|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
1-1107 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 2126.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKSYPL 80
Cdd:PRK06920 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKSYPL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 81 VLLAENEIGYQNLLKISSSIMTKSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGNFYMS 160
Cdd:PRK06920 81 VLLAENEIGYQNLLKISSSIMTKSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGNFYMS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 161 LQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDEMEAL 240
Cdd:PRK06920 161 LQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDEMEAL 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 241 FSHVEEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRYGTPKEVHINRLNHELNVISSMGFS 320
Cdd:PRK06920 241 FSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINRLNHELNVISRMGFS 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 321 DYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDEMIRYV 400
Cdd:PRK06920 321 DYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDTRRDEMIRYV 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 401 KDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHERVFEIA 480
Cdd:PRK06920 401 KDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHERVFEIA 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 481 KRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIVQKTGKE 560
Cdd:PRK06920 481 KRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIEQKTGKE 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 561 IDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEYLH 640
Cdd:PRK06920 561 IDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEYLH 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 641 PDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIVR 720
Cdd:PRK06920 641 PDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIVR 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 721 FANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAI 800
Cdd:PRK06920 721 FANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAI 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 801 RYSLLSIRNIGMATVTALLEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEYANLA 880
Cdd:PRK06920 801 RYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEYANLA 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 881 RDLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQRAIVYITSVRVIRT 960
Cdd:PRK06920 881 RDLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQRAIVYITSVKVIRT 960
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 961 KKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAYEEKKDASVYVK 1040
Cdd:PRK06920 961 KKGQKMAFITFCDQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAYEEKKDASVYVK 1040
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446596399 1041 LPSQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
Cdd:PRK06920 1041 LPSQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
3-1021 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1426.77 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASI-FSEEEEKSYPLV 81
Cdd:COG0587 5 FVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVaPGSRDDAGYHLV 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 82 LLAENEIGYQNLLKISSSIMT----KSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFG-N 156
Cdd:COG0587 85 LLAKNREGYRNLCRLLSRAYLegfyKGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLKDIFGdR 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 157 FYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDE 236
Cdd:COG0587 165 FYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLKSPEE 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 237 MEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRYGTPK-EVHINRLNHELNVIS 315
Cdd:COG0587 245 MAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIpEEYRERLEYELDVIE 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 316 SMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDE 395
Cdd:COG0587 325 KMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCHERREE 404
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 396 MIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHER 475
Cdd:COG0587 405 VIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEPELRELYDSDPEVRR 484
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 476 VFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHN-DVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIV 554
Cdd:COG0587 485 LLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMgGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIRDALDLIK 564
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 555 QKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQ--IPTFIESKHG 632
Cdd:COG0587 565 ENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGgmVPPYIRRKHG 644
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 633 KRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAE 712
Cdd:COG0587 645 REPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEMAKQREKFVEGAVANGYDEEFAE 724
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 713 KIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYN 792
Cdd:COG0587 725 EIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLPPDVNESDWD 804
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 793 FQIE-GNAIRYSLLSIRNIGMATVTALLEEREKKM-FEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSL 870
Cdd:COG0587 805 FTVEpGGAIRLGLGAIKGVGEAAAEAIVAAREENGpFTSLFDFCRRVDLRKLNKRVLEALIKAGAFDSLGPNRRQLLWAL 884
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 871 KGALEYANLAR--------DL-----GDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQ 937
Cdd:COG0587 885 EAALDAAQQAQkdkasgqlSLfggagDEEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYREELRRLGVTPAAD 964
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 938 --AMRHKKKVqRAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQW 1015
Cdd:COG0587 965 laELRDGRRV-RVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVRGKVQRRDGVVHL 1043
|
....*.
gi 446596399 1016 IVNGLY 1021
Cdd:COG0587 1044 IAERIE 1049
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
3-983 |
0e+00 |
|
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are known are DNA polymerases. 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: 273161 [Multi-domain] Cd Length: 1022 Bit Score: 1226.09 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSE---------E 73
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGsrfdkkrisK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 74 EEKSYPLVLLAENEIGYQNLLKISSSIMTKS---KEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAY 150
Cdd:TIGR00594 81 GKEAYHLILLAKNNTGYRNLMKLSSLAYLEGfyyKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 151 QNMFGN-FYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQY 229
Cdd:TIGR00594 161 QEIFGDdYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 230 YLKSSDEMEALFSHVEEAIYNTVEIAERCR-VEIPFHVNQLPKFPVPSN-ETNDMYLRRVCEEGLQKRYGTPKE------ 301
Cdd:TIGR00594 241 YLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYQIPPDfTSQEDYLRHLADEGLRERLAAGPPgykrra 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 302 VHINRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTL 381
Cdd:TIGR00594 321 QYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERISM 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 382 PDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQ 461
Cdd:TIGR00594 401 PDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKEALEASP 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 462 SLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHND-VYVTQYPADALEELGLLKMDFLGL 540
Cdd:TIGR00594 481 QLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGgAISTQYDMDDLEAVGLLKMDFLGL 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 541 RNLTLLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPM 620
Cdd:TIGR00594 561 KTLTLIQDATELIRKRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNALYRPGPM 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 621 EQ--IPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFV 698
Cdd:TIGR00594 641 ESgmIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEEMAKEREKFV 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 699 QGCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKG 778
Cdd:TIGR00594 721 EGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYIAEAKKMG 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 779 FHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKK-MFEDLFEFCLRMPSKFVTERNLEAFVWSGCFD 857
Cdd:TIGR00594 801 IEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINRVDFKKLNKKVLEALIKAGAFD 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 858 DFGVSRTNLWKSLKGALEYANL--------------ARDLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQY 923
Cdd:TIGR00594 881 SLGPNRKTLLASLDDALDAVSRkkkaealgqnslfgALSEGTKPEYVFFPPDEEWPDKKLLALEKETLGLYVSGHPLDAY 960
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446596399 924 VKLAKELEIP--SLAQAMRHKKKVQRAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLF 983
Cdd:TIGR00594 961 EKALKNTATPaaIEDLEAPNDSQVRTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
283-539 |
5.48e-137 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 414.21 E-value: 5.48e-137
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 283 YLRRVCEEGLQKRYGTPK-EVHINRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDI 361
Cdd:pfam07733 2 YLRKLVEEGLKERYGEGLpEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITEV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 362 DPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIF 441
Cdd:pfam07733 82 DPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDRL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 442 SKLIPSKLGItLKDAYEESQSLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQE-GHNDVYVT 520
Cdd:pfam07733 162 AKLIPFELGI-LEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKaDDDDRPVT 240
|
250
....*....|....*....
gi 446596399 521 QYPADALEELGLLKMDFLG 539
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
3-270 |
2.46e-105 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, the PolIIIA PHP exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such an activity has not been found. It has been shown that the PHP of PolIIIA has a trinuclear metal complex and is capable of proofreading activity. Bacterial genome replication and DNA repair mechanisms is related to the GC content of its genomes. There is a correlation between GC content variations and the dimeric combinations of PolIIIA subunits. Eubacteria can be grouped into different GC variable groups: the full-spectrum or dnaE1 group, the high-GC or dnaE2-dnaE1 group, and the low GC or polC-dnaE3 group.
Pssm-ID: 213997 [Multi-domain] Cd Length: 283 Bit Score: 331.71 E-value: 2.46e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTA-----SIF----SEE 73
Cdd:cd12113 2 FVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVyvapgSRFdkkdKKG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 74 EEKSYPLVLLAENEIGYQNLLKISSsimTKSKEG------IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVA 147
Cdd:cd12113 82 DKRYYHLVLLAKNEEGYRNLMKLVS---LAYLEGfyykprIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 148 RAYQNMFG--NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLK 225
Cdd:cd12113 159 LEYRDIFGkdNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFD 238
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 446596399 226 TDQYYLKSSDEMEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLP 270
Cdd:cd12113 239 TDEFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
5-69 |
1.40e-19 |
|
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Pssm-ID: 197753 [Multi-domain] Cd Length: 67 Bit Score: 83.47 E-value: 1.40e-19
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446596399 5 HLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASI 69
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANI 65
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
1-1107 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 2126.02 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKSYPL 80
Cdd:PRK06920 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKSYPL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 81 VLLAENEIGYQNLLKISSSIMTKSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGNFYMS 160
Cdd:PRK06920 81 VLLAENEIGYQNLLKISSSIMTKSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGNFYMS 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 161 LQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDEMEAL 240
Cdd:PRK06920 161 LQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDEMEAL 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 241 FSHVEEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRYGTPKEVHINRLNHELNVISSMGFS 320
Cdd:PRK06920 241 FSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINRLNHELNVISRMGFS 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 321 DYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDEMIRYV 400
Cdd:PRK06920 321 DYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDTRRDEMIRYV 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 401 KDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHERVFEIA 480
Cdd:PRK06920 401 KDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHERVFEIA 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 481 KRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIVQKTGKE 560
Cdd:PRK06920 481 KRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIEQKTGKE 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 561 IDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEYLH 640
Cdd:PRK06920 561 IDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEYLH 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 641 PDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIVR 720
Cdd:PRK06920 641 PDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIVR 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 721 FANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAI 800
Cdd:PRK06920 721 FANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAI 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 801 RYSLLSIRNIGMATVTALLEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEYANLA 880
Cdd:PRK06920 801 RYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEYANLA 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 881 RDLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQRAIVYITSVRVIRT 960
Cdd:PRK06920 881 RDLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQRAIVYITSVKVIRT 960
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 961 KKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAYEEKKDASVYVK 1040
Cdd:PRK06920 961 KKGQKMAFITFCDQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAYEEKKDASVYVK 1040
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446596399 1041 LPSQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
Cdd:PRK06920 1041 LPSQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
3-1021 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1426.77 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASI-FSEEEEKSYPLV 81
Cdd:COG0587 5 FVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVaPGSRDDAGYHLV 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 82 LLAENEIGYQNLLKISSSIMT----KSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFG-N 156
Cdd:COG0587 85 LLAKNREGYRNLCRLLSRAYLegfyKGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLKDIFGdR 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 157 FYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDE 236
Cdd:COG0587 165 FYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLKSPEE 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 237 MEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRYGTPK-EVHINRLNHELNVIS 315
Cdd:COG0587 245 MAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIpEEYRERLEYELDVIE 324
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 316 SMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDE 395
Cdd:COG0587 325 KMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCHERREE 404
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 396 MIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHER 475
Cdd:COG0587 405 VIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEPELRELYDSDPEVRR 484
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 476 VFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHN-DVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIV 554
Cdd:COG0587 485 LLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMgGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIRDALDLIK 564
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 555 QKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQ--IPTFIESKHG 632
Cdd:COG0587 565 ENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGgmVPPYIRRKHG 644
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 633 KRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAE 712
Cdd:COG0587 645 REPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEMAKQREKFVEGAVANGYDEEFAE 724
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 713 KIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYN 792
Cdd:COG0587 725 EIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLPPDVNESDWD 804
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 793 FQIE-GNAIRYSLLSIRNIGMATVTALLEEREKKM-FEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSL 870
Cdd:COG0587 805 FTVEpGGAIRLGLGAIKGVGEAAAEAIVAAREENGpFTSLFDFCRRVDLRKLNKRVLEALIKAGAFDSLGPNRRQLLWAL 884
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 871 KGALEYANLAR--------DL-----GDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQ 937
Cdd:COG0587 885 EAALDAAQQAQkdkasgqlSLfggagDEEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYREELRRLGVTPAAD 964
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 938 --AMRHKKKVqRAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQW 1015
Cdd:COG0587 965 laELRDGRRV-RVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVRGKVQRRDGVVHL 1043
|
....*.
gi 446596399 1016 IVNGLY 1021
Cdd:COG0587 1044 IAERIE 1049
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
3-1100 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1330.89 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKS----- 77
Cdd:PRK05673 2 FVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKDDVsggga 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 78 -YPLVLLAENEIGYQNLLKISS--SImtkskEG-------IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVA 147
Cdd:PRK05673 82 yTHLTLLAKNETGYRNLFKLSSraYL-----EGqygykprIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAA 156
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 148 RAYQNMFG-NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKT 226
Cdd:PRK05673 157 AEYQEIFGdRFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFRFYS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 227 DQYYLKSSDEMEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRY--GTPKEVH- 303
Cdd:PRK05673 237 PEQYLKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLafLFPDEERp 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 304 --INRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTL 381
Cdd:PRK05673 317 eyVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVSM 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 382 PDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQ 461
Cdd:PRK05673 397 PDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPGITLAKAYEEEP 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 462 SLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAI-QEGHNDVYVTQYPADALEELGLLKMDFLGL 540
Cdd:PRK05673 477 ELRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLyRDPDSGMPVTQFDMKDVEAAGLVKFDFLGL 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 541 RNLTLLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPM 620
Cdd:PRK05673 557 RTLTIIDDALKLIKKRRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIALVALYRPGPM 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 621 EQ--IPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFV 698
Cdd:PRK05673 637 ESgmIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKPEEMAKQREIFV 716
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 699 QGCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKG 778
Cdd:PRK05673 717 EGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMDNTDKVAVYLDECRRMG 796
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 779 FHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKKM-FEDLFEFCLRMPSKFVTERNLEAFVWSGCFD 857
Cdd:PRK05673 797 IKVLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGGpFKDLFDFCARVDLKKVNKRVLESLIKAGAFD 876
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 858 DFGVSRTNLWKSLKGALEYA-NLAR-------DL------GDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQY 923
Cdd:PRK05673 877 SLGPNRAALLASLEDAVDAAdQHKKaeasgqfDLfgglgeEPEDVEVSVPDVEEWDKKEKLAGERETLGLYLSGHPLDGY 956
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 924 VKLAKELEIPSLAQAMRHKK-KVQRAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLV 1002
Cdd:PRK05673 957 EDELRRLRDTRLADLEPTEGgSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSEALEKYRDLLEEDRIVVV 1036
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1003 DGTIELRNHKLQWIVNGLYPLEEMdayEEKKDASVYVKLP-SQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHK--MVQL 1079
Cdd:PRK05673 1037 KGQVSFDDGGLRLTAREVMDLEEA---RAKYARPLRISLPdRQLTPQLLERLKQVLEPHRGTSPVHLYLQDPDAeaELRL 1113
|
1130 1140
....*....|....*....|.
gi 446596399 1080 SRSLSIHPSEECLGALREIVG 1100
Cdd:PRK05673 1114 GDRWRVTPSDALLGDLKALLG 1134
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-1107 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 1300.63 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIG---LTA--SIFSEE-- 73
Cdd:PRK06826 3 MSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGcevYVAprSRFDKEpd 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 74 -EEKSYPLVLLAENEIGYQNLLKISSsimTKSKEG------IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEV 146
Cdd:PRK06826 83 iDNETYHLVLLAKNETGYKNLMKIVS---KAFTEGfyykprVDHELLKEHSEGLIALSACLAGEVPRYILKGNYEKAKEA 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 147 ARAYQNMFG--NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRL 224
Cdd:PRK06826 160 ALFYKDIFGkeNFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENRMRF 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 225 KTDQYYLKSSDEMEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRYGTPKEVHI 304
Cdd:PRK06826 240 PSDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPNPSEELI 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 305 NRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDI 384
Cdd:PRK06826 320 ERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSMPDI 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 385 DIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLR 464
Cdd:PRK06826 400 DIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKMIPTELGITIDKALELNPELK 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 465 EFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEgHNDVYVTQYPADALEELGLLKMDFLGLRNLT 544
Cdd:PRK06826 480 EAYENDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPLQK-NDGSIVTQFTMTTLEELGLLKMDFLGLRTLT 558
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 545 LLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIP 624
Cdd:PRK06826 559 VIRDAVDLIKKNRGIEIDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGISLYRPGPMDSIP 638
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 625 TFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQG---- 700
Cdd:PRK06826 639 RYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSKKKHDVMEEERKNFIYGivde 718
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 701 ----CLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKR 776
Cdd:PRK06826 719 ggpgCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNSVMGNSDKVAFYIEECRR 798
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 777 KGFHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKK-MFEDLFEFCLRMPSKFVTERNLEAFVWSGC 855
Cdd:PRK06826 799 LGIEVLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKgKFKSLVDFCERVDTSQINKRAVESLIKAGA 878
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 856 FDDFGVSRTNLWKSLKGALEYA------------NLARDLGDAVPKS---KYVQGEELSFIEQLNKEKEVLGFYLSSYPT 920
Cdd:PRK06826 879 FDSLGVYRSQLLAVYEKILDSIskqrkkniegqiSLFDLIGEEEESSleiKYPDIKEFDKKELLAMEKEMLGLYISGHPL 958
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 921 AQYVKLAKELEIPSLAQAMRHKKKVQRAIVY----------ITSVRVIRTKKLQKMAFITFCDQNDEMEAVLFPETYIHF 990
Cdd:PRK06826 959 EEYEETLKKQTSATISDIISDEEEDGESKLKdgdkviiggiITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPKVYEKY 1038
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 991 SDKLQEGAIVLVDGTIELRNHKL-QWIVNGLYPLEEMdayEEKKdasVYVKLPSQYE-KKLLNQVTKILFDYSGFAKVLI 1068
Cdd:PRK06826 1039 RSLLNEDNIVLIKGRVSLREDEEpKLICEEIEPLVIN---SEKK---LYLRVEDKKDiKLKLKELKEILKQYPGNTPVYL 1112
|
1130 1140 1150
....*....|....*....|....*....|....*....
gi 446596399 1069 YYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
Cdd:PRK06826 1113 YTEKERKKFKLDRELWVNLSPELINELKELLGEENVKVV 1151
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
3-983 |
0e+00 |
|
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are known are DNA polymerases. 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: 273161 [Multi-domain] Cd Length: 1022 Bit Score: 1226.09 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSE---------E 73
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGsrfdkkrisK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 74 EEKSYPLVLLAENEIGYQNLLKISSSIMTKS---KEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAY 150
Cdd:TIGR00594 81 GKEAYHLILLAKNNTGYRNLMKLSSLAYLEGfyyKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 151 QNMFGN-FYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQY 229
Cdd:TIGR00594 161 QEIFGDdYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 230 YLKSSDEMEALFSHVEEAIYNTVEIAERCR-VEIPFHVNQLPKFPVPSN-ETNDMYLRRVCEEGLQKRYGTPKE------ 301
Cdd:TIGR00594 241 YLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYQIPPDfTSQEDYLRHLADEGLRERLAAGPPgykrra 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 302 VHINRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTL 381
Cdd:TIGR00594 321 QYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERISM 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 382 PDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQ 461
Cdd:TIGR00594 401 PDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKEALEASP 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 462 SLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHND-VYVTQYPADALEELGLLKMDFLGL 540
Cdd:TIGR00594 481 QLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGgAISTQYDMDDLEAVGLLKMDFLGL 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 541 RNLTLLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPM 620
Cdd:TIGR00594 561 KTLTLIQDATELIRKRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNALYRPGPM 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 621 EQ--IPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFV 698
Cdd:TIGR00594 641 ESgmIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEEMAKEREKFV 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 699 QGCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKG 778
Cdd:TIGR00594 721 EGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYIAEAKKMG 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 779 FHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKK-MFEDLFEFCLRMPSKFVTERNLEAFVWSGCFD 857
Cdd:TIGR00594 801 IEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINRVDFKKLNKKVLEALIKAGAFD 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 858 DFGVSRTNLWKSLKGALEYANL--------------ARDLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQY 923
Cdd:TIGR00594 881 SLGPNRKTLLASLDDALDAVSRkkkaealgqnslfgALSEGTKPEYVFFPPDEEWPDKKLLALEKETLGLYVSGHPLDAY 960
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446596399 924 VKLAKELEIP--SLAQAMRHKKKVQRAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLF 983
Cdd:TIGR00594 961 EKALKNTATPaaIEDLEAPNDSQVRTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
1-1027 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 930.29 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIG-----LTASI--FSEE 73
Cdd:PRK07374 1 MAFVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGnemyvINGSIddPQPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 74 EEKSYPLVLLAENEIGYQNLLKISSSIMTKSKEG--------IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEE 145
Cdd:PRK07374 81 KEKRYHLVVLAKNATGYKNLVKLTTISHLNGMRGrgifsrpcIDKELLKQYSEGLIVSTACLGGEIPQAILRGRPDVARD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 146 VARAYQNMFG-NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRL 224
Cdd:PRK07374 161 VAAWYKEVFGdDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDEKRLRY 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 225 kTDQYYLKSSDEMEALFS-HVE-----EAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRYGT 298
Cdd:PRK07374 241 -TGTEYIKSEEEMLRLFRdHLDpeviqEAIANTVEVAEKVEEYDILGTYRMPRFPIPEGHTAVSYLTEVTEQGLLKRLKL 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 299 PKEVHI-----NRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERF 373
Cdd:PRK07374 320 NSLDEIdenykERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIPVGPGRGSAAGSLVAYALGITNIDPVKNGLLFERF 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 374 LNPERVTLPDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIP------S 447
Cdd:PRK07374 400 LNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIPvvrgkpA 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 448 KLGITLKDAyEESQSLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADAL 527
Cdd:PRK07374 480 KLKAMIGKE-SPSPEFREKYEKDPRVKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRNNDGQVITQYFMEDI 558
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 528 EELGLLKMDFLGLRNLTLLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFED 607
Cdd:PRK07374 559 ESLGLLKMDFLGLKNLTMIEKTLELVEQSTGERIDPDNLPLDDEKTFELLARGDLEGIFQLESSGMRQVVRDLKPSSLED 638
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 608 IVAVNSLYRPGPMEQ--IPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKK 685
Cdd:PRK07374 639 ISSILALYRPGPLDAglIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAGYSLGQADLLRRAMGKK 718
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 686 NRDILDQERKHFVQGCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNED 765
Cdd:PRK07374 719 KVSEMQKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLKAHYPVAYMAALLTVNAGSSD 798
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 766 KIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKK-MFEDLFEFCLRMPSKFVTE 844
Cdd:PRK07374 799 KVQRYISNCNSMGIEVMPPDINRSGIDFTPKGNRILFGLSAVKNLGDGAIRNIIAARDSDgPFKSLADLCDRLPSNVLNR 878
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 845 RNLEAFVWSGCFDDF--GVSRTNLWKSLKGALEYA-NLARD-------LGDAV--------------PKSKYVqgEELSF 900
Cdd:PRK07374 879 RSLESLIHCGALDAFspNANRAQLIADLDLVLDWAsSRARDrasgqgnLFDLLagseeeasndlssaPKAAPV--PDYPP 956
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 901 IEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQ--AMRHKKKVQrAIVYITSVRVIRTKKLQKMAFITFCDQNDEM 978
Cdd:PRK07374 957 TEKLKLEKELLGFYLSDHPLKQLTEPAKLLAPISLSSleEQPDKAKVS-AIAMIPEMKQVTTRKGDRMAILQLEDLTGSC 1035
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*....
gi 446596399 979 EAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMD 1027
Cdd:PRK07374 1036 EAVVFPKSYERLSDHLMTDTRLLVWAKVDRRDDRVQLIIDDCREIDDLR 1084
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
3-1099 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 799.63 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEeeKSYPLVL 82
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIFVEE--QEVTLRL 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 83 LAENEIGYQNLLKISSSIMTKSKEgipKKWLAHYAKGLIAISPGKDGeIEQLLLEDkesqaeevarayqnmfgNFYMSLq 162
Cdd:PRK07279 80 IAKNTQGYKNLLKISTAKMSGKKQ---FSDLSQYLEGIAVIVPYFDW-SETLELPF-----------------DYYIGV- 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 163 hhaiqDELLLQEKLpafmnrvNIPVVATNDVRYINQSDALVHECLLSVESGTKMTD-PDRPRlktDQYyLKSSDEMEALF 241
Cdd:PRK07279 138 -----DQETPGSDF-------KRPILPLRTVRYFESADRETLQMLHAIRDNLSLREvPLVSS---DQE-LISCQSLETLF 201
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 242 -SHVEEAIYNTVEIAErcrvEIPFHVN---QLPKF--PVPSNEtndmYLRRVCEEGLQKRyGTPKEVHINRLNHELNVIS 315
Cdd:PRK07279 202 qERFPQALDNLEKLVS----GISYDFDtdlKLPRFnrDRPAVE----ELRELAELGLKEK-GLWSSPYQERLDKELSVIH 272
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 316 SMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDE 395
Cdd:PRK07279 273 DMGFDDYFLIVWDLLRFGRSQGYYMGMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDIDLPDIYRSE 352
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 396 MIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIpsKLGITLKDAYEESQSLREFIQGNLLHER 475
Cdd:PRK07279 353 FLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKI--SFRDSLASVYEKNISFRQIINSKLEYQK 430
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 476 VFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGhNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIVQ 555
Cdd:PRK07279 431 AFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYG-DDMMITQYDAHAVEANGLLKMDFLGLRNLTFVQKMQEKVAK 509
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 556 KTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRK 635
Cdd:PRK07279 510 DYGIHIDIEAIDLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNRPGASDYTDNFVKRRHGQEK 589
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 636 IEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIY 715
Cdd:PRK07279 590 VDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSKKNASEMQKMEEDFLQGALELGHSEEKARELF 669
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 716 DLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAigNEDkivqYIRETKRKGFHVLPPSLQRSGYNFQI 795
Cdd:PRK07279 670 DRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFYDIMLNYS--SSD----YITDALEFGFEVAKLSINTIPYHDKI 743
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 796 EGNAIRYSLLSIRNIGMATVTALLEEREKKMFEDlfeFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALE 875
Cdd:PRK07279 744 ENKKIYLGLKNIKGLPRDLAYWIIENRPFSSIED---FLTRLPENYQKKEFLEPLIKIGLFDSFEKNRQKIINNLDNLFV 820
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 876 YANlarDLGDAVPKSKY--VQGEELSFIEQLNKEKEVLGFYLSSYPtaqYVKLAKELEIPSLAQAMRHKKKVQRAIVYIT 953
Cdd:PRK07279 821 FVN---ELGSLFADSSYswVEAEDYSETEKYSLEQELLGVGVSKHP---LQAIAEKSSRPFTPISQLVKNSEATILVQIQ 894
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 954 SVRVIRTK-KLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPleemdAYEEK 1032
Cdd:PRK07279 895 SIRVIRTKtKGQQMAFLSVTDTKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERDGRLQMVLQQIQE-----ASSER 969
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 446596399 1033 kdasVYVKLPSQyekKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLsIHPSEECLGALREIV 1099
Cdd:PRK07279 970 ----FWILLENH---EHDQEISEILGAFPGSIPVIIHYQEEKETIQSTHIF-VAKSEELEEKLSEFV 1028
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
1-1000 |
0e+00 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 712.23 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLtasifsEEEEKSYPL 80
Cdd:PRK07135 1 MKLINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGL------DLEVENFRF 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 81 VLLAENEIGYQNLLKISSSIMtkSKEGIPkkwLAHYAK-GLIAISPGKDGeieqlLLEDKESQAEevarayqnmFGNFYM 159
Cdd:PRK07135 75 ILLAKNYSGYKLLNELSSKKS--KNKEIE---LNDLDSdNIIIIDHPKNG-----FYAKNKEQLE---------LKNYYI 135
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 160 SLQHHAIQDELLLQEKlpafmnrvnipvvatndvRYINQSDALVHECLLSVESGTKMTdpdrprlKTDQYYlkssdEMEA 239
Cdd:PRK07135 136 NSNDPKIENAVYVQER------------------KLLFAEDNEYLKILNKIGNNKEEN-------SNFKFF-----DFEK 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 240 LFSHVEEAIY-NTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKR------YGTPKEvhinRLNHELN 312
Cdd:PRK07135 186 WFEDIDEKILkRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKILKESVINKkaelkyYPNVKE----RINYEYS 261
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 313 VISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIR 392
Cdd:PRK07135 262 VIKKLKFSNYFLIIWDFIKWARKNKISIGPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDIDIDIQDDR 341
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 393 RDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPskLGITLKDAYEESQSLREFI--QGN 470
Cdd:PRK07135 342 RDEVIDYIFEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIP--NNQSLEEAYDKNKSFFRELisKGD 419
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 471 LLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENII 550
Cdd:PRK07135 420 PIYKKLYKIAKKLEGLPRQSGTHAAGIIISNKPITNYVPTFESKDNYNQVQYSMEFLEDFGLLKIDLLGLKNLTIIKNIE 499
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 551 KFIVQKT--GKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIE 628
Cdd:PRK07135 500 EKINKELlfDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRPGPIQYIPIYAK 579
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 629 SKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDE 708
Cdd:PRK07135 580 NKKNPKNIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISKKDETKLDKIKDKFIEGGIKNGYSK 659
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 709 TSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQR 788
Cdd:PRK07135 660 KVLEKIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISNSNGSQENIKKYVKEAKNNGIKVYSPDINF 739
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 789 SGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKK-MFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGvSRTNLW 867
Cdd:PRK07135 740 STENAVFDNGKIFLPLIMIKGLGSVAIKKIIDERNKNgKYKNFFDFILRLKFIGISKSIIEKLIKANTLRSFG-NQDTLL 818
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 868 KSLKGALEYA-----NLARDLGDAVPKSKYVQGEELSFIE-----QLNKEKEVLGFYLSSYPTAQYVKlaKELEIPSLAQ 937
Cdd:PRK07135 819 NNLELAKNYAetilsKVAKNLYDDYKNFGLDLEFILEEIErdleeESKNEIEYLGMSFNAFDTNKLEK--NQIRLKDLRI 896
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 446596399 938 AMRHkkkvqRAIVYITSVRVIRtKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDkLQEGAIV 1000
Cdd:PRK07135 897 NTEY-----RLAIEVKNVKRLR-KANKEYKKVILSDDSVEITIFVNDNDYLLFET-LKKGDIY 952
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
3-1001 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 661.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLtaSIFSEEeeKSYPLVL 82
Cdd:PRK05898 2 FINLNTHSHYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGL--EIEYQS--TNATLVL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 83 LAENEIGYQNLLKISSSIMTKSKEGIPKkwlahYAKGLIAISpgKDGEIEqllledkesqaeevaraYQNMfgNFYMSLQ 162
Cdd:PRK05898 78 YAKNYNGYLNLIKISSFIMTNKEFEIQD-----YLDDLFIVC--KKGTFV-----------------FKSP--NFYQTHN 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 163 HHAIQdelllqeklpafmnrvnipVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLkSSDEMEALFS 242
Cdd:PRK05898 132 QNAPN-------------------AIAFNSVFYANKNDKIVFNAMLAIKNDLKIDELKNCQDFDNNHFL-NDNEAQSLFS 191
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 243 HVeeAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETNDMYLRRVCEEGLQKRY----GTPKEVHINRLNHELNVISSMG 318
Cdd:PRK05898 192 PI--QLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEILKQLCISGLNKRLnandGQVKKIYVKRLKYELDIINEKQ 269
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 319 FSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDEMIR 398
Cdd:PRK05898 270 FDDYFLIVYDFINFAKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMPDIDTDIMDERRDEVVE 349
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 399 YVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIqgnLLHERVFE 478
Cdd:PRK05898 350 YLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDKICKNIKPDYEEDLDLAIKKNTILKEMY---VLHKELFD 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 479 IAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIVQKTG 558
Cdd:PRK05898 427 LAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIQLGINDRPLSQYSMEYLERFGLIKMDLLGLKNLTIIDNVLKLIKENQN 506
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 559 KEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEY 638
Cdd:PRK05898 507 KKIDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALFRPGPQQNIKTFVERRFKREEFSY 586
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 639 LHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLI 718
Cdd:PRK05898 587 WNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFRRAISKKDEKILIQLKKDFIEGALKNNYKQPLVNQIFEYI 666
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 719 VRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEG- 797
Cdd:PRK05898 667 FSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLSHTSASKDKLLSYLNEAKEFNISIKKPDINYSSNSFVLDTq 746
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 798 -NAIRYSLLSIRNIGMATVTALLEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEY 876
Cdd:PRK05898 747 kQIIRFGFNTIKGFGDELLKKIKSALQNKTFSDFISYIDALKKNNVSLSNIEILINVGTFDSFKLSRLFLLNNLPEIFEK 826
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 877 ANLARDLGDAVPKSkYVQGEELSFIEQLNK-EKEVLGFYLSSYPTAQYVKLA--KEL--EIPSLAQaMRHKKKVQRAIVY 951
Cdd:PRK05898 827 TSLNGHFFELNLVG-LEYAKDMSVKERFLKkEIQYLGIDLNSLNYANYKNEIdyNELkyTIKDIKE-IELKNTNYETNIF 904
|
970 980 990 1000 1010
....*....|....*....|....*....|....*....|....*....|.
gi 446596399 952 ITSVRVIRTKKLQKMAFITFCDQ-NDEMEAVLFPETYIHFSDKLQEGAIVL 1001
Cdd:PRK05898 905 AQVYEIKQSKTKNGNLSFYLETLiNNKKKTITIFQHSKYLIDEIDIGGIYV 955
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
1-724 |
0e+00 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 642.95 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIG-----LTASIFSEEEE 75
Cdd:PRK09532 1 MSFVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGnemyvINGDIEKQKRR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 76 KSYPLVLLAENEIGYQNLLKISSSIMTKSKEG--------IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVA 147
Cdd:PRK09532 81 RKYHQVVLAKNTQGYKNLVKLTTISHLQGVQGkgifarpcINKELLEQYHEGLIVTSACLGGEIPQAILSGRPDAARKVA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 148 RAYQNMFGN-FYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKT 226
Cdd:PRK09532 161 KWYKKLFGDdFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLRYSG 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 227 DQYyLKSSDEMEALF-SH-----VEEAIYNTVEIAERcrVEiPFHV---NQLPKFPVPSNETNDMYLRRVCEEGLQKRYG 297
Cdd:PRK09532 241 TEY-LKSAEEMRLLFrDHlpddvIAEAIANTLEVADK--IE-PYNIlgePRIPNYPVPSGHTPDTYVEEVAWQGLLERLN 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 298 TPK-----EVHINRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFER 372
Cdd:PRK09532 317 CKSrsevePVYKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIPVGPGRGSAAGSLVAYCLKITNIDPVHHGLLFER 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 373 FLNPERVTLPDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLI------P 446
Cdd:PRK09532 397 FLNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIpvsrgkP 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 447 SKLGITLKDAYEESQsLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADA 526
Cdd:PRK09532 477 TKLKVMISDETPEPE-FKEKYDNDPRVRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNNDGAVITQYFMED 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 527 LEELGLLKMDFLGLRNLTLLENIIKFIVQKTGKEIDIRNLPLQD-------------------EKTFQLLGRGDTTGVFQ 587
Cdd:PRK09532 556 LESLGLLKMDFLGLRNLTTIQKTADLIKENRGVEIDLDQLPLDErkalkilakgeakklpkdvQKTHKLLERGDLEGIFQ 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 588 LESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQ--IPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIAS 665
Cdd:PRK09532 636 LESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAglIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQEQIMKMAQ 715
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|....*....
gi 446596399 666 KLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIVRFANY 724
Cdd:PRK09532 716 DLAGYSLGEADLLRRAMGKKKISEMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
3-921 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 572.96 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEKSYPLVL 82
Cdd:PRK05672 5 YAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGPDPDPGGPHLLV 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 83 LAENEIGYQNLlkisSSIMTKSKEGIPK-------KWLAHYAKGLIAISPG-KDGEIEQLLLEDKESQAEEVARAYQNMF 154
Cdd:PRK05672 85 LARDREGYGRL----SRLITRARLRAGKgeyrldlDDLAEPAGGHWAILTGcRKGFVILALPYGGDAAALAALAALLDAF 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 155 G--NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLK 232
Cdd:PRK05672 161 FadRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLR 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 233 SSDEMEALFSHVEEAIYNTVEIAERCRveipFHVN----QLPKFPVPSNETNDMYLRRVCEEGLQKRYGTPKEVHI-NRL 307
Cdd:PRK05672 241 SGAEMARLFPDYPEALAETVELAERCA----FDLDllayEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKArAQI 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 308 NHELNVISSMGFSDYFLIVWDFMKYAHENHILTgPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDID 387
Cdd:PRK05672 317 EHELALIAELGYEGYFLTVHDIVRFARSQGILC-QGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVD 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 388 FPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREfi 467
Cdd:PRK05672 396 FEHDRREEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDP-- 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 468 qGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQ----EGHNdvyVTQYPADALEELGLLKMDFLGLRNL 543
Cdd:PRK05672 474 -ESPIPRRVVELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVEnaamEGRS---VIQWDKDDCAAVGLVKVDVLALGML 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 544 TLLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPME-- 621
Cdd:PRK05672 550 SALHRAFDLIAEHRGRRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQgg 629
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 622 QIPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAV-SKKNRDILDQERKHFVQG 700
Cdd:PRK05672 630 MVHPYLRRRNGQEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMaAWRRKGRLERLRERLYDG 709
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 701 CLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSA-IG--NEDKIVQyirETKRK 777
Cdd:PRK05672 710 MLARGYTGEFADRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQpMGfySPQQLVQ---DARRH 786
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 778 GFHVLPPSLQRSGYNFQIE-----GNAIRYSLLSIRNIGMATVTALLEEREKKMFEDLFEFCLRMPskfVTERNLEAFVW 852
Cdd:PRK05672 787 GVEVLPVDVNASGWDATLEplpdgGPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAG---LDRRQLEALAD 863
|
890 900 910 920 930 940 950
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 853 SGCFDDFGVSRTN-LWKSlkGALEYANLARdLGDAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTA 921
Cdd:PRK05672 864 AGALRSLGGDRRQaLWAA--GAAATERLDL-LPGAPASEAAPALPGMSEGELVAADYWTTGLSLDSHPLA 930
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
283-539 |
5.48e-137 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 414.21 E-value: 5.48e-137
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 283 YLRRVCEEGLQKRYGTPK-EVHINRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDI 361
Cdd:pfam07733 2 YLRKLVEEGLKERYGEGLpEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITEV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 362 DPIEYDLLFERFLNPERVTLPDIDIDFPDIRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIF 441
Cdd:pfam07733 82 DPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDRL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 442 SKLIPSKLGItLKDAYEESQSLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQE-GHNDVYVT 520
Cdd:pfam07733 162 AKLIPFELGI-LEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKaDDDDRPVT 240
|
250
....*....|....*....
gi 446596399 521 QYPADALEELGLLKMDFLG 539
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
3-270 |
2.46e-105 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, the PolIIIA PHP exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such an activity has not been found. It has been shown that the PHP of PolIIIA has a trinuclear metal complex and is capable of proofreading activity. Bacterial genome replication and DNA repair mechanisms is related to the GC content of its genomes. There is a correlation between GC content variations and the dimeric combinations of PolIIIA subunits. Eubacteria can be grouped into different GC variable groups: the full-spectrum or dnaE1 group, the high-GC or dnaE2-dnaE1 group, and the low GC or polC-dnaE3 group.
Pssm-ID: 213997 [Multi-domain] Cd Length: 283 Bit Score: 331.71 E-value: 2.46e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTA-----SIF----SEE 73
Cdd:cd12113 2 FVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVyvapgSRFdkkdKKG 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 74 EEKSYPLVLLAENEIGYQNLLKISSsimTKSKEG------IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVA 147
Cdd:cd12113 82 DKRYYHLVLLAKNEEGYRNLMKLVS---LAYLEGfyykprIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAA 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 148 RAYQNMFG--NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLK 225
Cdd:cd12113 159 LEYRDIFGkdNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFD 238
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 446596399 226 TDQYYLKSSDEMEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLP 270
Cdd:cd12113 239 TDEFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
2-272 |
3.58e-89 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that are responsible for the replication of the DNA duplex. PolIIIA core enzyme catalyzes the reaction for polymerizing both DNA strands. dnaE1 is the longest compared to dnaE2 and dnaE3. A unique motif was also identified in dnaE1 and dnaE3 genes.
Pssm-ID: 213988 [Multi-domain] Cd Length: 277 Bit Score: 287.84 E-value: 3.58e-89
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 2 KFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASI-FSEEEEKSYPL 80
Cdd:cd07433 1 SFVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVaNPDDADEPFRL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 81 VLLAENEIGYQNLLKISS-SIMTKSKEGIP---KKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGN 156
Cdd:cd07433 81 TLLAQNEQGYKNLTELISrAYLEGQRNGGPhikLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQFLKKIFPD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 157 -FYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSD 235
Cdd:cd07433 161 rFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRYSPQQYFKSAE 240
|
250 260 270
....*....|....*....|....*....|....*..
gi 446596399 236 EMEALFSHVEEAIYNTVEIAERCRVEIPFHVNQLPKF 272
Cdd:cd07433 241 EMAELFADLPEAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
542-705 |
2.85e-80 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 259.39 E-value: 2.85e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 542 NLTLLENIIKFIVQKTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPME 621
Cdd:pfam17657 1 TLTIIRDALDLIKENRGIGIDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGPMQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 622 --QIPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQ 699
Cdd:pfam17657 81 ggNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGKKKPEEMEKLREKFIE 160
|
....*.
gi 446596399 700 GCLQNG 705
Cdd:pfam17657 161 GAKENG 166
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
726-1026 |
7.97e-62 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 218.01 E-value: 7.97e-62
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 726 FNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAIRYSLL 805
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTANSGNQDKVQKYRENCQKMGIEVEPPDINRSGKDFTPVGEKILFGLS 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 806 SIRNIGMATVTALLEEREK-KMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFD-----------------DFGVSRT--- 864
Cdd:PRK07373 118 AVRNLGEGAIESILKAREEgGEFKSLADFCDRVDLRVVNRRALETLIYCGAFDkiepnrqqlindlelviDWAQKRAkek 197
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 865 -----NLWKSLKGALEYANLARDLGDAVPKSKYVqgEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAM 939
Cdd:PRK07373 198 asgqgNLFDLLGGNTSNSSAANNAFEQAPSAPPV--ADFSLQEKLKLEKELLGFYVSEHPLKSIRRPARLLSPINLSELE 275
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 940 RHK-KKVQRAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVN 1018
Cdd:PRK07373 276 EQKeKTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRDDQVQLIVE 355
|
....*...
gi 446596399 1019 GLYPLEEM 1026
Cdd:PRK07373 356 DAEPIEEV 363
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
4-262 |
7.98e-55 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such activity has not been found. It has been shown that the PHP domain of PolIIIA has a trinuclear metal complex and is capable of proofreading activity.
Pssm-ID: 213986 [Multi-domain] Cd Length: 179 Bit Score: 188.57 E-value: 7.98e-55
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 4 VHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIfsEEEEKSYPLVLL 83
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTV--EGDGEPYPLLLL 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 84 AENEIGYQNLLKISSSIMTKSKEG----IPKKWLAHYAKGLIAISPGkdGEIEQLLledkesqaeevarayqnmfgnfym 159
Cdd:cd07431 79 AKNNEGYQNLLRLSTAAMLGEEKDgvpyLDLEELAEAASGLLVVLLG--PLLLLLA------------------------ 132
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 160 slqhhaiqdelllqeklpafmNRVNIPVVATNDVRYINQSDALVHECLLSvesgtkmtdpdrprlktdqyylkssdemea 239
Cdd:cd07431 133 ---------------------AEQGLPLVATNDVHYLNPEDAFAADVLTA------------------------------ 161
|
250 260
....*....|....*....|...
gi 446596399 240 lfshvEEAIYNTVEIAERCRVEI 262
Cdd:cd07431 162 -----FLAVANTVRIAKECAVEL 179
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
5-164 |
4.31e-45 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 160.40 E-value: 4.31e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 5 HLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEEK-------S 77
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVYVAPGSREEtekllakY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 78 YPLVLLAENEIGYQNLLKISSSIMTK-SKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLE-DKESQAEEVARAYQNMFG 155
Cdd:pfam02811 81 FDLVLLAVHEVGYKNLIKLSSRAYLEgFKPRIDKELLEEYFEGLIALSGCVLGHLDLILLApGDYEEAEELAEEYLEIFG 160
|
170
....*....|.
gi 446596399 156 --NFYMSLQHH 164
Cdd:pfam02811 161 edGFYLEINTH 171
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
3-259 |
2.36e-36 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; PolIIIA DnaE2 plays a role in SOS mutagenesis/translesion synthesis and has dominant effects in determining GC variability in the bacterial genome. PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that are responsible for the replication of the DNA duplex. PolIIIA core enzyme catalyzes the reaction for polymerizing both DNA strands. PolC PHP is located in a different location compared to dnaE1, 2, and 3. dnaE1 is the longest compared to dnaE2 and dnaE3. A unique motif was also identified in dnaE1 and dnaE3 genes. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. PHP domains found in DnaEs of thermophilic origin exhibit 3'-5' exonuclease activity.
Pssm-ID: 213989 [Multi-domain] Cd Length: 260 Bit Score: 138.36 E-value: 2.36e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGltaSIFSEEEEksYPLVL 82
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVG---SELVLADG--TRLVL 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 83 LAENEIGYQNLlkisSSIMTKSKEGIPK-----KW--LAHYAKGLIAISPGKDgeiEQLLLEDKESQAEEVARAYQnmfG 155
Cdd:cd07434 76 LARDRAGYGRL----CRLITLGRRRAEKgeyrlTLadLLAHAEGLLLILLPPD---RLPAAAALLAQLRWLARAFP---G 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 156 NFYMSLQHHAIQDELLLQEKLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSD 235
Cdd:cd07434 146 RLWLALELHLGGDDARRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPA 225
|
250 260
....*....|....*....|....
gi 446596399 236 EMEALFSHVEEAIYNTVEIAERCR 259
Cdd:cd07434 226 ELARLFLYPPEALAETLEIAARCT 249
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
4-258 |
3.64e-28 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at PolC gene; DNA polymerase III alphas (PolIIIAs) that contain a PHP domain have been classified into four basic groups based on phylogenetic and domain structural analyses: polC, dnaE1, dnaE2, and dnaE3. The PolC group is distinct from the other three and is clustered together. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that are responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. PolC PHP is located in different location compare to dnaE1, 2, and 3. The PHP domain has four conserved sequence motifs and and contains an invariant histidine that is involved in metal ion coordination.The PHP domain of PolC is structurally homologous to other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel. PHP domains found in dnaEs of thermophilic origin exhibit 3'-5' exonuclease activity. In contrast, PolC PHP lacks detectable nuclease activity.
Pssm-ID: 213990 [Multi-domain] Cd Length: 268 Bit Score: 114.88 E-value: 3.64e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 4 VHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGvIP-FYKACKKHGIHPIIGLTASIFSeeeekSYPLVL 82
Cdd:cd07435 2 VELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQA-FPeAYEAAKKNGIKVIYGVEAYLVD-----PYHITI 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 83 LAENEIGYQNLLKISSSIMTK---SKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDK-ESQAEEVARAYQnmfgnfY 158
Cdd:cd07435 76 LVKNQTGLKNLYKLVSLSHTKyfyRVPRIPKSELEKYREGLLIGSACENGELFEAALNKKsDEELEEIASFYD------Y 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 159 MSLQ-----HHAIQDELLLQEKLPAFMNR--------VNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLk 225
Cdd:cd07435 150 IEIQpldnyQFLIEKGLIKSEEELKEINKriiklgkkLNKPVVATGDVHYLDPEDKIYREILLAGQGGGDGRADEQPDL- 228
|
250 260 270
....*....|....*....|....*....|....*....
gi 446596399 226 tdqyYLKSSDEMEALFSHVEEA------IYNTVEIAERC 258
Cdd:cd07435 229 ----YFRTTDEMLDEFSYLGEEkayevvVTNTNKIADMI 263
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
76-830 |
5.52e-27 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 119.56 E-value: 5.52e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 76 KSYPLVLLAENEIGYQNLLKISSSIMTKSKEG---IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQn 152
Cdd:PRK00448 609 RPKHATILVKNQVGLKNLFKLVSLSNTKYFYRvprIPRSLLDKYREGLLIGSACEEGEVFDAVLQKGDEELEEIAKFYD- 687
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 153 mF------GNFYMSLQHHAIQDELLLQE---KLPAFMNRVNIPVVATNDVRYINQSDALVHECLLSVESGtkmTDPDRpR 223
Cdd:PRK00448 688 -YieiqppANYQHLIERELVKDEEELKEiikNLIELGKKLNKPVVATGDVHYLDPEDKIYRKILVASQGG---GNPLN-R 762
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 224 LKTDQYYLKSSDEMEALFSHVEE------AIYNTVEIAERC-RVE-IPfhvNQL--PKFPVPSNETNDMYLRRVceeglQ 293
Cdd:PRK00448 763 HPLPELHFRTTDEMLDEFAFLGEelakeiVVENTNKIADLIeEIEpIK---DKLytPKIEGAEEEIRELTYKKA-----H 834
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 294 KRYGTP-KEVHINRLNHELNVISSMGFSDYFLIVWDFMKYAHENHILTGPgRGSAAGSLVSYVLEITDIDPIE------- 365
Cdd:PRK00448 835 EIYGEPlPEIVEKRIEKELNSIIGNGFAVIYLISQKLVKKSLEDGYLVGS-RGSVGSSFVATMIGITEVNPLPphyvcpn 913
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 366 ---------------YDLL-------------------FERFLNPERVTLPDIDIDFPDIRRDEMIRYVKDKYGQLRVAQ 411
Cdd:PRK00448 914 ckysefftdgsvgsgFDLPdkdcpkcgtklkkdghdipFETFLGFKGDKVPDIDLNFSGEYQPVAHNYTKVLFGEDHVFR 993
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 412 IVTFGTLAAKAAIrdiarvmGlpprdidiFSKlipsklgitlkdAYEESQSlrefiqgnlLHERVFEI---AKRVEGLPR 488
Cdd:PRK00448 994 AGTIGTVAEKTAY-------G--------YVK------------KYEEDTG---------KFYRNAEIdrlAQGCTGVKR 1037
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 489 HTSIHAAGVImsqepltgsvaIQEGHNDVY-VT--QYPADALEEL-------------GLLKMDFLGLRNLTllenIIKF 552
Cdd:PRK00448 1038 TTGQHPGGII-----------VVPKYMDIYdFTpiQYPADDVNSEwktthfdfhsihdNLLKLDILGHDDPT----MIRM 1102
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 553 IVQKTGkeIDIRNLPLQDEKTFQL------LGR-----GDTTGVFQLESSGMRNVlRGL----KPNEFEDIVAVNSLyrp 617
Cdd:PRK00448 1103 LQDLTG--IDPKTIPMDDPKVMKLfssteaLGVtpeqiGCETGTLGIPEFGTKFV-RQMleetKPKTFAELVQISGL--- 1176
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 618 gpmeqiptfiesKHG------------KRKIEylhpDLKpilertyGVIVYQEQIM------QIASKLAgFSLGEadllr 679
Cdd:PRK00448 1177 ------------SHGtdvwlgnaqeliKEGIA----TLS-------DVIGCRDDIMvylihkGLEPKLA-FKIME----- 1227
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 680 rAVsKKNRDILDQE----RKHFVqgclQNGYDEtSAEKIydlivrfaNYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTA 755
Cdd:PRK00448 1228 -SV-RKGKGLTEEEeelmKENNV----PDWYIE-SCKKI--------KYMFPKAHAAAYVLMAWRIAYFKVHYPLAYYAA 1292
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 756 LLS---------SAIGNEDKIVQYIRETKRK------------------------GFHVLPPSLQRS-GYNFQIEGNAIR 801
Cdd:PRK00448 1293 YFSvraddfdleTMSKGKEAIKAKMKEIKSKgndasnkekdlltvleialemlerGFKFQKVDLYKSdATEFIIEGDSLI 1372
|
890 900 910
....*....|....*....|....*....|..
gi 446596399 802 YSLLSIRNIGMATVTALLEEREKKMF---EDL 830
Cdd:PRK00448 1373 PPFNALPGLGENVAKSIVEAREEGEFlskEDL 1404
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
778-866 |
4.68e-25 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 99.85 E-value: 4.68e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 446596399 778 GFHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALLEEREKKMFEDLFEFCLRMPSKfVTERNLEAFVWSGCFD 857
Cdd:pfam14579 1 GIEVLPPDINRSDWDFTVEGGGIRLGLGAIKGLGEAAAERIVEERENGPFKSLEDFARRVDLK-LNKRVLEALIKAGAFD 79
|
....*....
gi 446596399 858 DFGVSRTNL 866
Cdd:pfam14579 80 SLGGNRRQL 88
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
947-1025 |
3.30e-22 |
|
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Pssm-ID: 239931 [Multi-domain] Cd Length: 84 Bit Score: 91.80 E-value: 3.30e-22
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 446596399 947 RAIVYITSVRVIRTKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEE 1025
Cdd:cd04485 1 TVAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAERIEDLED 79
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
5-69 |
1.40e-19 |
|
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Pssm-ID: 197753 [Multi-domain] Cd Length: 67 Bit Score: 83.47 E-value: 1.40e-19
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446596399 5 HLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASI 69
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANI 65
|
|
| tRNA_anti-codon |
pfam01336 |
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ... |
959-1023 |
5.36e-09 |
|
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic acids. The family includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl -tRNA synthetases (See pfam00152). Aminoacyl-tRNA synthetases catalyze the addition of an amino acid to the appropriate tRNA molecule EC:6.1.1.-. This family also includes part of RecG helicase involved in DNA repair. Replication factor A is a hetero-trimeric complex, that contains a subunit in this family. This domain is also found at the C-terminus of bacterial DNA polymerase III alpha chain.
Pssm-ID: 460164 [Multi-domain] Cd Length: 75 Bit Score: 53.78 E-value: 5.36e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446596399 959 RTKKLQKMAFITFCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNH-KLQWIVNGLYPL 1023
Cdd:pfam01336 10 IRRSGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKGgELELVVEEIELL 75
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
4-69 |
1.06e-04 |
|
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. PHP in polymerases has trinuclear zinc/magnesium dependent proofreading activity. It has also been shown that the PHP domain functions in DNA repair. The PHP structures have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213985 [Multi-domain] Cd Length: 88 Bit Score: 42.03 E-value: 1.06e-04
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 446596399 4 VHLQCQTVFSLLKSAcKIDELVVRAKELGYSSLAITDENVMYGVIPF--------YKACKKHGIHPIIGLTASI 69
Cdd:cd07309 1 VDLHTHTVFSDGDHA-KLTELVDKAKELGPDALAITDHGNLRGLAEFntagk*nhIKAAEAAGIKIIIGSEVNL 73
|
|
| YciV |
COG0613 |
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and ... |
6-64 |
1.88e-04 |
|
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and metabolism];
Pssm-ID: 440378 [Multi-domain] Cd Length: 188 Bit Score: 43.74 E-value: 1.88e-04
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*....
gi 446596399 6 LQCQTVFSllKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIG 64
Cdd:COG0613 6 LHVHTTAS--DGSLSPEELVARAKAAGLDVLAITDHDTVAGYEEAAEAAKELGLLVIPG 62
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
4-65 |
2.23e-04 |
|
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase catalyzes the eighth step of histidine biosynthesis, in which L-histidinol phosphate undergoes dephosphorylation to produce histidinol. HisPPase can be classified into two types: the bifunctional HisPPase found in proteobacteria that belongs to the DDDD superfamily and the monofunctional Bacillus subtilis type that is a member of the PHP family. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. The PHP domain of HisPPase is structurally homologous to other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213987 [Multi-domain] Cd Length: 129 Bit Score: 42.23 E-value: 2.23e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 446596399 4 VHlqcqTVFSllksAC---KIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGL 65
Cdd:cd07432 5 IH----SVFS----PDsdmTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGV 61
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
23-60 |
4.23e-04 |
|
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; The PHP domain of this HisPPase family has an unknown function. It has a second domain inserted in the middle that binds adenosine 5-monophosphate (AMP). The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. HisPPase catalyzes the eighth step of histidine biosynthesis, in which L-histidinol phosphate undergoes dephosphorylation to give histidinol. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. The PHP domain of HisPPase is structurally homologous to the other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213993 [Multi-domain] Cd Length: 155 Bit Score: 41.99 E-value: 4.23e-04
10 20 30
....*....|....*....|....*....|....*...
gi 446596399 23 ELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIH 60
Cdd:cd07438 18 ELVELAKEAGLKVLAITDHDTVAGLEEALAAAKELGIE 55
|
|
| RPA2_OBF_family |
cd03524 |
RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold ... |
947-1022 |
1.44e-03 |
|
RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyrococcus abyssi DNA polymerase II (Pol II) small subunit, Sulfolobus solfataricus SSB, and Bacillus subtilis YhaM (a 3'-to-5'exoribonuclease). It also includes the OB folds of breast cancer susceptibility gene 2 protein (BRCA2), Oxytricha nova telomere end binding protein (TEBP), Saccharomyces cerevisiae telomere-binding protein (Cdc13), and human protection of telomeres 1 protein (POT1).
Pssm-ID: 239601 [Multi-domain] Cd Length: 75 Bit Score: 38.50 E-value: 1.44e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 446596399 947 RAIVYITSVRVIRTKKLQKMAFITfCDQNDEMEAVLFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYP 1022
Cdd:cd03524 1 TIVGIVVAVEEIRTEGKVLIFTLT-DGTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVKKFRGRLQLIVESIEL 75
|
|
| YhaM_OBF_like |
cd04492 |
YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and ... |
969-1030 |
6.77e-03 |
|
YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Pssm-ID: 239938 [Multi-domain] Cd Length: 83 Bit Score: 36.80 E-value: 6.77e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 446596399 969 ITFCDQNDEMEAVLFpETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAYE 1030
Cdd:cd04492 23 LTLQDKTGEIEAKLW-DASEEDEEKFKPGDIVHVKGRVEEYRGRLQLKIQRIRLVTEEDGVD 83
|
|
| |
