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Conserved domains on  [gi|67078464|ref|NP_001019949|]
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cell cycle checkpoint protein RAD17 [Rattus norvegicus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 13-651 0e+00

checkpoint protein rad24; All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


:

Pssm-ID: 129690 [Multi-domain]  Cd Length: 637  Bit Score: 905.87  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    13 TKVTDWVDPAFDDFSANTAVTTITVSSLSLNNSSHRRKYLPSTLesnrLSARKRGRLPLEQTNGLETSKEYLSDDEPWVD 92
Cdd:TIGR00602   1 MDVTDWVKPSFDDFLLSSLISTITKWSLSRPTSSHRRKNSPSTD----IHARKRGFLSLEQDTGLELSSENLDGNEPWVE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    93 KYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKHggsILLITGPPGCGKTTTIKILSKELGIQVQEWVNPILQDFQKDD 172
Cdd:TIGR00602  77 KYKPETQHELAVHKKKIEEVETWLKAQVLENAPKR---ILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKND 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   173 YKELFNSESNFSVipYQSQIAVFNDFLLRATkyNKLQMLGDALTTDKKIILVEDLPNQFYRDANALHEILR-KYVHIGRC 251
Cdd:TIGR00602 154 HKVTLSLESCFSN--FQSQIEVFSEFLLRAT--NKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRC 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   252 PLVFIVSDSVSGDSNH-RLLFP------KNIQEECSVSNISFNPVAPTIMMKFLNRIVTIEASKNGEKITVPNKASLELL 324
Cdd:TIGR00602 230 PLVFIITESLEGDNNQrRLLFPaetimnKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELL 309

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   325 CQGCSGDIRSAINSLQFSSSKGenSSWSKKKKMSLKSDASISKAKQKRKHNSTLENQEIQAIGGKDVSLFLFRALGKILY 404
Cdd:TIGR00602 310 CQGCSGDIRSAINSLQFSSSKS--GSLPIKKRMSTKSDAHASKSKIKGKHSSNNENQEIQALGGKDVSLFLFRALGKILY 387

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   405 CKRAPLTELASPRLPAHLSEHDRDTLLVQPEEIVEMSHMPG-EFFNLYLHQNYIDFFTDVDDLVRASEFLSFADILGGDW 483
Cdd:TIGR00602 388 CKRATLNELDSPRLPSHLSELSRDTLMVGPEEVVEMSHMPGdKTFNLYSHQNYNDFFVEFDDEVKASEFLNFADILSGDW 467

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   484 NTRSSLRDYSTSIAARGVMHSNTSRRFAHCQGGGSSFRPLHKPQWFLIQKKYRENCLAAKALF--CDFCLPAVCLQTQLL 561
Cdd:TIGR00602 468 NTRSLLREYSTSSARRGVMHSNKARGIAHCQGGKSSFRPLHKPQWFLISKKYRENCLAAKALFkvEDFCLPADCLQTQLL 547

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   562 PYLALLTIPMRNKAQISFIQDIGRLPLKRNFGRLKMEALTDRELGLIDPDSGDELLHSGGQPAQEAQGQPAQTADPETWS 641
Cdd:TIGR00602 548 PYLALDTIPMRNDAQISFIDDLGRLPLKRDFRRLKMEALTDREVGMIDPDSGDEETSFGDDPAVESDSDPSQAAGPETWS 627

                         650
                  ....*....|
gi 67078464   642 LPLSQNSGSD 651
Cdd:TIGR00602 628 LPDSDNSLSE 637
 
Name Accession Description Interval E-value
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 13-651 0e+00

checkpoint protein rad24; All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129690 [Multi-domain]  Cd Length: 637  Bit Score: 905.87  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    13 TKVTDWVDPAFDDFSANTAVTTITVSSLSLNNSSHRRKYLPSTLesnrLSARKRGRLPLEQTNGLETSKEYLSDDEPWVD 92
Cdd:TIGR00602   1 MDVTDWVKPSFDDFLLSSLISTITKWSLSRPTSSHRRKNSPSTD----IHARKRGFLSLEQDTGLELSSENLDGNEPWVE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    93 KYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKHggsILLITGPPGCGKTTTIKILSKELGIQVQEWVNPILQDFQKDD 172
Cdd:TIGR00602  77 KYKPETQHELAVHKKKIEEVETWLKAQVLENAPKR---ILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKND 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   173 YKELFNSESNFSVipYQSQIAVFNDFLLRATkyNKLQMLGDALTTDKKIILVEDLPNQFYRDANALHEILR-KYVHIGRC 251
Cdd:TIGR00602 154 HKVTLSLESCFSN--FQSQIEVFSEFLLRAT--NKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRC 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   252 PLVFIVSDSVSGDSNH-RLLFP------KNIQEECSVSNISFNPVAPTIMMKFLNRIVTIEASKNGEKITVPNKASLELL 324
Cdd:TIGR00602 230 PLVFIITESLEGDNNQrRLLFPaetimnKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELL 309

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   325 CQGCSGDIRSAINSLQFSSSKGenSSWSKKKKMSLKSDASISKAKQKRKHNSTLENQEIQAIGGKDVSLFLFRALGKILY 404
Cdd:TIGR00602 310 CQGCSGDIRSAINSLQFSSSKS--GSLPIKKRMSTKSDAHASKSKIKGKHSSNNENQEIQALGGKDVSLFLFRALGKILY 387

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   405 CKRAPLTELASPRLPAHLSEHDRDTLLVQPEEIVEMSHMPG-EFFNLYLHQNYIDFFTDVDDLVRASEFLSFADILGGDW 483
Cdd:TIGR00602 388 CKRATLNELDSPRLPSHLSELSRDTLMVGPEEVVEMSHMPGdKTFNLYSHQNYNDFFVEFDDEVKASEFLNFADILSGDW 467

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   484 NTRSSLRDYSTSIAARGVMHSNTSRRFAHCQGGGSSFRPLHKPQWFLIQKKYRENCLAAKALF--CDFCLPAVCLQTQLL 561
Cdd:TIGR00602 468 NTRSLLREYSTSSARRGVMHSNKARGIAHCQGGKSSFRPLHKPQWFLISKKYRENCLAAKALFkvEDFCLPADCLQTQLL 547

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   562 PYLALLTIPMRNKAQISFIQDIGRLPLKRNFGRLKMEALTDRELGLIDPDSGDELLHSGGQPAQEAQGQPAQTADPETWS 641
Cdd:TIGR00602 548 PYLALDTIPMRNDAQISFIDDLGRLPLKRDFRRLKMEALTDREVGMIDPDSGDEETSFGDDPAVESDSDPSQAAGPETWS 627

                         650
                  ....*....|
gi 67078464   642 LPLSQNSGSD 651
Cdd:TIGR00602 628 LPDSDNSLSE 637
Rad17 pfam03215
Rad17 P-loop domain;
82-269 1.77e-77

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 245.64  E-value: 1.77e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    82 EYLSDDEPWVDKYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKhggSILLITGPPGCGKTTTIKILSKELGIQVQEWV 161
Cdd:pfam03215   1 INDDGGEQWYEKYKPNCLEQLAVHKRKIKDVQEWLDAMFLENAKH---RILLISGPSGCGKSTVIKELSKELGPKYREWS 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   162 NPIL---QDFQKDDYKELFNSESNFsvipyQSQIAVFNDFLLRATKYNKLQMLGDALTTDKKIILVEDLPNQFYRDANAL 238
Cdd:pfam03215  78 NPTSfrsPPNQVTDFRGDCIVNSRF-----LSQMESFSEFELKGARYLVMQKRGKNAQGNKKLILIEDLPNVFHIDTRRF 152

                         170       180       190
                  ....*....|....*....|....*....|....
gi 67078464   239 HEILRKYVHIGRC-PLVFIVS--DSVSGDSNHRL 269
Cdd:pfam03215 153 QQVIRQWLYSSEPlPLIICITecEILEGDNNQRK 186
PRK04195 PRK04195
replication factor C large subunit; Provisional
 87-501 4.46e-21

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 96.91  E-value: 4.46e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   87 DEPWVDKYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKhggSILLItGPPGCGKTTTIKILSKELGIQVqewvnpIlq 166
Cdd:PRK04195   1 MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKK---ALLLY-GPPGVGKTSLAHALANDYGWEV------I-- 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  167 dfqkddykELFNSES-NFSVIpyqSQIAvfndflLRATKYNKLqmlgdaLTTDKKIILVEDLPNQFYR-DANALHEILrK 244
Cdd:PRK04195  69 --------ELNASDQrTADVI---ERVA------GEAATSGSL------FGARRKLILLDEVDGIHGNeDRGGARAIL-E 124

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  245 YVHIGRCPLVFIVSDSVSgdsnhrlLFPKNIQEECSVsnISFNPVAPTIMMKFLNRIVtieaskNGEKITVPNKAsLELL 324
Cdd:PRK04195 125 LIKKAKQPIILTANDPYD-------PSLRELRNACLM--IEFKRLSTRSIVPVLKRIC------RKEGIECDDEA-LKEI 188

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  325 CQGCSGDIRSAINSLQfSSSKGensswskkkkmslksdasiskakqkrkhNSTLENQEIQAIGGKDVSLFLFRALGKILY 404
Cdd:PRK04195 189 AERSGGDLRSAINDLQ-AIAEG----------------------------YGKLTLEDVKTLGRRDREESIFDALDAVFK 239

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  405 ckrapltelasprlpahlSEHDRDTLlvqpEEIVEMSHMPGEFFNlYLHQNYIDFFTDVDDLVRASEFLSFADI-LG--- 480
Cdd:PRK04195 240 ------------------ARNADQAL----EASYDVDEDPDDLIE-WIDENIPKEYDDPEDIARAYDALSRADIfLGrvk 296

                        410       420
                 ....*....|....*....|...
gi 67078464  481 --GDWntrsSLRDYSTSIAARGV 501
Cdd:PRK04195 297 rtQNY----DLWRYASDLMTAGV 315
HLD_clamp_RarA cd18139
helical lid domain of recombination factor protein RarA; Recombination factor RarA ...
 291-348 1.90e-07

helical lid domain of recombination factor protein RarA; Recombination factor RarA (Replication associated recombination gene/protein A, also known as MgsA (Maintenance of genome stability A) or Mgs1 in yeast and WRNIP1 in mammals) is a member of the clamp-loader clade of the AAA+ superfamily. It functions as a tetramer. RarA co-localize with the replication fork throughout the cell cycle and may play a role in the rescue of stalled replication forks.


Pssm-ID: 350841 [Multi-domain]  Cd Length: 75  Bit Score: 48.78  E-value: 1.90e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 67078464 291 PTIMMKFLNRIVTIEASKNGEKITVPNKAsLELLCQGCSGDIRSAINSLQFSSSKGEN 348
Cdd:cd18139   3 EEDLEKLLKRALEDKERGGDRKVTIDDEA-LELLAEAADGDARSALNLLELAVLSAEE 59
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 106-157 4.88e-07

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: 52.61  E-value: 4.88e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 67078464 106 KKKIEEVETWLKTQvLEVKPKHG---GSILLITGPPGCGKTTTIKILSKELGIQV 157
Cdd:COG0464 166 KEELRELVALPLKR-PELREEYGlppPRGLLLYGPPGTGKTLLARALAGELGLPL 219
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 129-154 6.97e-05

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: 43.52  E-value: 6.97e-05
                           10        20
                   ....*....|....*....|....*.
gi 67078464    129 GSILLITGPPGCGKTTTIKILSKELG 154
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELG 27
 
Name Accession Description Interval E-value
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 13-651 0e+00

checkpoint protein rad24; All proteins in this family for which functions are known are involved in DNA damage tolerance (likely cell cycle checkpoints).This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129690 [Multi-domain]  Cd Length: 637  Bit Score: 905.87  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    13 TKVTDWVDPAFDDFSANTAVTTITVSSLSLNNSSHRRKYLPSTLesnrLSARKRGRLPLEQTNGLETSKEYLSDDEPWVD 92
Cdd:TIGR00602   1 MDVTDWVKPSFDDFLLSSLISTITKWSLSRPTSSHRRKNSPSTD----IHARKRGFLSLEQDTGLELSSENLDGNEPWVE 76

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    93 KYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKHggsILLITGPPGCGKTTTIKILSKELGIQVQEWVNPILQDFQKDD 172
Cdd:TIGR00602  77 KYKPETQHELAVHKKKIEEVETWLKAQVLENAPKR---ILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKND 153

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   173 YKELFNSESNFSVipYQSQIAVFNDFLLRATkyNKLQMLGDALTTDKKIILVEDLPNQFYRDANALHEILR-KYVHIGRC 251
Cdd:TIGR00602 154 HKVTLSLESCFSN--FQSQIEVFSEFLLRAT--NKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRC 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   252 PLVFIVSDSVSGDSNH-RLLFP------KNIQEECSVSNISFNPVAPTIMMKFLNRIVTIEASKNGEKITVPNKASLELL 324
Cdd:TIGR00602 230 PLVFIITESLEGDNNQrRLLFPaetimnKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELL 309

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   325 CQGCSGDIRSAINSLQFSSSKGenSSWSKKKKMSLKSDASISKAKQKRKHNSTLENQEIQAIGGKDVSLFLFRALGKILY 404
Cdd:TIGR00602 310 CQGCSGDIRSAINSLQFSSSKS--GSLPIKKRMSTKSDAHASKSKIKGKHSSNNENQEIQALGGKDVSLFLFRALGKILY 387

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   405 CKRAPLTELASPRLPAHLSEHDRDTLLVQPEEIVEMSHMPG-EFFNLYLHQNYIDFFTDVDDLVRASEFLSFADILGGDW 483
Cdd:TIGR00602 388 CKRATLNELDSPRLPSHLSELSRDTLMVGPEEVVEMSHMPGdKTFNLYSHQNYNDFFVEFDDEVKASEFLNFADILSGDW 467

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   484 NTRSSLRDYSTSIAARGVMHSNTSRRFAHCQGGGSSFRPLHKPQWFLIQKKYRENCLAAKALF--CDFCLPAVCLQTQLL 561
Cdd:TIGR00602 468 NTRSLLREYSTSSARRGVMHSNKARGIAHCQGGKSSFRPLHKPQWFLISKKYRENCLAAKALFkvEDFCLPADCLQTQLL 547

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   562 PYLALLTIPMRNKAQISFIQDIGRLPLKRNFGRLKMEALTDRELGLIDPDSGDELLHSGGQPAQEAQGQPAQTADPETWS 641
Cdd:TIGR00602 548 PYLALDTIPMRNDAQISFIDDLGRLPLKRDFRRLKMEALTDREVGMIDPDSGDEETSFGDDPAVESDSDPSQAAGPETWS 627

                         650
                  ....*....|
gi 67078464   642 LPLSQNSGSD 651
Cdd:TIGR00602 628 LPDSDNSLSE 637
Rad17 pfam03215
Rad17 P-loop domain;
82-269 1.77e-77

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 245.64  E-value: 1.77e-77
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464    82 EYLSDDEPWVDKYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKhggSILLITGPPGCGKTTTIKILSKELGIQVQEWV 161
Cdd:pfam03215   1 INDDGGEQWYEKYKPNCLEQLAVHKRKIKDVQEWLDAMFLENAKH---RILLISGPSGCGKSTVIKELSKELGPKYREWS 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   162 NPIL---QDFQKDDYKELFNSESNFsvipyQSQIAVFNDFLLRATKYNKLQMLGDALTTDKKIILVEDLPNQFYRDANAL 238
Cdd:pfam03215  78 NPTSfrsPPNQVTDFRGDCIVNSRF-----LSQMESFSEFELKGARYLVMQKRGKNAQGNKKLILIEDLPNVFHIDTRRF 152

                         170       180       190
                  ....*....|....*....|....*....|....
gi 67078464   239 HEILRKYVHIGRC-PLVFIVS--DSVSGDSNHRL 269
Cdd:pfam03215 153 QQVIRQWLYSSEPlPLIICITecEILEGDNNQRK 186
PRK04195 PRK04195
replication factor C large subunit; Provisional
 87-501 4.46e-21

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 96.91  E-value: 4.46e-21
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   87 DEPWVDKYKPETQHELAVHKKKIEEVETWLKTQVLEVKPKhggSILLItGPPGCGKTTTIKILSKELGIQVqewvnpIlq 166
Cdd:PRK04195   1 MMPWVEKYRPKTLSDVVGNEKAKEQLREWIESWLKGKPKK---ALLLY-GPPGVGKTSLAHALANDYGWEV------I-- 68

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  167 dfqkddykELFNSES-NFSVIpyqSQIAvfndflLRATKYNKLqmlgdaLTTDKKIILVEDLPNQFYR-DANALHEILrK 244
Cdd:PRK04195  69 --------ELNASDQrTADVI---ERVA------GEAATSGSL------FGARRKLILLDEVDGIHGNeDRGGARAIL-E 124

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  245 YVHIGRCPLVFIVSDSVSgdsnhrlLFPKNIQEECSVsnISFNPVAPTIMMKFLNRIVtieaskNGEKITVPNKAsLELL 324
Cdd:PRK04195 125 LIKKAKQPIILTANDPYD-------PSLRELRNACLM--IEFKRLSTRSIVPVLKRIC------RKEGIECDDEA-LKEI 188

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  325 CQGCSGDIRSAINSLQfSSSKGensswskkkkmslksdasiskakqkrkhNSTLENQEIQAIGGKDVSLFLFRALGKILY 404
Cdd:PRK04195 189 AERSGGDLRSAINDLQ-AIAEG----------------------------YGKLTLEDVKTLGRRDREESIFDALDAVFK 239

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  405 ckrapltelasprlpahlSEHDRDTLlvqpEEIVEMSHMPGEFFNlYLHQNYIDFFTDVDDLVRASEFLSFADI-LG--- 480
Cdd:PRK04195 240 ------------------ARNADQAL----EASYDVDEDPDDLIE-WIDENIPKEYDDPEDIARAYDALSRADIfLGrvk 296

                        410       420
                 ....*....|....*....|...
gi 67078464  481 --GDWntrsSLRDYSTSIAARGV 501
Cdd:PRK04195 297 rtQNY----DLWRYASDLMTAGV 315
rfc PRK00440
replication factor C small subunit; Reviewed
 87-348 2.23e-10

replication factor C small subunit; Reviewed


Pssm-ID: 234763 [Multi-domain]  Cd Length: 319  Bit Score: 62.58  E-value: 2.23e-10
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   87 DEPWVDKYKPETQHELAVHKKKIEEVETWLKTQVLevkPkHggsiLLITGPPGCGKTTTIKILSKEL-Giqvqewvnpil 165
Cdd:PRK00440   4 EEIWVEKYRPRTLDEIVGQEEIVERLKSYVKEKNM---P-H----LLFAGPPGTGKTTAALALARELyG----------- 64

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  166 qdfqkDDYKELFnSESNFS------VIpyQSQIAVFndfllratkyNKLQMLGDAlttDKKIILVeDLPNQFYRDA-NAL 238
Cdd:PRK00440  65 -----EDWRENF-LELNASdergidVI--RNKIKEF----------ARTAPVGGA---PFKIIFL-DEADNLTSDAqQAL 122

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  239 HEILRKYVHIGRcplvFIVSDSVSGdsnhRLLFPknIQEECSVsnISFNPVAPTIMMKFLNRIvtieaSKNgEKITVPNK 318
Cdd:PRK00440 123 RRTMEMYSQNTR----FILSCNYSS----KIIDP--IQSRCAV--FRFSPLKKEAVAERLRYI-----AEN-EGIEITDD 184

                        250       260       270
                 ....*....|....*....|....*....|
gi 67078464  319 AsLELLCQGCSGDIRSAINSLQFSSSKGEN 348
Cdd:PRK00440 185 A-LEAIYYVSEGDMRKAINALQAAAATGKE 213
HLD_clamp_RarA cd18139
helical lid domain of recombination factor protein RarA; Recombination factor RarA ...
 291-348 1.90e-07

helical lid domain of recombination factor protein RarA; Recombination factor RarA (Replication associated recombination gene/protein A, also known as MgsA (Maintenance of genome stability A) or Mgs1 in yeast and WRNIP1 in mammals) is a member of the clamp-loader clade of the AAA+ superfamily. It functions as a tetramer. RarA co-localize with the replication fork throughout the cell cycle and may play a role in the rescue of stalled replication forks.


Pssm-ID: 350841 [Multi-domain]  Cd Length: 75  Bit Score: 48.78  E-value: 1.90e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*...
gi 67078464 291 PTIMMKFLNRIVTIEASKNGEKITVPNKAsLELLCQGCSGDIRSAINSLQFSSSKGEN 348
Cdd:cd18139   3 EEDLEKLLKRALEDKERGGDRKVTIDDEA-LELLAEAADGDARSALNLLELAVLSAEE 59
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 106-157 4.88e-07

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: 52.61  E-value: 4.88e-07
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 67078464 106 KKKIEEVETWLKTQvLEVKPKHG---GSILLITGPPGCGKTTTIKILSKELGIQV 157
Cdd:COG0464 166 KEELRELVALPLKR-PELREEYGlppPRGLLLYGPPGTGKTLLARALAGELGLPL 219
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
 311-348 1.21e-05

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: 43.29  E-value: 1.21e-05
                        10        20        30
                ....*....|....*....|....*....|....*...
gi 67078464 311 EKITVPNKAsLELLCQGCSGDIRSAINSLQFSSSKGEN 348
Cdd:cd18140  17 EGVKIDEEA-LEAIAEKSEGDMRKAINDLQAAAAGGGV 53
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 90-348 1.40e-05

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 47.68  E-value: 1.40e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   90 WVDKYKPETQHELAVHkkkiEEVETWLKTQVLEVKPKHggsiLLITGPPGCGKTTTIKILSKELGIQVQEWVNPILQ--D 167
Cdd:PRK12402   5 WTEKYRPALLEDILGQ----DEVVERLSRAVDSPNLPH----LLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNvaD 76

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  168 FQKDDYKELFNSEsNFSVI------PYQSQIAVFNDFLLRATKYNKLqmlgDAlttDKKIILVEDlPNQFYRDA-NALHE 240
Cdd:PRK12402  77 FFDQGKKYLVEDP-RFAHFlgtdkrIRSSKIDNFKHVLKEYASYRPL----SA---DYKTILLDN-AEALREDAqQALRR 147

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  241 ILRKYVHIGRcplvFIVSDSvsgdSNHRLLFPknIQEECsvSNISFNPVAPTIMMKFLNRIVTieasknGEKITVPNKAs 320
Cdd:PRK12402 148 IMEQYSRTCR----FIIATR----QPSKLIPP--IRSRC--LPLFFRAPTDDELVDVLESIAE------AEGVDYDDDG- 208

                        250       260
                 ....*....|....*....|....*...
gi 67078464  321 LELLCQGCSGDIRSAINSLQFSSSKGEN 348
Cdd:PRK12402 209 LELIAYYAGGDLRKAILTLQTAALAAGE 236
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 132-157 2.07e-05

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: 44.51  E-value: 2.07e-05
                          10        20
                  ....*....|....*....|....*.
gi 67078464   132 LLITGPPGCGKTTTIKILSKELGIQV 157
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPF 26
AAA_18 pfam13238
AAA domain;
133-252 2.74e-05

AAA domain;


Pssm-ID: 433052 [Multi-domain]  Cd Length: 128  Bit Score: 44.34  E-value: 2.74e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   133 LITGPPGCGKTTTIKILSKELGIQVqewvnpILQDFQKDdykelfnsesNFSVIPYQSQIAVFNDFLLRATKYNKLQMLG 212
Cdd:pfam13238   2 LITGTPGVGKTTLAKELSKRLGFGD------NVRDLALE----------NGLVLGDDPETRESKRLDEDKLDRLLDLLEE 65

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 67078464   213 DALTTDKKIILVEDLPNQFYRDANalheILRKYVHIgRCP 252
Cdd:pfam13238  66 NAALEEGGNLIIDGHLAELEPERA----KDLVGIVL-RAS 100
Kti12 COG4088
tRNA uridine 5-carbamoylmethylation protein Kti12 (Killer toxin insensitivity protein) ...
 129-199 4.17e-05

tRNA uridine 5-carbamoylmethylation protein Kti12 (Killer toxin insensitivity protein) [Translation, ribosomal structure and biogenesis, Defense mechanisms];


Pssm-ID: 443264 [Multi-domain]  Cd Length: 179  Bit Score: 44.72  E-value: 4.17e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 67078464 129 GSILLITGPPGCGKTTTIKILSKELGiqVQEWVNPILqdfQKDDYKELFNSESnfsvIPYQSQIAVFNDFL 199
Cdd:COG4088   4 PMLLILTGPPGSGKTTFAKALAQRLY--AEGIAVALL---HSDDFRRFLVNES----FPKETYEEVVEDVR 65
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 116-154 4.99e-05

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: 44.06  E-value: 4.99e-05
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 67078464 116 LKTQVLEVKPKHGGSILLITGPPGCGKTTTIKILSKELG 154
Cdd:cd00009   6 AIEALREALELPPPKNLLLYGPPGTGKTTLARAIANELF 44
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 129-154 6.97e-05

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: 43.52  E-value: 6.97e-05
                           10        20
                   ....*....|....*....|....*.
gi 67078464    129 GSILLITGPPGCGKTTTIKILSKELG 154
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARELG 27
PLN03025 PLN03025
replication factor C subunit; Provisional
 89-153 8.01e-05

replication factor C subunit; Provisional


Pssm-ID: 178596 [Multi-domain]  Cd Length: 319  Bit Score: 45.10  E-value: 8.01e-05
                         10        20        30        40        50        60
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 67078464   89 PWVDKYKPETQHELAVHKKKIEEVETWLKTqvlevkpkhgGSI--LLITGPPGCGKTTTIKILSKEL 153
Cdd:PLN03025   2 PWVEKYRPTKLDDIVGNEDAVSRLQVIARD----------GNMpnLILSGPPGTGKTTSILALAHEL 58
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 102-157 8.03e-05

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: 43.43  E-value: 8.03e-05
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*.
gi 67078464 102 LAVHKKKIEEVETWLKTQVLEVKPKHGgsILLItGPPGCGKTTTIKILSKELGIQV 157
Cdd:cd19481   2 KASLREAVEAPRRGSRLRRYGLGLPKG--ILLY-GPPGTGKTLLAKALAGELGLPL 54
dNK pfam01712
Deoxynucleoside kinase; This family consists of various deoxynucleoside kinases cytidine EC:2. ...
 134-171 1.34e-04

Deoxynucleoside kinase; This family consists of various deoxynucleoside kinases cytidine EC:2.7.1.74, guanosine EC:2.7.1.113, adenosine EC:2.7.1.76 and thymidine kinase EC:2.7.1.21 (which also phosphorylates deoxyuridine and deoxycytosine.) These enzymes catalyze the production of deoxynucleotide 5'-monophosphate from a deoxynucleoside. Using ATP and yielding ADP in the process.


Pssm-ID: 396326  Cd Length: 201  Bit Score: 43.46  E-value: 1.34e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|...
gi 67078464   134 ITGPPGCGKTTTIKILSKELGIQ-----VQEWVNPILQDFQKD 171
Cdd:pfam01712   3 IEGNIGAGKSTLTKILSKRLGFKvfeepVDRWTNPYLDKFYKD 45
COG1223 COG1223
Predicted ATPase, AAA+ superfamily [General function prediction only];
106-155 1.34e-04

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


Pssm-ID: 440836 [Multi-domain]  Cd Length: 246  Bit Score: 44.10  E-value: 1.34e-04
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 67078464 106 KKKIEEV-ETWLKTQVLE----VKPKHggsiLLITGPPGCGKTTTIKILSKELGI 155
Cdd:COG1223  11 KKKLKLIiKELRRRENLRkfglWPPRK----ILFYGPPGTGKTMLAEALAGELKL 61
Fap7 COG1936
Broad-specificity NMP kinase [Nucleotide transport and metabolism];
131-157 4.37e-04

Broad-specificity NMP kinase [Nucleotide transport and metabolism];


Pssm-ID: 441539 [Multi-domain]  Cd Length: 173  Bit Score: 41.73  E-value: 4.37e-04
                        10        20
                ....*....|....*....|....*..
gi 67078464 131 ILLITGPPGCGKTTTIKILSKELGIQV 157
Cdd:COG1936   2 RIAITGTPGTGKTTVAKLLAERLGLEV 28
DEXXQc_Upf1-like cd17934
DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, ...
 131-230 5.37e-04

DEXXQ-box helicase domain of Upf1-like helicase; The Upf1-like helicase family includes UPF1, HELZ, Mov10L1, Aquarius, IGHMBP2 (SMUBP2), coronavirus Nsp13, and similar proteins. They belong to the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 438708 [Multi-domain]  Cd Length: 121  Bit Score: 40.30  E-value: 5.37e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464 131 ILLITGPPGCGKTTTIKILskelgiqVQEWVnpilqdFQKDDYKELFNSESNfsvipyqsqIAVFN-DFLL-----RATK 204
Cdd:cd17934   1 ISLIQGPPGTGKTTTIAAI-------VLQLL------KGLRGKRVLVTAQSN---------VAVDNvDVVIideasQITE 58

                        90       100
                ....*....|....*....|....*.
gi 67078464 205 YNKLQMLGDAlttdKKIILVEDlPNQ 230
Cdd:cd17934  59 PELLIALIRA----KKVVLVGD-PKQ 79
RPT1 COG1222
ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein ...
 47-154 9.69e-04

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


Pssm-ID: 440835 [Multi-domain]  Cd Length: 326  Bit Score: 41.92  E-value: 9.69e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464  47 HRRKYLPSTLESNRLSARKRGRLPLEQTNGLETSkeylsDDEPWVDKYKPE-TQHELAVHKKKIEE----VETWLKTQVL 121
Cdd:COG1222  29 LALLLQPVKALELLEEAPALLLNDANLTQKRLGT-----PRGTAVPAESPDvTFDDIGGLDEQIEEireaVELPLKNPEL 103

                        90       100       110
                ....*....|....*....|....*....|....*
gi 67078464 122 --EVKPKHGGSILLiTGPPGCGKTTTIKILSKELG 154
Cdd:COG1222 104 frKYGIEPPKGVLL-YGPPGTGKTLLAKAVAGELG 137
AAA_19 pfam13245
AAA domain;
123-166 9.81e-04

AAA domain;


Pssm-ID: 433059 [Multi-domain]  Cd Length: 136  Bit Score: 39.89  E-value: 9.81e-04
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....
gi 67078464   123 VKPKHGGSILLITGPPGCGKTTTIKILSKELgIQVQEWVNPILQ 166
Cdd:pfam13245   5 VRTALPSKVVLLTGGPGTGKTTTIRHIVALL-VALGGVSFPILL 47
RecA-like_NVL_r1-like cd19518
first of two ATPase domains of NVL (nuclear VCP-like protein) and similar ATPase domains; NVL ...
 101-155 1.27e-03

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: 40.08  E-value: 1.27e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|....*
gi 67078464 101 ELAVHKKKIEEVetwlkTQVLEVKPKHGgsiLLITGPPGCGKTTTIKILSKELGI 155
Cdd:cd19518  14 ELLIHPILPPEY-----FQHLGVEPPRG---VLLHGPPGCGKTMLANAIAGELKV 60
PRK04182 PRK04182
cytidylate kinase; Provisional
 131-155 1.76e-03

cytidylate kinase; Provisional


Pssm-ID: 235244 [Multi-domain]  Cd Length: 180  Bit Score: 39.79  E-value: 1.76e-03
                         10        20
                 ....*....|....*....|....*
gi 67078464  131 ILLITGPPGCGKTTTIKILSKELGI 155
Cdd:PRK04182   2 IITISGPPGSGKTTVARLLAEKLGL 26
AAA_28 pfam13521
AAA domain;
134-157 2.18e-03

AAA domain;


Pssm-ID: 433278 [Multi-domain]  Cd Length: 164  Bit Score: 39.55  E-value: 2.18e-03
                          10        20
                  ....*....|....*....|....
gi 67078464   134 ITGPPGCGKTTTIKILSKELGIQV 157
Cdd:pfam13521   4 ITGGPSTGKTTLAEALAARFGYPV 27
ABC_ATPase cd00267
ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large ...
 116-150 2.36e-03

ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.


Pssm-ID: 213179 [Multi-domain]  Cd Length: 157  Bit Score: 39.15  E-value: 2.36e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 67078464 116 LKTQVLEVKPkhgGSILLITGPPGCGKTTTIKILS 150
Cdd:cd00267  15 LDNVSLTLKA---GEIVALVGPNGSGKSTLLRAIA 46
RecA-like_CDC48_NLV2_r1-like cd19503
first of two ATPase domains of CDC48 and NLV2, and similar ATPase domains; CDC48 in yeast and ...
 119-157 2.54e-03

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: 39.20  E-value: 2.54e-03
                        10        20        30
                ....*....|....*....|....*....|....*....
gi 67078464 119 QVLEVKPKHGgsiLLITGPPGCGKTTTIKILSKELGIQV 157
Cdd:cd19503  27 RALGLKPPRG---VLLHGPPGTGKTLLARAVANEAGANF 62
AAA_17 pfam13207
AAA domain;
135-157 2.61e-03

AAA domain;


Pssm-ID: 463810 [Multi-domain]  Cd Length: 136  Bit Score: 38.76  E-value: 2.61e-03
                          10        20
                  ....*....|....*....|...
gi 67078464   135 TGPPGCGKTTTIKILSKELGIQV 157
Cdd:pfam13207   1 TGVPGSGKTTQLKKLAEKLGFPH 23
aroK PRK00131
shikimate kinase; Reviewed
 125-154 2.97e-03

shikimate kinase; Reviewed


Pssm-ID: 234654 [Multi-domain]  Cd Length: 175  Bit Score: 39.02  E-value: 2.97e-03
                         10        20        30
                 ....*....|....*....|....*....|
gi 67078464  125 PKHGGSILLItGPPGCGKTTTIKILSKELG 154
Cdd:PRK00131   1 MLKGPNIVLI-GFMGAGKSTIGRLLAKRLG 29
AAA_16 pfam13191
AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the ...
 118-259 2.98e-03

AAA ATPase domain; This family of domains contain a P-loop motif that is characteriztic of the AAA superfamily.


Pssm-ID: 433025 [Multi-domain]  Cd Length: 167  Bit Score: 39.02  E-value: 2.98e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 67078464   118 TQVLEVKPKHGGSILLITGPPGCGKTTTIKILSKELGIQVQEWVNPILQDFQKddYKELFNSESNFSVIPYqsqiavfnd 197
Cdd:pfam13191  13 LDALDRVRSGRPPSVLLTGEAGTGKTTLLRELLRALERDGGYFLRGKCDENLP--YSPLLEALTREGLLRQ--------- 81

                          90       100       110       120       130       140
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 67078464   198 fLLRATKYNKLQMLGDALTTdkkiiLVEDLPNQFYRDANALHEILRKYV---HIGRCPLVFIVSD 259
Cdd:pfam13191  82 -LLDELESSLLEAWRAALLE-----ALAPVPELPGDLAERLLDLLLRLLdllARGERPLVLVLDD 140
AAA_22 pfam13401
AAA domain;
126-156 3.73e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 38.09  E-value: 3.73e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 67078464   126 KHGGSILLITGPPGCGKTTTIKILSKELGIQ 156
Cdd:pfam13401   2 RFGAGILVLTGESGTGKTTLLRRLLEQLPEV 32
ExeA COG3267
Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, ...
 127-154 4.47e-03

Type II secretory pathway ATPase component GspA/ExeA/MshM [Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442498 [Multi-domain]  Cd Length: 261  Bit Score: 39.39  E-value: 4.47e-03
                        10        20
                ....*....|....*....|....*...
gi 67078464 127 HGGSILLITGPPGCGKTTTIKILSKELG 154
Cdd:COG3267  41 QGGGFVVLTGEVGTGKTTLLRRLLERLP 68
CMPK cd02020
Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine ...
 134-156 5.45e-03

Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor.


Pssm-ID: 238978 [Multi-domain]  Cd Length: 147  Bit Score: 37.85  E-value: 5.45e-03
                        10        20
                ....*....|....*....|...
gi 67078464 134 ITGPPGCGKTTTIKILSKELGIQ 156
Cdd:cd02020   4 IDGPAGSGKSTVAKLLAKKLGLP 26
ABC_tran pfam00005
ABC transporter; ABC transporters for a large family of proteins responsible for translocation ...
 121-153 5.65e-03

ABC transporter; ABC transporters for a large family of proteins responsible for translocation of a variety of compounds across biological membranes. ABC transporters are the largest family of proteins in many completely sequenced bacteria. ABC transporters are composed of two copies of this domain and two copies of a transmembrane domain pfam00664. These four domains may belong to a single polypeptide or belong in different polypeptide chains.


Pssm-ID: 394964 [Multi-domain]  Cd Length: 150  Bit Score: 38.01  E-value: 5.65e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 67078464   121 LEVKPkhgGSILLITGPPGCGKTTTIKILSKEL 153
Cdd:pfam00005   6 LTLNP---GEILALVGPNGAGKSTLLKLIAGLL 35
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 128-153 6.52e-03

DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1.11.5, Exonuclease V) complex. It is the alpha chain of the complex and functions as a 3'-5' helicase. The RecBCD enzyme is both a helicase that unwinds, or separates the strands of DNA, and a nuclease that makes single-stranded nicks in DNA. RecD is a member of the DEAD-like helicase superfamily, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.


Pssm-ID: 350691 [Multi-domain]  Cd Length: 155  Bit Score: 37.92  E-value: 6.52e-03
                        10        20
                ....*....|....*....|....*.
gi 67078464 128 GGSILLITGPPGCGKTTTIKILSKEL 153
Cdd:cd17933  11 RNRVSVLTGGAGTGKTTTLKALLAAL 36
MoxR COG0714
MoxR-like ATPase [General function prediction only]; MoxR-like ATPase is part of the Pathway ...
 132-160 8.53e-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: 38.61  E-value: 8.53e-03
                        10        20
                ....*....|....*....|....*....
gi 67078464 132 LLITGPPGCGKTTTIKILSKELGIQVQEW 160
Cdd:COG0714  34 LLLEGVPGVGKTTLAKALARALGLPFIRI 62
ABCD_peroxisomal_ALDP cd03223
ATP-binding cassette domain of peroxisomal transporter, subfamily D; Peroxisomal ATP-binding ...
 116-150 9.15e-03

ATP-binding cassette domain of peroxisomal transporter, subfamily D; Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome. The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asymptomatic).


Pssm-ID: 213190 [Multi-domain]  Cd Length: 166  Bit Score: 37.52  E-value: 9.15e-03
                        10        20        30
                ....*....|....*....|....*....|....*
gi 67078464 116 LKTQVLEVKPkhgGSILLITGPPGCGKTTTIKILS 150
Cdd:cd03223  17 LKDLSFEIKP---GDRLLITGPSGTGKSSLFRALA 48
PRK03839 PRK03839
putative kinase; Provisional
 131-157 9.36e-03

putative kinase; Provisional


Pssm-ID: 179660  Cd Length: 180  Bit Score: 37.78  E-value: 9.36e-03
                         10        20
                 ....*....|....*....|....*..
gi 67078464  131 ILLITGPPGCGKTTTIKILSKELGIQV 157
Cdd:PRK03839   2 IIAITGTPGVGKTTVSKLLAEKLGYEY 28
cyt_kin_arch TIGR02173
cytidylate kinase, putative; Proteins in this family are believed to be cytidylate kinase. ...
 131-156 9.88e-03

cytidylate kinase, putative; Proteins in this family are believed to be cytidylate kinase. Members of this family are found in the archaea and in spirochaetes, and differ considerably from the common bacterial form of cytidylate kinase described by TIGR00017.


Pssm-ID: 274012 [Multi-domain]  Cd Length: 171  Bit Score: 37.40  E-value: 9.88e-03
                          10        20
                  ....*....|....*....|....*.
gi 67078464   131 ILLITGPPGCGKTTTIKILSKELGIQ 156
Cdd:TIGR02173   2 IITISGPPGSGKTTVAKILAEKLSLK 27
 
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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