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Conserved domains on  [gi|2462603437|ref|XP_054209006|]
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cell cycle checkpoint protein RAD17 isoform X2 [Homo sapiens]

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 ...
 3-555 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: 888.15  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   3 QHELAVHKKKIEEVETWLKAQVLERQPKQggsILLITGPPGCGKTTTLKILSKEHGIQVQEWINPVLPDFQKDDFKGMFN 82
Cdd:TIGR00602  83 QHELAVHKKKIEEVETWLKAQVLENAPKR---ILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKNDHKVTLS 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  83 TESSFHMFpyQSQIAVFKEFLLRATkyNKLQMLGDDLRTDKKIILVEDLPNQFYRDSHTLHEVLR-KYVRIGRCPLIFII 161
Cdd:TIGR00602 160 LESCFSNF--QSQIEVFSEFLLRAT--NKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRCPLVFII 235

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 162 SDSLSGDNNQ-RLLFP------KEIQEECSISNISFNPVAPTIMMKFLNRIVTIEANKNGGKITVPDKTSLELLCQGCSG 234
Cdd:TIGR00602 236 TESLEGDNNQrRLLFPaetimnKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSG 315

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 235 DIRSAINSLQFSSSKGenNLRPRKKGMSLKSDAVLSKSKRRKKPDRVFENQEVQAIGGKDVSLFLFRALGKILYCKRASL 314
Cdd:TIGR00602 316 DIRSAINSLQFSSSKS--GSLPIKKRMSTKSDAHASKSKIKGKHSSNNENQEIQALGGKDVSLFLFRALGKILYCKRATL 393

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 315 TELDSPRLPSHLSEYERDTLLVEPEEVVEMSHMPGD-LFNLYLHQNYIDFFMEIDDIVRASEFLSFADILSGDWNTRSLL 393
Cdd:TIGR00602 394 NELDSPRLPSHLSELSRDTLMVGPEEVVEMSHMPGDkTFNLYSHQNYNDFFVEFDDEVKASEFLNFADILSGDWNTRSLL 473

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 394 REYSTSIATRGVMHSNKARGYAHCQGGGSSFRPLHKPQWFLINKKYRENCLAAKALF--PDFCLPALCLQTQLLPYLALL 471
Cdd:TIGR00602 474 REYSTSSARRGVMHSNKARGIAHCQGGKSSFRPLHKPQWFLISKKYRENCLAAKALFkvEDFCLPADCLQTQLLPYLALD 553

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 472 TIPMRNQAQISFIQDIGRLPLKRHFGRLKMEALTDREHGMIDPDSGDEAQLNGGHSAEESLGEPTQATVPETWSLPLSQN 551
Cdd:TIGR00602 554 TIPMRNDAQISFIDDLGRLPLKRDFRRLKMEALTDREVGMIDPDSGDEETSFGDDPAVESDSDPSQAAGPETWSLPDSDN 633


                  ....
gi 2462603437 552 SASE 555
Cdd:TIGR00602 634 SLSE 637
 
Name Accession Description Interval E-value
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 3-555 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: 888.15  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   3 QHELAVHKKKIEEVETWLKAQVLERQPKQggsILLITGPPGCGKTTTLKILSKEHGIQVQEWINPVLPDFQKDDFKGMFN 82
Cdd:TIGR00602  83 QHELAVHKKKIEEVETWLKAQVLENAPKR---ILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKNDHKVTLS 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  83 TESSFHMFpyQSQIAVFKEFLLRATkyNKLQMLGDDLRTDKKIILVEDLPNQFYRDSHTLHEVLR-KYVRIGRCPLIFII 161
Cdd:TIGR00602 160 LESCFSNF--QSQIEVFSEFLLRAT--NKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRCPLVFII 235

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 162 SDSLSGDNNQ-RLLFP------KEIQEECSISNISFNPVAPTIMMKFLNRIVTIEANKNGGKITVPDKTSLELLCQGCSG 234
Cdd:TIGR00602 236 TESLEGDNNQrRLLFPaetimnKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSG 315

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 235 DIRSAINSLQFSSSKGenNLRPRKKGMSLKSDAVLSKSKRRKKPDRVFENQEVQAIGGKDVSLFLFRALGKILYCKRASL 314
Cdd:TIGR00602 316 DIRSAINSLQFSSSKS--GSLPIKKRMSTKSDAHASKSKIKGKHSSNNENQEIQALGGKDVSLFLFRALGKILYCKRATL 393

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 315 TELDSPRLPSHLSEYERDTLLVEPEEVVEMSHMPGD-LFNLYLHQNYIDFFMEIDDIVRASEFLSFADILSGDWNTRSLL 393
Cdd:TIGR00602 394 NELDSPRLPSHLSELSRDTLMVGPEEVVEMSHMPGDkTFNLYSHQNYNDFFVEFDDEVKASEFLNFADILSGDWNTRSLL 473

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 394 REYSTSIATRGVMHSNKARGYAHCQGGGSSFRPLHKPQWFLINKKYRENCLAAKALF--PDFCLPALCLQTQLLPYLALL 471
Cdd:TIGR00602 474 REYSTSSARRGVMHSNKARGIAHCQGGKSSFRPLHKPQWFLISKKYRENCLAAKALFkvEDFCLPADCLQTQLLPYLALD 553

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 472 TIPMRNQAQISFIQDIGRLPLKRHFGRLKMEALTDREHGMIDPDSGDEAQLNGGHSAEESLGEPTQATVPETWSLPLSQN 551
Cdd:TIGR00602 554 TIPMRNDAQISFIDDLGRLPLKRDFRRLKMEALTDREVGMIDPDSGDEETSFGDDPAVESDSDPSQAAGPETWSLPDSDN 633


                  ....
gi 2462603437 552 SASE 555
Cdd:TIGR00602 634 SLSE 637
Rad17 pfam03215
Rad17 P-loop domain;
3-173 2.39e-82

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 255.65  E-value: 2.39e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   3 QHELAVHKKKIEEVETWLKAQVLERQPKqggSILLITGPPGCGKTTTLKILSKEHGIQVQEWINPVL---PDFQKDDFKG 79
Cdd:pfam03215  18 LEQLAVHKRKIKDVQEWLDAMFLENAKH---RILLISGPSGCGKSTVIKELSKELGPKYREWSNPTSfrsPPNQVTDFRG 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  80 MFNTESSFhmfpyQSQIAVFKEFLLRATKYNKLQMLGDDLRTDKKIILVEDLPNQFYRDSHTLHEVLRKYVRIGRC-PLI 158
Cdd:pfam03215  95 DCIVNSRF-----LSQMESFSEFELKGARYLVMQKRGKNAQGNKKLILIEDLPNVFHIDTRRFQQVIRQWLYSSEPlPLI 169

                         170
                  ....*....|....*..
gi 2462603437 159 FIIS--DSLSGDNNQRL 173
Cdd:pfam03215 170 ICITecEILEGDNNQRK 186
PRK04195 PRK04195
replication factor C large subunit; Provisional
 5-414 1.00e-13

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 73.80  E-value: 1.00e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   5 ELAVHKKKIEEVETWLKAQvLERQPKQGgsiLLITGPPGCGKTTTLKILSKEHGIQVQEwINPvlPDFQKDDfkgmfnte 84
Cdd:PRK04195   15 DVVGNEKAKEQLREWIESW-LKGKPKKA---LLLYGPPGVGKTSLAHALANDYGWEVIE-LNA--SDQRTAD-------- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  85 ssfhmfpyqsqiaVFKEFLLRATKYNKLqmlgddLRTDKKIILVEDLPNQFYR-DSHTLHEVLrKYVRIGRCPLIFIISD 163
Cdd:PRK04195   80 -------------VIERVAGEAATSGSL------FGARRKLILLDEVDGIHGNeDRGGARAIL-ELIKKAKQPIILTAND 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 164 SLSgdnnqrlLFPKEIQEECSIsnISFNPVAPTIMMKFLNRIVTIEanknggKITVPDKTsLELLCQGCSGDIRSAINSL 243
Cdd:PRK04195  140 PYD-------PSLRELRNACLM--IEFKRLSTRSIVPVLKRICRKE------GIECDDEA-LKEIAERSGGDLRSAINDL 203

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 244 QfSSSKGENNLrprkkgmslksdavlskskrrkkpdrvfENQEVQAIGGKDVSLFLFRALGKIL---YCKRA--SLTELD 318
Cdd:PRK04195  204 Q-AIAEGYGKL----------------------------TLEDVKTLGRRDREESIFDALDAVFkarNADQAleASYDVD 254

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 319 sprlpshlseyerdtllVEPEEVVEmshmpgdlfnlYLHQN----YIDffmeIDDIVRASEFLSFADILSG------DWn 388
Cdd:PRK04195  255 -----------------EDPDDLIE-----------WIDENipkeYDD----PEDIARAYDALSRADIFLGrvkrtqNY- 301

                         410       420
                  ....*....|....*....|....*...
gi 2462603437 389 trSLLReYSTSIATRGV--MHSNKARGY 414
Cdd:PRK04195  302 --DLWR-YASDLMTAGValAKEKKKRGF 326
HLD_clamp_RarA cd18139
helical lid domain of recombination factor protein RarA; Recombination factor RarA ...
 195-257 4.83e-09

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: 53.02  E-value: 4.83e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462603437 195 PTIMMKFLNRIVTIEANKNGGKITVPDKtSLELLCQGCSGDIRSAINSLQFSSSKGENNLRPR 257
Cdd:cd18139     3 EEDLEKLLKRALEDKERGGDRKVTIDDE-ALELLAEAADGDARSALNLLELAVLSAEEDGGIV 64
Kti12 COG4088
tRNA uridine 5-carbamoylmethylation protein Kti12 (Killer toxin insensitivity protein) ...
 33-103 5.97e-07

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: 49.73  E-value: 5.97e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462603437  33 GSILLITGPPGCGKTTTLKILSKEHGiqVQEWINPVLPdfqKDDFKGMFNTESsfhmFPYQSQIAVFKEFL 103
Cdd:COG4088     4 PMLLILTGPPGSGKTTFAKALAQRLY--AEGIAVALLH---SDDFRRFLVNES----FPKETYEEVVEDVR 65
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 33-56 2.69e-04

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: 41.59  E-value: 2.69e-04
                           10        20
                   ....*....|....*....|....
gi 2462603437   33 GSILLITGPPGCGKTTTLKILSKE 56
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARE 25
 
Name Accession Description Interval E-value
rad24 TIGR00602
checkpoint protein rad24; All proteins in this family for which functions are known are ...
 3-555 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: 888.15  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   3 QHELAVHKKKIEEVETWLKAQVLERQPKQggsILLITGPPGCGKTTTLKILSKEHGIQVQEWINPVLPDFQKDDFKGMFN 82
Cdd:TIGR00602  83 QHELAVHKKKIEEVETWLKAQVLENAPKR---ILLITGPSGCGKSTTIKILSKELGIQVQEWSNPTLPDFQKNDHKVTLS 159

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  83 TESSFHMFpyQSQIAVFKEFLLRATkyNKLQMLGDDLRTDKKIILVEDLPNQFYRDSHTLHEVLR-KYVRIGRCPLIFII 161
Cdd:TIGR00602 160 LESCFSNF--QSQIEVFSEFLLRAT--NKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRwKYVSIGRCPLVFII 235

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 162 SDSLSGDNNQ-RLLFP------KEIQEECSISNISFNPVAPTIMMKFLNRIVTIEANKNGGKITVPDKTSLELLCQGCSG 234
Cdd:TIGR00602 236 TESLEGDNNQrRLLFPaetimnKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSG 315

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 235 DIRSAINSLQFSSSKGenNLRPRKKGMSLKSDAVLSKSKRRKKPDRVFENQEVQAIGGKDVSLFLFRALGKILYCKRASL 314
Cdd:TIGR00602 316 DIRSAINSLQFSSSKS--GSLPIKKRMSTKSDAHASKSKIKGKHSSNNENQEIQALGGKDVSLFLFRALGKILYCKRATL 393

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 315 TELDSPRLPSHLSEYERDTLLVEPEEVVEMSHMPGD-LFNLYLHQNYIDFFMEIDDIVRASEFLSFADILSGDWNTRSLL 393
Cdd:TIGR00602 394 NELDSPRLPSHLSELSRDTLMVGPEEVVEMSHMPGDkTFNLYSHQNYNDFFVEFDDEVKASEFLNFADILSGDWNTRSLL 473

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 394 REYSTSIATRGVMHSNKARGYAHCQGGGSSFRPLHKPQWFLINKKYRENCLAAKALF--PDFCLPALCLQTQLLPYLALL 471
Cdd:TIGR00602 474 REYSTSSARRGVMHSNKARGIAHCQGGKSSFRPLHKPQWFLISKKYRENCLAAKALFkvEDFCLPADCLQTQLLPYLALD 553

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 472 TIPMRNQAQISFIQDIGRLPLKRHFGRLKMEALTDREHGMIDPDSGDEAQLNGGHSAEESLGEPTQATVPETWSLPLSQN 551
Cdd:TIGR00602 554 TIPMRNDAQISFIDDLGRLPLKRDFRRLKMEALTDREVGMIDPDSGDEETSFGDDPAVESDSDPSQAAGPETWSLPDSDN 633


                  ....
gi 2462603437 552 SASE 555
Cdd:TIGR00602 634 SLSE 637
Rad17 pfam03215
Rad17 P-loop domain;
3-173 2.39e-82

Rad17 P-loop domain;


Pssm-ID: 367398 [Multi-domain]  Cd Length: 186  Bit Score: 255.65  E-value: 2.39e-82
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   3 QHELAVHKKKIEEVETWLKAQVLERQPKqggSILLITGPPGCGKTTTLKILSKEHGIQVQEWINPVL---PDFQKDDFKG 79
Cdd:pfam03215  18 LEQLAVHKRKIKDVQEWLDAMFLENAKH---RILLISGPSGCGKSTVIKELSKELGPKYREWSNPTSfrsPPNQVTDFRG 94

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  80 MFNTESSFhmfpyQSQIAVFKEFLLRATKYNKLQMLGDDLRTDKKIILVEDLPNQFYRDSHTLHEVLRKYVRIGRC-PLI 158
Cdd:pfam03215  95 DCIVNSRF-----LSQMESFSEFELKGARYLVMQKRGKNAQGNKKLILIEDLPNVFHIDTRRFQQVIRQWLYSSEPlPLI 169

                         170
                  ....*....|....*..
gi 2462603437 159 FIIS--DSLSGDNNQRL 173
Cdd:pfam03215 170 ICITecEILEGDNNQRK 186
PRK04195 PRK04195
replication factor C large subunit; Provisional
 5-414 1.00e-13

replication factor C large subunit; Provisional


Pssm-ID: 235250 [Multi-domain]  Cd Length: 482  Bit Score: 73.80  E-value: 1.00e-13
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437   5 ELAVHKKKIEEVETWLKAQvLERQPKQGgsiLLITGPPGCGKTTTLKILSKEHGIQVQEwINPvlPDFQKDDfkgmfnte 84
Cdd:PRK04195   15 DVVGNEKAKEQLREWIESW-LKGKPKKA---LLLYGPPGVGKTSLAHALANDYGWEVIE-LNA--SDQRTAD-------- 79

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  85 ssfhmfpyqsqiaVFKEFLLRATKYNKLqmlgddLRTDKKIILVEDLPNQFYR-DSHTLHEVLrKYVRIGRCPLIFIISD 163
Cdd:PRK04195   80 -------------VIERVAGEAATSGSL------FGARRKLILLDEVDGIHGNeDRGGARAIL-ELIKKAKQPIILTAND 139

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 164 SLSgdnnqrlLFPKEIQEECSIsnISFNPVAPTIMMKFLNRIVTIEanknggKITVPDKTsLELLCQGCSGDIRSAINSL 243
Cdd:PRK04195  140 PYD-------PSLRELRNACLM--IEFKRLSTRSIVPVLKRICRKE------GIECDDEA-LKEIAERSGGDLRSAINDL 203

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 244 QfSSSKGENNLrprkkgmslksdavlskskrrkkpdrvfENQEVQAIGGKDVSLFLFRALGKIL---YCKRA--SLTELD 318
Cdd:PRK04195  204 Q-AIAEGYGKL----------------------------TLEDVKTLGRRDREESIFDALDAVFkarNADQAleASYDVD 254

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 319 sprlpshlseyerdtllVEPEEVVEmshmpgdlfnlYLHQN----YIDffmeIDDIVRASEFLSFADILSG------DWn 388
Cdd:PRK04195  255 -----------------EDPDDLIE-----------WIDENipkeYDD----PEDIARAYDALSRADIFLGrvkrtqNY- 301

                         410       420
                  ....*....|....*....|....*...
gi 2462603437 389 trSLLReYSTSIATRGV--MHSNKARGY 414
Cdd:PRK04195  302 --DLWR-YASDLMTAGValAKEKKKRGF 326
HLD_clamp_RarA cd18139
helical lid domain of recombination factor protein RarA; Recombination factor RarA ...
 195-257 4.83e-09

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: 53.02  E-value: 4.83e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 2462603437 195 PTIMMKFLNRIVTIEANKNGGKITVPDKtSLELLCQGCSGDIRSAINSLQFSSSKGENNLRPR 257
Cdd:cd18139     3 EEDLEKLLKRALEDKERGGDRKVTIDDE-ALELLAEAADGDARSALNLLELAVLSAEEDGGIV 64
Kti12 COG4088
tRNA uridine 5-carbamoylmethylation protein Kti12 (Killer toxin insensitivity protein) ...
 33-103 5.97e-07

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: 49.73  E-value: 5.97e-07
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462603437  33 GSILLITGPPGCGKTTTLKILSKEHGiqVQEWINPVLPdfqKDDFKGMFNTESsfhmFPYQSQIAVFKEFL 103
Cdd:COG4088     4 PMLLILTGPPGSGKTTFAKALAQRLY--AEGIAVALLH---SDDFRRFLVNES----FPKETYEEVVEDVR 65
PRK12402 PRK12402
replication factor C small subunit 2; Reviewed
 36-252 3.23e-06

replication factor C small subunit 2; Reviewed


Pssm-ID: 237090 [Multi-domain]  Cd Length: 337  Bit Score: 49.60  E-value: 3.23e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  36 LLITGPPGCGKTTTLKILSKE-HGiqvQEWINPvLPDFQKDDFKGMFNTESS----FHMF------PYQSQIAVFKEFLL 104
Cdd:PRK12402   39 LLVQGPPGSGKTAAVRALARElYG---DPWENN-FTEFNVADFFDQGKKYLVedprFAHFlgtdkrIRSSKIDNFKHVLK 114

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437 105 RATKYNKLQmlgddlrTDKKIILV---EDLPNQFyrdSHTLHEVLRKYVRIGRcpliFIISDSlsgdNNQRLLFPkeIQE 181
Cdd:PRK12402  115 EYASYRPLS-------ADYKTILLdnaEALREDA---QQALRRIMEQYSRTCR----FIIATR----QPSKLIPP--IRS 174

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462603437 182 ECsiSNISFNPVAPTIMMKFLNRIVTIEanknggKITVPDKtSLELLCQGCSGDIRSAINSLQFSSSKGEN 252
Cdd:PRK12402  175 RC--LPLFFRAPTDDELVDVLESIAEAE------GVDYDDD-GLELIAYYAGGDLRKAILTLQTAALAAGE 236
HLD_clamp_RFC cd18140
helical lid domain of replication factor C subunit; Replication factor C (RFC) is five-protein ...
 198-252 1.46e-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: 42.90  E-value: 1.46e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 2462603437 198 MMKFLNRIVTIEanknggKITVPDKtSLELLCQGCSGDIRSAINSLQFSSSKGEN 252
Cdd:cd18140     6 IVKRLREICKKE------GVKIDEE-ALEAIAEKSEGDMRKAINDLQAAAAGGGV 53
SpoVK COG0464
AAA+-type ATPase, SpoVK/Ycf46/Vps4 family [Cell wall/membrane/envelope biogenesis, Cell cycle ...
 10-56 6.55e-05

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: 45.67  E-value: 6.55e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|
gi 2462603437  10 KKKIEEVETWLKAQVLERQ---PKQGGSILLiTGPPGCGKTTTLKILSKE 56
Cdd:COG0464   166 KEELRELVALPLKRPELREeygLPPPRGLLL-YGPPGTGKTLLARALAGE 214
dNK pfam01712
Deoxynucleoside kinase; This family consists of various deoxynucleoside kinases cytidine EC:2. ...
 38-96 7.47e-05

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: 44.23  E-value: 7.47e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 2462603437  38 ITGPPGCGKTTTLKILSKEHGIQ-----VQEWINPVLPDFQKdDFKG---MFNTESSFHMFPYQSQI 96
Cdd:pfam01712   3 IEGNIGAGKSTLTKILSKRLGFKvfeepVDRWTNPYLDKFYK-DPSRwsfALQTYFLNSRFKQQLEA 68
AAA_18 pfam13238
AAA domain;
37-138 1.08e-04

AAA domain;


Pssm-ID: 433052 [Multi-domain]  Cd Length: 128  Bit Score: 42.42  E-value: 1.08e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 2462603437  37 LITGPPGCGKTTTLKILSKEHGIQvqewinpvlpDFQKDDFKGMFNTESSFHmfpyqsQIAVFKEFLLRATKYNKLQMLG 116
Cdd:pfam13238   2 LITGTPGVGKTTLAKELSKRLGFG----------DNVRDLALENGLVLGDDP------ETRESKRLDEDKLDRLLDLLEE 65

                          90       100
                  ....*....|....*....|..
gi 2462603437 117 DDLRTDKKIILVEDLPNQFYRD 138
Cdd:pfam13238  66 NAALEEGGNLIIDGHLAELEPE 87
AAA smart00382
ATPases associated with a variety of cellular activities; AAA - ATPases associated with a ...
 33-56 2.69e-04

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: 41.59  E-value: 2.69e-04
                           10        20
                   ....*....|....*....|....
gi 2462603437   33 GSILLITGPPGCGKTTTLKILSKE 56
Cdd:smart00382   2 GEVILIVGPPGSGKTTLARALARE 25
AAA cd00009
The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily ...
 20-56 3.49e-04

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: 41.36  E-value: 3.49e-04
                          10        20        30
                  ....*....|....*....|....*....|....*..
gi 2462603437  20 LKAQVLERQPKQGGSILLITGPPGCGKTTTLKILSKE 56
Cdd:cd00009     6 AIEALREALELPPPKNLLLYGPPGTGKTTLARAIANE 42
AAA pfam00004
ATPase family associated with various cellular activities (AAA); AAA family proteins often ...
 36-61 1.21e-03

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: 39.11  E-value: 1.21e-03
                          10        20
                  ....*....|....*....|....*.
gi 2462603437  36 LLITGPPGCGKTTTLKILSKEHGIQV 61
Cdd:pfam00004   1 LLLYGPPGTGKTTLAKAVAKELGAPF 26
Fap7 COG1936
Broad-specificity NMP kinase [Nucleotide transport and metabolism];
35-61 1.44e-03

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


Pssm-ID: 441539 [Multi-domain]  Cd Length: 173  Bit Score: 39.80  E-value: 1.44e-03
                          10        20
                  ....*....|....*....|....*..
gi 2462603437  35 ILLITGPPGCGKTTTLKILSKEHGIQV 61
Cdd:COG1936     2 RIAITGTPGTGKTTVAKLLAERLGLEV 28
AAA_28 pfam13521
AAA domain;
38-61 1.92e-03

AAA domain;


Pssm-ID: 433278 [Multi-domain]  Cd Length: 164  Bit Score: 39.17  E-value: 1.92e-03
                          10        20
                  ....*....|....*....|....
gi 2462603437  38 ITGPPGCGKTTTLKILSKEHGIQV 61
Cdd:pfam13521   4 ITGGPSTGKTTLAEALAARFGYPV 27
DEXSc_RecD-like cd17933
DEXS-box helicase domain of RecD and similar proteins; RecD is a member of the RecBCD (EC 3.1. ...
 32-61 2.27e-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: 39.07  E-value: 2.27e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 2462603437  32 GGSILLITGPPGCGKTTTLK---ILSKEHGIQV 61
Cdd:cd17933    11 RNRVSVLTGGAGTGKTTTLKallAALEAEGKRV 43
ABC_ATPase cd00267
ATP-binding cassette transporter nucleotide-binding domain; ABC transporters are a large ...
 33-54 2.56e-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: 38.77  E-value: 2.56e-03
                          10        20
                  ....*....|....*....|..
gi 2462603437  33 GSILLITGPPGCGKTTTLKILS 54
Cdd:cd00267    25 GEIVALVGPNGSGKSTLLRAIA 46
RecA-like_protease cd19481
proteases similar to RecA; RecA-like NTPases. This family includes the NTP binding domain of ...
 6-61 3.29e-03

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: 38.42  E-value: 3.29e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 2462603437   6 LAVHKKKIEEVETWLKAQVLERQPKQGgsILLItGPPGCGKTTTLKILSKEHGIQV 61
Cdd:cd19481     2 KASLREAVEAPRRGSRLRRYGLGLPKG--ILLY-GPPGTGKTLLAKALAGELGLPL 54
PRK04182 PRK04182
cytidylate kinase; Provisional
 35-59 3.37e-03

cytidylate kinase; Provisional


Pssm-ID: 235244 [Multi-domain]  Cd Length: 180  Bit Score: 38.63  E-value: 3.37e-03
                          10        20
                  ....*....|....*....|....*
gi 2462603437  35 ILLITGPPGCGKTTTLKILSKEHGI 59
Cdd:PRK04182    2 IITISGPPGSGKTTVARLLAEKLGL 26
ABC_tran pfam00005
ABC transporter; ABC transporters for a large family of proteins responsible for translocation ...
 33-57 4.32e-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: 4.32e-03
                          10        20
                  ....*....|....*....|....*
gi 2462603437  33 GSILLITGPPGCGKTTTLKILSKEH 57
Cdd:pfam00005  11 GEILALVGPNGAGKSTLLKLIAGLL 35
AAA_17 pfam13207
AAA domain;
39-61 4.42e-03

AAA domain;


Pssm-ID: 463810 [Multi-domain]  Cd Length: 136  Bit Score: 37.60  E-value: 4.42e-03
                          10        20
                  ....*....|....*....|...
gi 2462603437  39 TGPPGCGKTTTLKILSKEHGIQV 61
Cdd:pfam13207   1 TGVPGSGKTTQLKKLAEKLGFPH 23
PulE COG2804
Type II secretory pathway ATPase GspE/PulE or T4P pilus assembly pathway ATPase PilB [Cell ...
 27-67 4.44e-03

Type II secretory pathway ATPase GspE/PulE or T4P pilus assembly pathway ATPase PilB [Cell motility, Intracellular trafficking, secretion, and vesicular transport, Extracellular structures];


Pssm-ID: 442055 [Multi-domain]  Cd Length: 561  Bit Score: 39.79  E-value: 4.44e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 2462603437  27 RQPkQGgsILLITGPPGCGKTTTL------------KILSKE-------HGI-QVQewINP 67
Cdd:COG2804   310 RRP-HG--IILVTGPTGSGKTTTLyaalnelntperNIITVEdpveyqlPGInQVQ--VNP 365
AAA_22 pfam13401
AAA domain;
30-60 4.76e-03

AAA domain;


Pssm-ID: 379165 [Multi-domain]  Cd Length: 129  Bit Score: 37.32  E-value: 4.76e-03
                          10        20        30
                  ....*....|....*....|....*....|.
gi 2462603437  30 KQGGSILLITGPPGCGKTTTLKILSKEHGIQ 60
Cdd:pfam13401   2 RFGAGILVLTGESGTGKTTLLRRLLEQLPEV 32
ABCD_peroxisomal_ALDP cd03223
ATP-binding cassette domain of peroxisomal transporter, subfamily D; Peroxisomal ATP-binding ...
 30-54 6.92e-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: 6.92e-03
                          10        20
                  ....*....|....*....|....*
gi 2462603437  30 KQGGSiLLITGPPGCGKTTTLKILS 54
Cdd:cd03223    25 KPGDR-LLITGPSGTGKSSLFRALA 48
PRK10247 PRK10247
putative ABC transporter ATP-binding protein YbbL; Provisional
 31-54 6.92e-03

putative ABC transporter ATP-binding protein YbbL; Provisional


Pssm-ID: 182331 [Multi-domain]  Cd Length: 225  Bit Score: 38.54  E-value: 6.92e-03
                          10        20
                  ....*....|....*....|....
gi 2462603437  31 QGGSILLITGPPGCGKTTTLKILS 54
Cdd:PRK10247   31 RAGEFKLITGPSGCGKSTLLKIVA 54
CcmA COG4133
ABC-type transport system involved in cytochrome c biogenesis, ATPase component ...
 33-54 8.97e-03

ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones];


Pssm-ID: 443308 [Multi-domain]  Cd Length: 206  Bit Score: 37.84  E-value: 8.97e-03
                          10        20
                  ....*....|....*....|..
gi 2462603437  33 GSILLITGPPGCGKTTTLKILS 54
Cdd:COG4133    28 GEALALTGPNGSGKTTLLRILA 49
 
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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