlgaGGRPNCLVI-DEIDGAPTA 436
Cdd:PRK00440  42 LFAGPPGTGKTTAALALAREL-YGedwrenFLELNASDERGIDVIRNKIKEFARTAPV---GGAPFKIIFlDEADNLTSD 117

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 437 AINVLLSILnrkgpqeaEQGGTAvaaaggrrrraeggllTRPIIcICN------D---------QFTPslrqLKQQAlll 501
Cdd:PRK00440 118 AQQALRRTM--------EMYSQN----------------TRFIL-SCNysskiiDpiqsrcavfRFSP----LKKEA--- 165

                        170       180       190       200
                 ....*....|....*....|....*....|....*....|....*....
gi 157786594 502 hvpptlpsrLVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQ 550
Cdd:PRK00440 166 ---------VAERLRYIAENEGIEITDDALEAIYYVSEGDMRKAINALQ 205
RecA-like_KTNA1 cd19522
Katanin p60 ATPase-containing subunit A1; Katanin p60 ATPase-containing subunit A1 (KTNA1) is ...
 356-455 2.96e-04

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: 42.66  E-value: 2.96e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 356 RRPRQKVaLLCGPPGLGKTTLAHVVARHAGycVVEMNASDDRSPEAFRTRIEAATQMESVLGAGGRPNCLVIDEIDgapt 435
Cdd:cd19522   30 RRPWKGV-LMVGPPGTGKTLLAKAVATECG--TTFFNVSSSTLTSKYRGESEKLVRLLFEMARFYAPTTIFIDEID---- 102

                         90       100
                 ....*....|....*....|
gi 157786594 436 aainvllSILNRKGPQEAEQ 455
Cdd:cd19522  103 -------SICSRRGTSEEHE 115
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 344-434 3.03e-04

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: 42.28  E-value: 3.03e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 344 LEEMLEAeldPSRRPRQ---------KVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASD------DRSPEAFRTRIEA 408
Cdd:cd19503   12 LKELIEL---PLKYPELfralglkppRGVLLHGPPGTGKTLLARAVANEAGANFLSISGPSivskylGESEKNLREIFEE 88

                         90       100
                 ....*....|....*....|....*..
gi 157786594 409 ATQMEsvlgaggrPNCLVIDEIDG-AP 434
Cdd:cd19503   89 ARSHA--------PSIIFIDEIDAlAP 107
HolB COG0470
DNA polymerase III, delta prime subunit [Replication, recombination and repair];
364-557 8.07e-04

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


Pssm-ID: 440238 [Multi-domain]  Cd Length: 289  Bit Score: 42.65  E-value: 8.07e-04
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 364 LLCGPPGLGKTTLAHVVARH-----------AGYC------------VVEMNA---SDDRSPEAFRTRIEAATQMesvlG 417
Cdd:COG0470   22 LLHGPPGIGKTTLALALARDllcenpeggkaCGQChsrlmaagnhpdLLELNPeekSDQIGIDQIRELGEFLSLT----P 97

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 418 AGGRPNCLVIDEIDGAPTAAINVLLSILNRkgPQEaeqggtavaaaggrrrraeggllTRPIICICND--QFTPSLRQLK 495
Cdd:COG0470   98 LEGGRKVVIIDEADAMNEAAANALLKTLEE--PPK-----------------------NTPFILIANDpsRLLPTIRSRC 152

                        170       180       190       200       210       220
                 ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 157786594 496 QQallLHVPPTLPSRLVQRLQeislQHGMrsDPGALAALCEKTDNDIRACINTLQFLYGRGQ 557
Cdd:COG0470  153 QV---IRFRPPSEEEALAWLR----EEGV--DEDALEAILRLAGGDPRAAINLLQALAGRKE 205
DNA_pol3_delta pfam06144
DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required ...
 485-552 1.28e-03

DNA polymerase III, delta subunit; DNA polymerase III, delta subunit (EC 2.7.7.7) is required for, along with delta' subunit, the assembly of the processivity factor beta(2) onto primed DNA in the DNA polymerase III holoenzyme-catalyzed reaction. The delta subunit is also known as HolA.


Pssm-ID: 428788 [Multi-domain]  Cd Length: 174  Bit Score: 40.73  E-value: 1.28e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 157786594  485 DQFTPSLRQLKQQALLLHV-PPTLpSRLVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQFL 552
Cdd:pfam06144 105 DERKKLTKLLKKKATVVECfTLKE-EELIQWIQSRAQELGLQIEPEAIELLCELVENNLSALAQELEKL 172
HolA COG1466
DNA polymerase III, delta subunit [Replication, recombination and repair];
494-566 1.35e-03

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


Pssm-ID: 441075 [Multi-domain]  Cd Length: 305  Bit Score: 41.78  E-value: 1.35e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 157786594 494 LKQQALLLHVPPTLPSRLVQRLQEISLQHGMRSDPGALAALCEKTDNDIRACINTLQ--FLYGRGQRELSVKDVQ 566
Cdd:COG1466  114 LEKAGVVVECYPLKERELPAWIRQRLKAAGLRIDPDAAQLLAERVGGDLLALAQELEklALYAGDGGTITLEDVE 188
ruvB TIGR00635
Holliday junction DNA helicase, RuvB subunit; All proteins in this family for which functions ...
 364-394 1.49e-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: 41.90  E-value: 1.49e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 157786594  364 LLCGPPGLGKTTLAHVVARhagycvvEMNAS 394
Cdd:TIGR00635  34 LLYGPPGLGKTTLAHIIAN-------EMGVN 57
Rad17 pfam03215
Rad17 P-loop domain;
338-414 1.88e-03

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 40.33  E-value: 1.88e-03
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 157786594  338 KSHEQVLEEMLEAELDPSRRPRqkVALLCGPPGLGKTTLAHVVARHAGYCVVE-MNASDDRSPEAFRTRIEAATQMES 414
Cdd:pfam03215  25 KRKIKDVQEWLDAMFLENAKHR--ILLISGPSGCGKSTVIKELSKELGPKYREwSNPTSFRSPPNQVTDFRGDCIVNS 100
PRK14970 PRK14970
DNA polymerase III subunits gamma and tau; Provisional
 364-445 2.21e-03

DNA polymerase III subunits gamma and tau; Provisional


Pssm-ID: 184934 [Multi-domain]  Cd Length: 367  Bit Score: 41.40  E-value: 2.21e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 364 LLCGPPGLGKTTLAHVVAR------------HAGYCVVEMNASDDRSPEAFRTRIEAATQMESVlgagGRPNCLVIDEID 431
Cdd:PRK14970  43 LFCGPRGVGKTTCARILARkinqpgyddpneDFSFNIFELDAASNNSVDDIRNLIDQVRIPPQT----GKYKIYIIDEVH 118

                         90
                 ....*....|....
gi 157786594 432 GAPTAAINVLLSIL 445
Cdd:PRK14970 119 MLSSAAFNAFLKTL 132
CDC48 TIGR01243
AAA family ATPase, CDC48 subfamily; This subfamily of the AAA family ATPases includes two ...
 323-434 2.40e-03

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: 41.82  E-value: 2.40e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594  323 EPTRVGKEAPAP-------GKWKSHEQVLEEMLEAeldPSRRPR---------QKVALLCGPPGLGKTTLAHVVARHAGY 386
Cdd:TIGR01243 162 KPVREEIERKVPkvtyediGGLKEAKEKIREMVEL---PMKHPElfehlgiepPKGVLLYGPPGTGKTLLAKAVANEAGA 238

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 157786594  387 CVVEMNA----------SDDRSPEAFRTRIEAAtqmesvlgaggrPNCLVIDEIDG-AP 434
Cdd:TIGR01243 239 YFISINGpeimskyygeSEERLREIFKEAEENA------------PSIIFIDEIDAiAP 285
COG2842 COG2842
Bacteriophage DNA transposition protein, AAA+ family ATPase [Mobilome: prophages, transposons]; ...
 363-441 3.04e-03

Bacteriophage DNA transposition protein, AAA+ family ATPase [Mobilome: prophages, transposons];


Pssm-ID: 442090 [Multi-domain]  Cd Length: 254  Bit Score: 40.32  E-value: 3.04e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 363 ALLCGPPGLGKT-TLAHVVARHAGYCVVEMNASDDRS------------PEAFRTRIEAATQMESVLGAGGRPncLVIDE 429
Cdd:COG2842   53 GVVYGESGVGKTtAAREYANRNPNVIYVTASPSWTSKelleelaeelgiPAPPGTIADLRDRILERLAGTGRL--LIIDE 130

                         90
                 ....*....|..
gi 157786594 430 IDGAPTAAINVL 441
Cdd:COG2842  131 ADHLKPKALEEL 142
PRK13341 PRK13341
AAA family ATPase;
363-430 3.23e-03

AAA family ATPase;


Pssm-ID: 237354 [Multi-domain]  Cd Length: 725  Bit Score: 41.19  E-value: 3.23e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 157786594 363 ALLCGPPGLGKTTLAHVVARHAGYCVVEMNA-----SDdrspeaFRTRIEAATQMesvLGAGGRPNCLVIDEI 430
Cdd:PRK13341  55 LILYGPPGVGKTTLARIIANHTRAHFSSLNAvlagvKD------LRAEVDRAKER---LERHGKRTILFIDEV 118
RecA-like_ATAD1 cd19520
ATPase domain of ATPase family AAA domain-containing protein 1 and similar ATPase domains; ...
 341-385 3.33e-03

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: 39.33  E-value: 3.33e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*
gi 157786594 341 EQVLEEMLEAELDPSRRPR----------QKVALLCGPPGLGKTTLAHVVARHAG 385
Cdd:cd19520    6 DEVITELKELVILPLQRPElfdnsrllqpPKGVLLYGPPGCGKTMLAKATAKEAG 60
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
358-431 4.25e-03

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 39.87  E-value: 4.25e-03
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 157786594 358 PRQKVaLLCGPPGLGKTTLAHVVARHAGYCVVEMNAsddrspEAFRTRI--EAATQMESVL-GAGGRPNCLVIDEID 431
Cdd:COG1223   34 PPRKI-LFYGPPGTGKTMLAEALAGELKLPLLTVRL------DSLIGSYlgETARNLRKLFdFARRAPCVIFFDEFD 103
AAA_18 pfam13238
AAA domain;
364-418 4.70e-03

AAA domain;


Pssm-ID: 433052 [Multi-domain]  Cd Length: 128  Bit Score: 38.18  E-value: 4.70e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 157786594  364 LLCGPPGLGKTTLAHVVARHAGY-----CVV-EMNASDDRSPEAFRTRIEAATQMESVLGA 418
Cdd:pfam13238   2 LITGTPGVGKTTLAKELSKRLGFgdnvrDLAlENGLVLGDDPETRESKRLDEDKLDRLLDL 62
RecA-like_NVL_r2-like cd19530
second of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 341-385 6.45e-03

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: 38.62  E-value: 6.45e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....
gi 157786594 341 EQVLEEMLEAELDPSRRPRQKVA---------LLCGPPGLGKTTLAHVVARHAG 385
Cdd:cd19530    2 DHVREELTMSILRPIKRPDIYKAlgidlptgvLLYGPPGCGKTLLAKAVANESG 55
RecA-like_VPS4-like cd19509
ATPase domain of VPS4, ATAD1, K, KTNA1, Spastin, FIGL-1 and similar ATPase domains; This ...
 340-395 6.81e-03

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: 38.49  E-value: 6.81e-03
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|....*.
gi 157786594 340 HEQVLEEMLEAELDPSRRPRQKVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASD 395
Cdd:cd19509   12 KEAVILPSLRPDLFPGLRGPPRGILLYGPPGTGKTLLARAVASESGSTFFSISASS 67
RecA-like_FtsH cd19501
ATP-dependent zinc metalloprotease FtsH; FtsH ATPase is a processive, ATP-dependent zinc ...
 341-431 6.84e-03

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: 38.37  E-value: 6.84e-03
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 157786594 341 EQVLEEMLEAeLDPSRRPRQ---------KVALLCGPPGLGKTTLAHVVARHAGYCVVEMNASD----------DRSPEA 401
Cdd:cd19501   10 EEAKEELKEV-VEFLKNPEKftklgakipKGVLLVGPPGTGKTLLAKAVAGEAGVPFFSISGSDfvemfvgvgaSRVRDL 88

                         90       100       110
                 ....*....|....*....|....*....|.
gi 157786594 402 FRTrieaatqmesvlgAGGRPNCLV-IDEID 431
Cdd:cd19501   89 FEQ-------------AKKNAPCIVfIDEID 106
 
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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