|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
8-1031 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 1770.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 8 MSAYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL-----EQGPK 82
Cdd:PRK05672 2 LPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLgpdpdPGGPH 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 LVLLAEDLEGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGL---------------LAIWLPNDHGDEQAAWLRERF 147
Cdd:PRK05672 82 LLVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHwailtgcrkgfvilaLPYGGDAAALAALAALLDAFF 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 148 PQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRT 227
Cdd:PRK05672 162 ADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRS 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 228 LEALQGIYP--QALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNGASAKVRKQIERELE 305
Cdd:PRK05672 242 GAEMARLFPdyPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 306 LIAELGYESYFLTVQDIVAFARGRKILCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERR 385
Cdd:PRK05672 322 LIAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRR 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 386 EEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGRWSDQAPSAERLEEAGFDPQSPILRRV 465
Cdd:PRK05672 402 EEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRV 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 466 LALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHA 545
Cdd:PRK05672 482 VELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAE 561
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 546 LRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNG 625
Cdd:PRK05672 562 HRG-RRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNG 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 626 EEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAWKRHGGLEHHRERLTRGMLAKGYEADFA 705
Cdd:PRK05672 641 QEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFA 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 706 ARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRPVDVRHSGW 785
Cdd:PRK05672 721 DRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGW 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 786 DCSLESFGQAQPAIRLGLRMIRGFREEDARRIEQVREAEPFLDVHDLGRRARLDARALELLADAGALRGLAGHRHKARWA 865
Cdd:PRK05672 801 DATLEPLPDGGPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALRSLGGDRRQALWA 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 866 VASVE-PQLPLFAEGTAIEEsTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVA 944
Cdd:PRK05672 881 AGAAAtERLDLLPGAPASEA-APALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVEDGRRVRVA 959
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 945 GLVVGRQRPQTASGITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVRHVIAGRLHDLTPLLTGLD 1024
Cdd:PRK05672 960 GVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDLSPLLGGLR 1039
|
....*..
gi 308154503 1025 VRSRDFH 1031
Cdd:PRK05672 1040 TRSRDFH 1046
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
8-1013 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1394.41 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 8 MS-AYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL------EQG 80
Cdd:COG0587 1 MSpSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVapgsrdDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 81 PKLVLLAEDLEGYQNLCRLITRGRRQAD-KGHYRLLREDLQQPLAGLLAIWLP-------------NDHGDEQAAWLRER 146
Cdd:COG0587 81 YHLVLLAKNREGYRNLCRLLSRAYLEGFyKGKPRIDLEDLAEHSEGLIALSGClagevgqallagqYDEAEAALARLKDI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 147 FPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLR 226
Cdd:COG0587 161 FGDRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 227 TLEALQGI---YPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNGASAKVRKQIERE 303
Cdd:COG0587 241 SPEEMAELfadLPEAL-ANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEEYRERLEYE 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 304 LELIAELGYESYFLTVQDIVAFARGRKI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEH 382
Cdd:COG0587 320 LDVIEKMGFPGYFLIVWDFIRWARSNGIpVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCH 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 383 ERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANccGRWSDQAPSAER-LEEAG----FDP 457
Cdd:COG0587 400 ERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAK--LIPNDPGITLEKaLEEEPelreLYD 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 458 QSPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALR 537
Cdd:COG0587 478 SDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIR 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 538 RSFDLIHALRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVH 617
Cdd:COG0587 558 DALDLIKENRG-IDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGGMVP 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 618 PYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLA 697
Cdd:COG0587 637 PYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGK-KKKEEMAKQREKFVEGAVA 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 698 KGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRP 777
Cdd:COG0587 716 NGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLP 795
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 778 VDVRHSGWDCSLEsfgqAQPAIRLGLRMIRGFREEDARRIEQVREAE-PFLDVHDLGRRA---RLDARALELLADAGALR 853
Cdd:COG0587 796 PDVNESDWDFTVE----PGGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVdlrKLNKRVLEALIKAGAFD 871
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 854 GLAGHRHKARWAVASV------------EPQLPLFA---EGTAIEESTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLR 918
Cdd:COG0587 872 SLGPNRRQLLWALEAAldaaqqaqkdkaSGQLSLFGgagDEEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYR 951
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 919 GQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVE 996
Cdd:COG0587 952 EELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGkrMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVR 1031
|
1050
....*....|....*..
gi 308154503 997 GILESSGEVRHVIAGRL 1013
Cdd:COG0587 1032 GKVQRRDGVVHLIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
14-975 |
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: 610.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 14 LHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPK----------- 82
Cdd:TIGR00594 4 LHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRfdkkriskgke 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 ---LVLLAEDLEGYQNLCRLITRGRRqadKGHY---RLLREDLQQPLAGLLAI-----------WLPN--DHGDEQAAWL 143
Cdd:TIGR00594 84 ayhLILLAKNNTGYRNLMKLSSLAYL---EGFYykpRIDKELLEEHSEGLIALsaclsgevpylLLLGeeRLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 144 RERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGER 223
Cdd:TIGR00594 161 QEIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 224 HLRTLEALQGIY---PQALLAeTLKIAERCR-FDLEQLKYQYPR-ELVPAGHDPASWLRHLTEQGIARRWPNGAS-AKVR 297
Cdd:TIGR00594 241 YLKSPEEMAELFadiPEALAN-TVEIAERCNlVDVKLGPPRLPSyQIPPDFTSQEDYLRHLADEGLRERLAAGPPgYKRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 298 KQ----IERELELIAELGYESYFLTVQDIVAFARGRKI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNE 372
Cdd:TIGR00594 320 AQykerLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIpVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 373 PPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGrwSDQAPSAERLEE 452
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIP--PRPGKTLKEALE 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 453 AgfDPQ-------SPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKV 525
Cdd:TIGR00594 478 A--SPQlrqlyeeDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLKM 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 526 DVLALGMLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAI 605
Cdd:TIGR00594 556 DFLGLKTLTLIQDATELIRK-RRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNAL 634
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 606 VRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLE 685
Cdd:TIGR00594 635 YRPGPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGK-KKAEEMA 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 686 HHRERLTRGMLAKGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLL 765
Cdd:TIGR00594 714 KEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYI 793
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 766 QDARRHALQTRPVDVRHSGWDcslesFGQAQPAIRLGLRMIRGFREEDARRIEQVREAE-PFLDVHDLGRRA---RLDAR 841
Cdd:TIGR00594 794 AEAKKMGIEVLPPDINESGQD-----FAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINRVdfkKLNKK 868
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 842 ALELLADAGALRGLAGHR------------HKARWAVASVEPQLPLF---AEGTAIEESTVSLPLPSRGEELLS-DYALL 905
Cdd:TIGR00594 869 VLEALIKAGAFDSLGPNRktllaslddaldAVSRKKKAEALGQNSLFgalSEGTKPEYVFFPPDEEWPDKKLLAlEKETL 948
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 308154503 906 GTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQ-TASG--ITFITLEDEFGMVNVVV 975
Cdd:TIGR00594 949 GLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGLNSVKKKItTKNGkpMAFLQLEDETGSIEVVV 1021
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
11-262 |
4.04e-128 |
|
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: 389.12 E-value: 4.04e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 11 YAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPKLVLLAEDL 90
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTRLVLLARDR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 91 EGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGLLAIWLPNDHG------DEQAAWLRERFPQRLWLGVELHRGADDD 164
Cdd:cd07434 81 AGYGRLCRLITLGRRRAEKGEYRLTLADLLAHAEGLLLILLPPDRLpaaaalLAQLRWLARAFPGRLWLALELHLGGDDA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 165 ARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRTLEALQG--IYPQALLAE 242
Cdd:cd07434 161 RRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARlfLYPPEALAE 240
|
250 260
....*....|....*....|
gi 308154503 243 TLKIAERCRFDLEQLKYQYP 262
Cdd:cd07434 241 TLEIAARCTFSLDELRYEYP 260
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
274-529 |
6.39e-120 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 367.60 E-value: 6.39e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 274 SWLRHLTEQGIARRWPNGASAKVRKQIERELELIAELGYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITE 352
Cdd:pfam07733 1 EYLRKLVEEGLKERYGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVgPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 353 LDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDV 432
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 433 LANCCGRWSDQAPSA--ERLEEAGFDPQSPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVI 510
Cdd:pfam07733 161 LAKLIPFELGILEKAleEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKADDDDRPVT 240
|
250
....*....|....*....
gi 308154503 511 QWDKDDLDAVGLLKVDVLA 529
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
13-75 |
2.36e-11 |
|
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: 59.97 E-value: 2.36e-11
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 308154503 13 ELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI 75
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEA 63
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
8-1031 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 1770.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 8 MSAYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL-----EQGPK 82
Cdd:PRK05672 2 LPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLgpdpdPGGPH 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 LVLLAEDLEGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGL---------------LAIWLPNDHGDEQAAWLRERF 147
Cdd:PRK05672 82 LLVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHwailtgcrkgfvilaLPYGGDAAALAALAALLDAFF 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 148 PQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRT 227
Cdd:PRK05672 162 ADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRS 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 228 LEALQGIYP--QALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNGASAKVRKQIERELE 305
Cdd:PRK05672 242 GAEMARLFPdyPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 306 LIAELGYESYFLTVQDIVAFARGRKILCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERR 385
Cdd:PRK05672 322 LIAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRR 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 386 EEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGRWSDQAPSAERLEEAGFDPQSPILRRV 465
Cdd:PRK05672 402 EEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRV 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 466 LALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHA 545
Cdd:PRK05672 482 VELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAE 561
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 546 LRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNG 625
Cdd:PRK05672 562 HRG-RRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNG 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 626 EEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAWKRHGGLEHHRERLTRGMLAKGYEADFA 705
Cdd:PRK05672 641 QEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFA 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 706 ARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRPVDVRHSGW 785
Cdd:PRK05672 721 DRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGW 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 786 DCSLESFGQAQPAIRLGLRMIRGFREEDARRIEQVREAEPFLDVHDLGRRARLDARALELLADAGALRGLAGHRHKARWA 865
Cdd:PRK05672 801 DATLEPLPDGGPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALRSLGGDRRQALWA 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 866 VASVE-PQLPLFAEGTAIEEsTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVA 944
Cdd:PRK05672 881 AGAAAtERLDLLPGAPASEA-APALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVEDGRRVRVA 959
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 945 GLVVGRQRPQTASGITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVRHVIAGRLHDLTPLLTGLD 1024
Cdd:PRK05672 960 GVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDLSPLLGGLR 1039
|
....*..
gi 308154503 1025 VRSRDFH 1031
Cdd:PRK05672 1040 TRSRDFH 1046
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
8-1013 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1394.41 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 8 MS-AYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL------EQG 80
Cdd:COG0587 1 MSpSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVapgsrdDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 81 PKLVLLAEDLEGYQNLCRLITRGRRQAD-KGHYRLLREDLQQPLAGLLAIWLP-------------NDHGDEQAAWLRER 146
Cdd:COG0587 81 YHLVLLAKNREGYRNLCRLLSRAYLEGFyKGKPRIDLEDLAEHSEGLIALSGClagevgqallagqYDEAEAALARLKDI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 147 FPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLR 226
Cdd:COG0587 161 FGDRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 227 TLEALQGI---YPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNGASAKVRKQIERE 303
Cdd:COG0587 241 SPEEMAELfadLPEAL-ANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEEYRERLEYE 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 304 LELIAELGYESYFLTVQDIVAFARGRKI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEH 382
Cdd:COG0587 320 LDVIEKMGFPGYFLIVWDFIRWARSNGIpVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCH 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 383 ERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANccGRWSDQAPSAER-LEEAG----FDP 457
Cdd:COG0587 400 ERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAK--LIPNDPGITLEKaLEEEPelreLYD 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 458 QSPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALR 537
Cdd:COG0587 478 SDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIR 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 538 RSFDLIHALRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVH 617
Cdd:COG0587 558 DALDLIKENRG-IDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGGMVP 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 618 PYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLA 697
Cdd:COG0587 637 PYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGK-KKKEEMAKQREKFVEGAVA 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 698 KGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRP 777
Cdd:COG0587 716 NGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLP 795
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 778 VDVRHSGWDCSLEsfgqAQPAIRLGLRMIRGFREEDARRIEQVREAE-PFLDVHDLGRRA---RLDARALELLADAGALR 853
Cdd:COG0587 796 PDVNESDWDFTVE----PGGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVdlrKLNKRVLEALIKAGAFD 871
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 854 GLAGHRHKARWAVASV------------EPQLPLFA---EGTAIEESTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLR 918
Cdd:COG0587 872 SLGPNRRQLLWALEAAldaaqqaqkdkaSGQLSLFGgagDEEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYR 951
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 919 GQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVE 996
Cdd:COG0587 952 EELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGkrMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVR 1031
|
1050
....*....|....*..
gi 308154503 997 GILESSGEVRHVIAGRL 1013
Cdd:COG0587 1032 GKVQRRDGVVHLIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
14-975 |
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: 610.15 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 14 LHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPK----------- 82
Cdd:TIGR00594 4 LHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRfdkkriskgke 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 ---LVLLAEDLEGYQNLCRLITRGRRqadKGHY---RLLREDLQQPLAGLLAI-----------WLPN--DHGDEQAAWL 143
Cdd:TIGR00594 84 ayhLILLAKNNTGYRNLMKLSSLAYL---EGFYykpRIDKELLEEHSEGLIALsaclsgevpylLLLGeeRLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 144 RERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGER 223
Cdd:TIGR00594 161 QEIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 224 HLRTLEALQGIY---PQALLAeTLKIAERCR-FDLEQLKYQYPR-ELVPAGHDPASWLRHLTEQGIARRWPNGAS-AKVR 297
Cdd:TIGR00594 241 YLKSPEEMAELFadiPEALAN-TVEIAERCNlVDVKLGPPRLPSyQIPPDFTSQEDYLRHLADEGLRERLAAGPPgYKRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 298 KQ----IERELELIAELGYESYFLTVQDIVAFARGRKI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNE 372
Cdd:TIGR00594 320 AQykerLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIpVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 373 PPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGrwSDQAPSAERLEE 452
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIP--PRPGKTLKEALE 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 453 AgfDPQ-------SPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKV 525
Cdd:TIGR00594 478 A--SPQlrqlyeeDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLKM 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 526 DVLALGMLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAI 605
Cdd:TIGR00594 556 DFLGLKTLTLIQDATELIRK-RRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNAL 634
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 606 VRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLE 685
Cdd:TIGR00594 635 YRPGPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGK-KKAEEMA 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 686 HHRERLTRGMLAKGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLL 765
Cdd:TIGR00594 714 KEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYI 793
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 766 QDARRHALQTRPVDVRHSGWDcslesFGQAQPAIRLGLRMIRGFREEDARRIEQVREAE-PFLDVHDLGRRA---RLDAR 841
Cdd:TIGR00594 794 AEAKKMGIEVLPPDINESGQD-----FAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINRVdfkKLNKK 868
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 842 ALELLADAGALRGLAGHR------------HKARWAVASVEPQLPLF---AEGTAIEESTVSLPLPSRGEELLS-DYALL 905
Cdd:TIGR00594 869 VLEALIKAGAFDSLGPNRktllaslddaldAVSRKKKAEALGQNSLFgalSEGTKPEYVFFPPDEEWPDKKLLAlEKETL 948
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 308154503 906 GTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQ-TASG--ITFITLEDEFGMVNVVV 975
Cdd:TIGR00594 949 GLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGLNSVKKKItTKNGkpMAFLQLEDETGSIEVVV 1021
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
14-1004 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 579.37 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 14 LHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPK----------- 82
Cdd:PRK05673 5 LHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKddvsgggayth 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 LVLLAEDLEGYQNLCRLITRGRRQADKGHY-RLLREDLQQPLAGLLAI----------WLPNDHGDE---QAAWLRERFP 148
Cdd:PRK05673 85 LTLLAKNETGYRNLFKLSSRAYLEGQYGYKpRIDREWLAEHSEGLIALsgcpsgevgtALLAGQYDEaeeAAAEYQEIFG 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 149 QRLWLgvELHR-GADDDAR-LDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIrnhlpvsEAGAYLF-PNGERH- 224
Cdd:PRK05673 165 DRFYL--ELMRhGLPIERRvEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCI-------AEGKTLDdPDRFRFy 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 225 -----LRTLE---ALQGIYPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNGASAKV 296
Cdd:PRK05673 236 speqyLKSAEemrELFADLPEAL-DNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLFPDEE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 297 R----KQIERELELIAELGYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERN 371
Cdd:PRK05673 315 RpeyvERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVgPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERV 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 372 EPPDIDVDFEHERREEVIQYVFTRYGRQRaalTAVVSTYhGA----GAVRDVAKALGLPPEQVDVLAnccgrwsdQA--- 444
Cdd:PRK05673 395 SMPDFDIDFCQDRRDEVIRYVAEKYGRDA---VAQIITF-GTmkakAVIRDVGRVLGMPYGFVDRIT--------KLipp 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 445 ----PSAERLEEAG----FDPQSPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDD 516
Cdd:PRK05673 463 dpgiTLAKAYEEEPelreLYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPVTQFDMKD 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 517 LDAVGLLKVDVLALGMLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKF 596
Cdd:PRK05673 543 VEAAGLVKFDFLGLRTLTIIDDALKLIKK-RRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCF 621
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 597 YDLVIQVAIVRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMA 676
Cdd:PRK05673 622 EDIIALVALYRPGPMESGMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMG 701
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 677 AwKRHGGLEHHRERLTRGMLAKGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSwpm 756
Cdd:PRK05673 702 K-KKPEEMAKQREIFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTS--- 777
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 757 gfyspDQ--------LLQDARRHALQTRPVDVRHSGWDcslesFGQAQPAIRLGLRMIRGFREEDARRIEQVREAE-PFL 827
Cdd:PRK05673 778 -----DMdntdkvavYLDECRRMGIKVLPPDVNESLYD-----FTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGgPFK 847
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 828 DVHDLGRR---ARLDARALELLADAGALRGLAGHR------HKArwAVASVEP--------QLPLFAEGTAIEEStVSLP 890
Cdd:PRK05673 848 DLFDFCARvdlKKVNKRVLESLIKAGAFDSLGPNRaallasLED--AVDAADQhkkaeasgQFDLFGGLGEEPED-VEVS 924
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 891 LPSRGE----ELLS-DYALLGTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQTASG--ITFIT 963
Cdd:PRK05673 925 VPDVEEwdkkEKLAgERETLGLYLSGHPLDGYEDELRRLRDTRLADLEPTEGGSVVTVAGLVVSVRRRVTKRGnkMAIVT 1004
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|.
gi 308154503 964 LEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGE 1004
Cdd:PRK05673 1005 LEDLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDDG 1045
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
8-999 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 558.74 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 8 MSAYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI------RLEQGP 81
Cdd:PRK06826 2 KMSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVyvaprsRFDKEP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 82 K-------LVLLAEDLEGYQNLCRLITRGrrqADKGHY---RLLREDLQQPLAGLLAI----------WLPNDHGD---E 138
Cdd:PRK06826 82 DidnetyhLVLLAKNETGYKNLMKIVSKA---FTEGFYykpRVDHELLKEHSEGLIALsaclagevprYILKGNYEkakE 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 139 QAAWLRERF-PQRLWLGVELHrGADDDARLDK-LLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAY 216
Cdd:PRK06826 159 AALFYKDIFgKENFYLELQDH-GIPEQRKVNEeLIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENRM 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 217 LFPNGERHLRT---LEALQGIYPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNgAS 293
Cdd:PRK06826 238 RFPSDEFYLKSpeeMYELFSYVPEAL-ENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPN-PS 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 294 AKVRKQIERELELIAELGYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNE 372
Cdd:PRK06826 316 EELIERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVgPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 373 PPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLA----NCCGRWSDQApsae 448
Cdd:PRK06826 396 MPDIDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAkmipTELGITIDKA---- 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 449 rLEEagfdpqSPILR-------RVLALTD---ELIGFPRHLSQHPGGFVISEQPLDTLVPVenaSMAERTVI-QWDKDDL 517
Cdd:PRK06826 472 -LEL------NPELKeayendeRVRELIDtarALEGLPRHASTHAAGVVISSEPLVEYVPL---QKNDGSIVtQFTMTTL 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 518 DAVGLLKVDVLALGMLSALRRSFDLIHALRGGKrLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFY 597
Cdd:PRK06826 542 EELGLLKMDFLGLRTLTVIRDAVDLIKKNRGIE-IDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLE 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 598 DLVIQVAIVRPGPIqgDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAA 677
Cdd:PRK06826 621 DIIAGISLYRPGPM--DSIPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSK 698
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 678 wKRHGGLEHHR--------ERLTRGMLAKGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACA 749
Cdd:PRK06826 699 -KKHDVMEEERknfiygivDEGGPGCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAA 777
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 750 LINSWpMGfySPDQL---LQDARRHALQTRPVDVrhsgwDCSLESFGQAQPAIRLGLRMIRGFREEDARRIEQVREAE-P 825
Cdd:PRK06826 778 LLNSV-MG--NSDKVafyIEECRRLGIEVLPPDI-----NESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKgK 849
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 826 FLDVHDLGRRARLDA---RALELLADAGALRGLAGHRHKARWAVASV------------EPQLPLFAEGTAIEESTVSLP 890
Cdd:PRK06826 850 FKSLVDFCERVDTSQinkRAVESLIKAGAFDSLGVYRSQLLAVYEKIldsiskqrkkniEGQISLFDLIGEEEESSLEIK 929
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 891 LPSRGE----ELLS-DYALLGTTLGPHPLKLLRGQLKARRCRDSREL---------AKLGHGRPIRVAGLVVGRQRPQTA 956
Cdd:PRK06826 930 YPDIKEfdkkELLAmEKEMLGLYISGHPLEEYEETLKKQTSATISDIisdeeedgeSKLKDGDKVIIGGIITEVKRKTTR 1009
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*
gi 308154503 957 SG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGIL 999
Cdd:PRK06826 1010 NNemMAFLTLEDLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRV 1054
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
11-1016 |
1.20e-144 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 460.80 E-value: 1.20e-144
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 11 YAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL-----EQGPKLVL 85
Cdd:PRK06920 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIfseeeEKSYPLVL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 86 LAEDLEGYQNLCRLITRGRRQADKGhyrLLREDLQQPLAGLLAIwLPNDHG----------DEQAAWLRERFPQRLWLG- 154
Cdd:PRK06920 83 LAENEIGYQNLLKISSSIMTKSKEG---IPKKWLAHYAKGLIAI-SPGKDGeieqllledkESQAEEVARAYQNMFGNFy 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 155 --VELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRTLEALQ 232
Cdd:PRK06920 159 msLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDEME 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 233 GIYPQ--ALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGIARRWPNGASAKVRKqIERELELIAEL 310
Cdd:PRK06920 239 ALFSHvpEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINR-LNHELNVISRM 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 311 GYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVI 389
Cdd:PRK06920 318 GFSDYFLIVWDFMKYAHENHILTgPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDTRRDEMI 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 390 QYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCgrwsdqaPS--AERLEEA--------GFDPQS 459
Cdd:PRK06920 398 RYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLI-------PSklGITLKDAyeesqslrEFIQGN 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 460 PILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRS 539
Cdd:PRK06920 471 LLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGH-NDVYVTQYPADALEELGLLKMDFLGLRNLTLLENI 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 540 FDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGdmVHPY 619
Cdd:PRK06920 550 IKFIEQ-KTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQ--IPTF 626
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 620 LRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLAKG 699
Cdd:PRK06920 627 IESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSK-KNRDILDQERKHFVQGCLQNG 705
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 700 YEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRPVD 779
Cdd:PRK06920 706 YDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPS 785
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 780 VRHSGWDCSLESfgqaqPAIRLGLRMIRGFREEDARRIEQVREAEPFLDVHDLGRRA---RLDARALELLADAGALRGLA 856
Cdd:PRK06920 786 LQRSGYNFQIEG-----NAIRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMpskFVTERNLEAFVWSGCFDDFG 860
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 857 GHRHKarwAVASVEPQLPlFAEGTAIEESTVSLPLPSRGEEL-LSDY-----ALLGTTLGPHPLKLLRGQLKARRCRDSR 930
Cdd:PRK06920 861 VSRTN---LWKSLKGALE-YANLARDLGDAVPKSKYVQGEELsFIEQlnkekEVLGFYLSSYPTAQYVKLAKELEIPSLA 936
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 931 ELAKLGhGRPIRVAGLVVGRQ--RPQTASGITFITLEDEFGMVNVVVRHDlAERQRRPFL-ESRLLQVEGILESSGEVRH 1007
Cdd:PRK06920 937 QAMRHK-KKVQRAIVYITSVKviRTKKGQKMAFITFCDQNDEMEAVVFPE-TYIHFSDKLqEGAIVLVDGTIELRNHKLQ 1014
|
....*....
gi 308154503 1008 VIAGRLHDL 1016
Cdd:PRK06920 1015 WIVNGLYPL 1023
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
11-262 |
4.04e-128 |
|
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: 389.12 E-value: 4.04e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 11 YAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPKLVLLAEDL 90
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTRLVLLARDR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 91 EGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGLLAIWLPNDHG------DEQAAWLRERFPQRLWLGVELHRGADDD 164
Cdd:cd07434 81 AGYGRLCRLITLGRRRAEKGEYRLTLADLLAHAEGLLLILLPPDRLpaaaalLAQLRWLARAFPGRLWLALELHLGGDDA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 165 ARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRTLEALQG--IYPQALLAE 242
Cdd:cd07434 161 RRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARlfLYPPEALAE 240
|
250 260
....*....|....*....|
gi 308154503 243 TLKIAERCRFDLEQLKYQYP 262
Cdd:cd07434 241 TLEIAARCTFSLDELRYEYP 260
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
10-922 |
4.10e-121 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 399.10 E-value: 4.10e-121
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 10 AYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSE-------IRLEQGPK 82
Cdd:PRK07374 2 AFVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEmyvingsIDDPQPKK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 -----LVLLAEDLEGYQNLCRLIT----RGRRqaDKGHYR---LLREDLQQPLAGL------LAIWLP-------NDHGD 137
Cdd:PRK07374 82 ekryhLVVLAKNATGYKNLVKLTTishlNGMR--GRGIFSrpcIDKELLKQYSEGLivstacLGGEIPqailrgrPDVAR 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 138 EQAAWLRERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAgAYL 217
Cdd:PRK07374 160 DVAAWYKEVFGDDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDE-KRL 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 218 FPNGERHLRTLEALQGIYPQAL--------LAETLKIAERCR-FDLEQlKYQYPRELVPAGHDPASWLRHLTEQGIARRW 288
Cdd:PRK07374 239 RYTGTEYIKSEEEMLRLFRDHLdpeviqeaIANTVEVAEKVEeYDILG-TYRMPRFPIPEGHTAVSYLTEVTEQGLLKRL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 289 PNGASAKV----RKQIERELELIAELGYESYFLTVQDIVAFARGRKI-LCQGRGSAANSAVCFALGITELDPDRTNLLFE 363
Cdd:PRK07374 318 KLNSLDEIdenyKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIpVGPGRGSAAGSLVAYALGITNIDPVKNGLLFE 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 364 RFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCC----GR 439
Cdd:PRK07374 398 RFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIpvvrGK 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 440 -------WSDQAPSAERLEEAGFDPQspiLRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmaERTVI-Q 511
Cdd:PRK07374 478 paklkamIGKESPSPEFREKYEKDPR---VKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRNN--DGQVItQ 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 512 WDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHALRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRL 591
Cdd:PRK07374 553 YFMEDIESLGLLKMDFLGLKNLTMIEKTLELVEQSTG-ERIDPDNLPLDDEKTFELLARGDLEGIFQLESSGMRQVVRDL 631
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 592 RPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADEL 671
Cdd:PRK07374 632 KPSSLEDISSILALYRPGPLDAGLIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAGYSLGQADLL 711
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 672 RRSMAAwKRHGGLEHHRERLTRGMLAKGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALI 751
Cdd:PRK07374 712 RRAMGK-KKVSEMQKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLKAHYPVAYMAALL 790
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 752 ---------------NSWPMGfyspdqllqdarrhaLQTRPVDVRHSGWDcslesFGQAQPAIRLGLRMIRGFREEDARR 816
Cdd:PRK07374 791 tvnagssdkvqryisNCNSMG---------------IEVMPPDINRSGID-----FTPKGNRILFGLSAVKNLGDGAIRN 850
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 817 IEQVREAE-PFLDVHDLGRR---ARLDARALELLADAGALRGLAGHRHKAR----------WAVASVEP----QLPLF-A 877
Cdd:PRK07374 851 IIAARDSDgPFKSLADLCDRlpsNVLNRRSLESLIHCGALDAFSPNANRAQliadldlvldWASSRARDrasgQGNLFdL 930
|
970 980 990 1000 1010
....*....|....*....|....*....|....*....|....*....|....
gi 308154503 878 EGTAIEESTVSLPLPSRG---------EELLSDYALLGTTLGPHPLKLLRGQLK 922
Cdd:PRK07374 931 LAGSEEEASNDLSSAPKAapvpdypptEKLKLEKELLGFYLSDHPLKQLTEPAK 984
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
274-529 |
6.39e-120 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 367.60 E-value: 6.39e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 274 SWLRHLTEQGIARRWPNGASAKVRKQIERELELIAELGYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITE 352
Cdd:pfam07733 1 EYLRKLVEEGLKERYGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVgPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 353 LDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDV 432
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 433 LANCCGRWSDQAPSA--ERLEEAGFDPQSPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVI 510
Cdd:pfam07733 161 LAKLIPFELGILEKAleEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKADDDDRPVT 240
|
250
....*....|....*....
gi 308154503 511 QWDKDDLDAVGLLKVDVLA 529
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
11-831 |
1.28e-100 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 340.47 E-value: 1.28e-100
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 11 YAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL---EQGPKLVLLA 87
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIfveEQEVTLRLIA 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 88 EDLEGYQNLCRLIT---RGRRQADkghyrllreDLQQPLAGLlAIWLPNDHGDEQAAwlrerfpqrlwLGVELHRGADDD 164
Cdd:PRK07279 82 KNTQGYKNLLKISTakmSGKKQFS---------DLSQYLEGI-AVIVPYFDWSETLE-----------LPFDYYIGVDQE 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 165 ArldkllaLASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGayLFPNGErHLRTLEALQGIY----PQALL 240
Cdd:PRK07279 141 T-------PGSDFKRPILPLRTVRYFESADRETLQMLHAIRDNLSLREVP--LVSSDQ-ELISCQSLETLFqerfPQALD 210
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 241 aetlkiaercrfDLEQL----KYQYPRELV--------PAGHDpaswLRHLTEQGIARRwpnGASAKV-RKQIERELELI 307
Cdd:PRK07279 211 ------------NLEKLvsgiSYDFDTDLKlprfnrdrPAVEE----LRELAELGLKEK---GLWSSPyQERLDKELSVI 271
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 308 AELGYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERRE 386
Cdd:PRK07279 272 HDMGFDDYFLIVWDLLRFGRSQGYYMgMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDIDLPDIYRS 351
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 387 EVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGRWSDQAPSAERleEAGFDPQ--SPI-LR 463
Cdd:PRK07279 352 EFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKISFRDSLASVYEK--NISFRQIinSKLeYQ 429
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 464 RVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmaERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLI 543
Cdd:PRK07279 430 KAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYGD--DMMITQYDAHAVEANGLLKMDFLGLRNLTFVQKMQEKV 507
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 544 hALRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPiqGDMVHPYLRRR 623
Cdd:PRK07279 508 -AKDYGIHIDIEAIDLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNRPGA--SDYTDNFVKRR 584
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 624 NGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLAKGYEAD 703
Cdd:PRK07279 585 HGQEKVDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSK-KNASEMQKMEEDFLQGALELGHSEE 663
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 704 FAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINswpmgfYSPDQLLQDARRHALQTRPVDVRHS 783
Cdd:PRK07279 664 KARELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFYDIMLN------YSSSDYITDALEFGFEVAKLSINTI 737
|
810 820 830 840
....*....|....*....|....*....|....*....|....*...
gi 308154503 784 GWDCSLESfgqaqPAIRLGLRMIRGFREEDARRIeqvREAEPFLDVHD 831
Cdd:PRK07279 738 PYHDKIEN-----KKIYLGLKNIKGLPRDLAYWI---IENRPFSSIED 777
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
8-718 |
1.21e-93 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 317.45 E-value: 1.21e-93
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 8 MSaYAELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQG------- 80
Cdd:PRK09532 1 MS-FVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVINGdiekqkr 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 81 -PKL--VLLAEDLEGYQNLCRLITRGRRQADKGHYRLLR-----EDLQQPLAGLL------------AIWLPN-DHGDEQ 139
Cdd:PRK09532 80 rRKYhqVVLAKNTQGYKNLVKLTTISHLQGVQGKGIFARpcinkELLEQYHEGLIvtsaclggeipqAILSGRpDAARKV 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 140 AAWLRERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFp 219
Cdd:PRK09532 160 AKWYKKLFGDDFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLRY- 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 220 NGERHLRTLEALQGIYPQAL--------LAETLKIAERcrfdLEQLKY----QYPRELVPAGHDPASWLRHLTEQGIARR 287
Cdd:PRK09532 239 SGTEYLKSAEEMRLLFRDHLpddviaeaIANTLEVADK----IEPYNIlgepRIPNYPVPSGHTPDTYVEEVAWQGLLER 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 288 WPNGASAKV----RKQIERELELIAELGYESYFLTVQDIVAFARGRKI-LCQGRGSAANSAVCFALGITELDPDRTNLLF 362
Cdd:PRK09532 315 LNCKSRSEVepvyKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIpVGPGRGSAAGSLVAYCLKITNIDPVHHGLLF 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 363 ERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCC----G 438
Cdd:PRK09532 395 ERFLNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIpvsrG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 439 R-------WSDQAPSAERLEEAGFDPQspiLRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmaERTVI- 510
Cdd:PRK09532 475 KptklkvmISDETPEPEFKEKYDNDPR---VRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNN--DGAVIt 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 511 QWDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHALRG------------GKRLSI------ASIPSEDPATYEMISRAD 572
Cdd:PRK09532 550 QYFMEDLESLGLLKMDFLGLRNLTTIQKTADLIKENRGveidldqlpldeRKALKIlakgeaKKLPKDVQKTHKLLERGD 629
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 573 TIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQ 652
Cdd:PRK09532 630 LEGIFQLESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAGLIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQEQ 709
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 308154503 653 VMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLAKGYEADFAARIFEQIKGFGSY 718
Cdd:PRK09532 710 IMKMAQDLAGYSLGEADLLRRAMGK-KKISEMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
201-854 |
1.10e-90 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 311.39 E-value: 1.10e-90
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 201 MTAIRNHLPVSEagaylFPNGE----RHLRTLEALQGIYPQALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWL 276
Cdd:PRK05898 157 MLAIKNDLKIDE-----LKNCQdfdnNHFLNDNEAQSLFSPIQLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEIL 231
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 277 RHLTEQGIARRWP--NGASAKV-RKQIERELELIAELGYESYFLTVQDIVAFARGRKILC-QGRGSAANSAVCFALGITE 352
Cdd:PRK05898 232 KQLCISGLNKRLNanDGQVKKIyVKRLKYELDIINEKQFDDYFLIVYDFINFAKSNGIIIgPGRGSAAGSLIAYLLHITD 311
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 353 LDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDV 432
Cdd:PRK05898 312 IDPIKYNLIFERFLNPTRKSMPDIDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDK 391
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 433 LANCCGRWSDQAPSAERLEEAGFDPQSPILRRVLALTDELIGFPRHLSQHPGGFVISEQPLDTLVPVEnASMAERTVIQW 512
Cdd:PRK05898 392 ICKNIKPDYEEDLDLAIKKNTILKEMYVLHKELFDLAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIQ-LGINDRPLSQY 470
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 513 DKDDLDAVGLLKVDVLALGMLSALRRSFDLIHaLRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLR 592
Cdd:PRK05898 471 SMEYLERFGLIKMDLLGLKNLTIIDNVLKLIK-ENQNKKIDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVK 549
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 593 PQKFYDLVIQVAIVRPGPIQGdmVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELR 672
Cdd:PRK05898 550 PQNIEDISIVSALFRPGPQQN--IKTFVERRFKREEFSYWNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFR 627
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 673 RSMAAWKRHgGLEHHRERLTRGMLAKGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALIN 752
Cdd:PRK05898 628 RAISKKDEK-ILIQLKKDFIEGALKNNYKQPLVNQIFEYIFSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLS 706
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 753 SWPMGFYSPDQLLQDARRHALQTRPVDVRHSGWDCSLESFGQaqpAIRLGLRMIRGFREEDARRIEQVREA---EPFLDV 829
Cdd:PRK05898 707 HTSASKDKLLSYLNEAKEFNISIKKPDINYSSNSFVLDTQKQ---IIRFGFNTIKGFGDELLKKIKSALQNktfSDFISY 783
|
650 660
....*....|....*....|....*
gi 308154503 830 HDLGRRARLDARALELLADAGALRG 854
Cdd:PRK05898 784 IDALKKNNVSLSNIEILINVGTFDS 808
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
14-853 |
1.37e-85 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 297.37 E-value: 1.37e-85
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 14 LHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQgPKLVLLAEDLEGY 93
Cdd:PRK07135 6 LHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDLEVEN-FRFILLAKNYSGY 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 94 QNLCRLITRGRRQADKGHYRLLREDL---QQPLAGLLA-----IWLPN------DHGDEQAAWLRERfpqRLWLgvelhr 159
Cdd:PRK07135 85 KLLNELSSKKSKNKEIELNDLDSDNIiiiDHPKNGFYAknkeqLELKNyyinsnDPKIENAVYVQER---KLLF------ 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 160 gADDDARLDKLLAlashlrlppvacgdvhmhargrralqdcmtaIRNHLPVSEAGAYLFPNgerhlrtlEALQGIyPQAL 239
Cdd:PRK07135 156 -AEDNEYLKILNK-------------------------------IGNNKEENSNFKFFDFE--------KWFEDI-DEKI 194
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 240 LAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRH-LTEQGIARRWPNGASAKVRKQIERELELIAELGYESYFLT 318
Cdd:PRK07135 195 LKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKiLKESVINKKAELKYYPNVKERINYEYSVIKKLKFSNYFLI 274
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 319 VQDIVAFARGRKILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYG 397
Cdd:PRK07135 275 IWDFIKWARKNKISIgPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDIDIDIQDDRRDEVIDYIFEKYG 354
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 398 RQRAALTAVVSTYHGAGAVRDVAKALGLPpeQVDVLANccgrwSDQAPSAERLEEAgFDPQSPILRRVLALTDE------ 471
Cdd:PRK07135 355 YEHCATISTFQTLGAKSAIRDVGRMLGIP--ESDVNAI-----SKLIPNNQSLEEA-YDKNKSFFRELISKGDPiykkly 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 472 -----LIGFPRHLSQHPGGFVISEQPLDTLVPVeNASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLI-HA 545
Cdd:PRK07135 427 kiakkLEGLPRQSGTHAAGIIISNKPITNYVPT-FESKDNYNQVQYSMEFLEDFGLLKIDLLGLKNLTIIKNIEEKInKE 505
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 546 LRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQgdMVHPYLRRRNG 625
Cdd:PRK07135 506 LLFDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRPGPIQ--YIPIYAKNKKN 583
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 626 EEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLAKGYEADFA 705
Cdd:PRK07135 584 PKNIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISK-KDETKLDKIKDKFIEGGIKNGYSKKVL 662
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 706 ARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSwpmGFYSPDQL---LQDARRHALQTRPVDVRH 782
Cdd:PRK07135 663 EKIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISN---SNGSQENIkkyVKEAKNNGIKVYSPDINF 739
|
810 820 830 840 850 860 870
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 308154503 783 SGWDcSLESFGQaqpaIRLGLRMIRGFREEDARRIEQVR-EAEPFLDVHDLGRRAR---LDARALELLADAGALR 853
Cdd:PRK07135 740 STEN-AVFDNGK----IFLPLIMIKGLGSVAIKKIIDERnKNGKYKNFFDFILRLKfigISKSIIEKLIKANTLR 809
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
532-699 |
8.01e-72 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 235.12 E-value: 8.01e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 532 MLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPI 611
Cdd:pfam17657 1 TLTIIRDALDLIKE-NRGIGIDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGPM 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 612 QGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERL 691
Cdd:pfam17657 80 QGGNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGK-KKPEEMEKLREKF 158
|
....*...
gi 308154503 692 TRGMLAKG 699
Cdd:pfam17657 159 IEGAKENG 166
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
12-254 |
1.52e-33 |
|
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: 127.32 E-value: 1.52e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 12 AELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLE---QGPKLVLLAE 88
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTVEgdgEPYPLLLLAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 89 DLEGYQNLCRLITRGR-RQADKGHYRLLREDLQQPLAGLLAIwLPNDHgdeqaawlrerfpqrlwlgvelhrgadddarl 167
Cdd:cd07431 81 NNEGYQNLLRLSTAAMlGEEKDGVPYLDLEELAEAASGLLVV-LLGPL-------------------------------- 127
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 168 dkLLALASHLRLPPVACGDVHMHARGRRALQDCMTAirnhlpvseagaylfpngerhlrtlealqgiyPQAlLAETLKIA 247
Cdd:cd07431 128 --LLLLAAEQGLPLVATNDVHYLNPEDAFAADVLTA--------------------------------FLA-VANTVRIA 172
|
....*..
gi 308154503 248 ERCRFDL 254
Cdd:cd07431 173 KECAVEL 179
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
14-262 |
4.76e-29 |
|
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: 117.93 E-value: 4.76e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 14 LHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI------RLEQGPK----- 82
Cdd:cd12113 5 LHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVyvapgsRFDKKDKkgdkr 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 83 ---LVLLAEDLEGYQNLCRLITRGRRQadkGHY---RLLREDLQQP----------LAGLLAIWLpnDHGDEQAA----- 141
Cdd:cd12113 85 yyhLVLLAKNEEGYRNLMKLVSLAYLE---GFYykpRIDKELLAKYseglialsacLAGEIPQLL--LNGDEEEAreaal 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 142 WLRERF-PQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPN 220
Cdd:cd12113 160 EYRDIFgKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFDT 239
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 308154503 221 GERHLRTLE---ALQGIYPQAlLAETLKIAERCRFDLEQLKYQYP 262
Cdd:cd12113 240 DEFYLKSPEemrELFPDVPEA-LENTLEIAERCNVELDFGKLHLP 283
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
776-862 |
1.80e-23 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 95.23 E-value: 1.80e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 776 RPVDVRHSGWDCSLEsfgqaQPAIRLGLRMIRGFREEDARRIEQVREAEPFLDVHDLGRRAR--LDARALELLADAGALR 853
Cdd:pfam14579 5 LPPDINRSDWDFTVE-----GGGIRLGLGAIKGLGEAAAERIVEERENGPFKSLEDFARRVDlkLNKRVLEALIKAGAFD 79
|
....*....
gi 308154503 854 GLAGHRHKA 862
Cdd:pfam14579 80 SLGGNRRQL 88
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
14-263 |
5.44e-21 |
|
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: 94.08 E-value: 5.44e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 14 LHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLE------QGPKLVLLA 87
Cdd:cd07433 5 LRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVAnpddadEPFRLTLLA 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 88 EDLEGYQNLCRLITRG-RRQADKGHYRLLREDLQQPLAGLLAI----------WLPNDHGDE---QAAWLRERFPQRLWL 153
Cdd:cd07433 85 QNEQGYKNLTELISRAyLEGQRNGGPHIKLEWLAEYSEGLIALsggrdgdigqLLLEGNPDLaeaLLQFLKKIFPDRFYL 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 154 GVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNhlpvseaGAYLF-PNGER------HLR 226
Cdd:cd07433 165 ELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAE-------GRTLDdPRRPRryspqqYFK 237
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 308154503 227 TLEALQGIY---PQAlLAETLKIAERCRFDLEQLKYQYPR 263
Cdd:cd07433 238 SAEEMAELFadlPEA-IENTVEIAKRCNVRIELGKPFLPD 276
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
13-128 |
8.97e-20 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 87.60 E-value: 8.97e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 13 ELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI------------RLEQG 80
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVyvapgsreetekLLAKY 80
|
90 100 110 120
....*....|....*....|....*....|....*....|....*...
gi 308154503 81 PKLVLLAEDLEGYQNLCRLITRGRRQADKghYRLLREDLQQPLAGLLA 128
Cdd:pfam02811 81 FDLVLLAVHEVGYKNLIKLSSRAYLEGFK--PRIDKELLEEYFEGLIA 126
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
942-1029 |
1.46e-17 |
|
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: 78.32 E-value: 1.46e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 942 RVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVRHVIAGRLHDLTpl 1019
Cdd:cd04485 1 TVAGLVTSVRRRRTKKGkrMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAERIEDLE-- 78
|
90
....*....|
gi 308154503 1020 ltglDVRSRD 1029
Cdd:cd04485 79 ----DARERL 84
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
13-75 |
2.36e-11 |
|
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: 59.97 E-value: 2.36e-11
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 308154503 13 ELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI 75
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEA 63
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
13-127 |
1.54e-10 |
|
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: 62.88 E-value: 1.54e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 13 ELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPKLVLLAEDLEG 92
Cdd:cd07435 3 ELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYLVDPYHITILVKNQTG 82
|
90 100 110
....*....|....*....|....*....|....*
gi 308154503 93 YQNLCRLITRGRRQADKGHYRLLREDLQQPLAGLL 127
Cdd:cd07435 83 LKNLYKLVSLSHTKYFYRVPRIPKSELEKYREGLL 117
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
14-75 |
1.61e-09 |
|
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: 57.40 E-value: 1.61e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 308154503 14 LHCLSNFSFqrGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI 75
Cdd:cd07438 3 LHTHSTASD--GTLSPEELVELAKEAGLKVLAITDHDTVAGLEEALAAAKELGIELIPGVEI 62
|
|
| tRNA_anti-codon |
pfam01336 |
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ... |
941-1016 |
7.85e-08 |
|
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: 50.31 E-value: 7.85e-08
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 308154503 941 IRVAGLVVGRQRpqTASGITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVR-HVIAGRLHDL 1016
Cdd:pfam01336 1 VTVAGRVTSIRR--SGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKGGElELVVEEIELL 75
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
12-77 |
1.05e-06 |
|
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: 48.77 E-value: 1.05e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 308154503 12 AELHCLSNFSFQrGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL 77
Cdd:cd07432 1 ADLHIHSVFSPD-SDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGVEVTL 65
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
13-77 |
3.10e-06 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 51.38 E-value: 3.10e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 308154503 13 ELHCLSNFSFQRGASSATELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL 77
Cdd:PRK00448 336 ELHLHTKMSTMDAIPSVSELVKRAAKWGHKAIAITDHGVVQAFPEAYNAAKKAGIKVIYGVEANL 400
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
720-1008 |
1.65e-05 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 48.52 E-value: 1.65e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 720 FPESHAASFALLTYASSWLKRHEPAAFACALINSwpmgfYSPDQ-----LLQDARRHALQTRPVDVRHSGWDcslesFGQ 794
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTA-----NSGNQdkvqkYRENCQKMGIEVEPPDINRSGKD-----FTP 107
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 795 AQPAIRLGLRMIRGFREEDARRIEQVR-EAEPFLDVHDLGRRARLDA---RALELLADAGALRGLAGHRHK--------A 862
Cdd:PRK07373 108 VGEKILFGLSAVRNLGEGAIESILKAReEGGEFKSLADFCDRVDLRVvnrRALETLIYCGAFDKIEPNRQQlindlelvI 187
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 863 RWAVASVEP----QLPLF-----------AEGTAIEESTVSLPLP--SRGEELLSDYALLGTTLGPHPLKLLRgqlKARR 925
Cdd:PRK07373 188 DWAQKRAKEkasgQGNLFdllggntsnssAANNAFEQAPSAPPVAdfSLQEKLKLEKELLGFYVSEHPLKSIR---RPAR 264
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 308154503 926 CRDSRELAKLGHGRP---IRVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAER-QRRPFLESRLL------ 993
Cdd:PRK07373 265 LLSPINLSELEEQKEktkVSAVVMLNEVKKIVTKKGdpMAFLQLEDLSGQSEAVVFPKSYERiSELLQVDARLIiwgkvd 344
|
330
....*....|....*....
gi 308154503 994 ----QVEGILESSGEVRHV 1008
Cdd:PRK07373 345 rrddQVQLIVEDAEPIEEV 363
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
12-77 |
2.91e-03 |
|
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: 37.79 E-value: 2.91e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 308154503 12 AELHCLSNFSfQRGASSATELFARAARLGYRALAITDECSLAGIV---------RAWQAAReHQVQLIVGSEIRL 77
Cdd:cd07309 1 VDLHTHTVFS-DGDHAKLTELVDKAKELGPDALAITDHGNLRGLAefntagk*nHIKAAEA-AGIKIIIGSEVNL 73
|
|
| |
