|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
1-1024 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 1775.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 1 MSAYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL-----EQGPK 75
Cdd:PRK05672 2 LPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLgpdpdPGGPH 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 LVLLAEDLEGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGL---------------LAIWLPNDHEDEQAAWLRERF 140
Cdd:PRK05672 82 LLVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHwailtgcrkgfvilaLPYGGDAAALAALAALLDAFF 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 141 PQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRT 220
Cdd:PRK05672 162 ADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRS 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 221 LEALQGIYP--QALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNGASAKVRKQIERELE 298
Cdd:PRK05672 242 GAEMARLFPdyPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 299 LIAELGYESYFLTVQDIVAFARGREILCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERR 378
Cdd:PRK05672 322 LIAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRR 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 379 EEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGRWSDQAPSAERLEEAGFDPQSPILRRV 458
Cdd:PRK05672 402 EEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRV 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 459 LALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHA 538
Cdd:PRK05672 482 VELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAE 561
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 539 LRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNG 618
Cdd:PRK05672 562 HRG-RRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNG 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 619 EEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAWKRHGGLEHHRERLTRGMLANGYEADFA 698
Cdd:PRK05672 641 QEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFA 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 699 ARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRPVDVRHSGW 778
Cdd:PRK05672 721 DRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGW 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 779 DCSLEPFGQAQPAIRLGLRMIRGFREENARRIEQVREAEPFLDVHDLGRRARLDARALELLADAGALRGLAGHRHKARWA 858
Cdd:PRK05672 801 DATLEPLPDGGPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALRSLGGDRRQALWA 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 859 VASVE-PQLPLFAeGTVIEESTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVA 937
Cdd:PRK05672 881 AGAAAtERLDLLP-GAPASEAAPALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVEDGRRVRVA 959
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 938 GLVVGRQRPQTASGITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVRHVIAGRLHDLSPLLTGLD 1017
Cdd:PRK05672 960 GVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDLSPLLGGLR 1039
|
....*..
gi 987521927 1018 VRSRDFH 1024
Cdd:PRK05672 1040 TRSRDFH 1046
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1006 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1394.80 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 1 MS-AYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL------EQG 73
Cdd:COG0587 1 MSpSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVapgsrdDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 74 PKLVLLAEDLEGYQNLCRLITRGRRQAD-KGHYRLLREDLQQPLAGLLAIWLPNDHE-------------DEQAAWLRER 139
Cdd:COG0587 81 YHLVLLAKNREGYRNLCRLLSRAYLEGFyKGKPRIDLEDLAEHSEGLIALSGCLAGEvgqallagqydeaEAALARLKDI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 140 FPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLR 219
Cdd:COG0587 161 FGDRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 220 TLEALQGI---YPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNGASAKVRKQIERE 296
Cdd:COG0587 241 SPEEMAELfadLPEAL-ANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEEYRERLEYE 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 297 LELIAELGYESYFLTVQDIVAFARGREI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEH 375
Cdd:COG0587 320 LDVIEKMGFPGYFLIVWDFIRWARSNGIpVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCH 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 376 ERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANccGRWSDQAPSAER-LEEAG----FDP 450
Cdd:COG0587 400 ERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAK--LIPNDPGITLEKaLEEEPelreLYD 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 451 QSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALR 530
Cdd:COG0587 478 SDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIR 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 531 RSFDLIHALRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVH 610
Cdd:COG0587 558 DALDLIKENRG-IDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGGMVP 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 611 PYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLA 690
Cdd:COG0587 637 PYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGK-KKKEEMAKQREKFVEGAVA 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 691 NGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRP 770
Cdd:COG0587 716 NGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLP 795
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 771 VDVRHSGWDCSLEPfgqaQPAIRLGLRMIRGFREENARRIEQVREAE-PFLDVHDLGRRA---RLDARALELLADAGALR 846
Cdd:COG0587 796 PDVNESDWDFTVEP----GGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVdlrKLNKRVLEALIKAGAFD 871
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 847 GLAGHRHKARWAVASV------------EPQLPLFA---EGTVIEESTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLR 911
Cdd:COG0587 872 SLGPNRRQLLWALEAAldaaqqaqkdkaSGQLSLFGgagDEEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYR 951
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 912 GQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVE 989
Cdd:COG0587 952 EELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGkrMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVR 1031
|
1050
....*....|....*..
gi 987521927 990 GILESSGEVRHVIAGRL 1006
Cdd:COG0587 1032 GKVQRRDGVVHLIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
7-968 |
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: 612.85 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 7 LHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPK----------- 75
Cdd:TIGR00594 4 LHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRfdkkriskgke 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 ---LVLLAEDLEGYQNLCRLITRGRRqadKGHY---RLLREDLQQPLAGLLAI-----------WLPN--DHEDEQAAWL 136
Cdd:TIGR00594 84 ayhLILLAKNNTGYRNLMKLSSLAYL---EGFYykpRIDKELLEEHSEGLIALsaclsgevpylLLLGeeRLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 137 RERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGER 216
Cdd:TIGR00594 161 QEIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 217 HLRTLEALQGIY---PQALLAeTLKIAERCR-FDLEQLKYQYPR-ELVPAGHDPASWLRHLTEQGITRRWPNGAS-AKVR 290
Cdd:TIGR00594 241 YLKSPEEMAELFadiPEALAN-TVEIAERCNlVDVKLGPPRLPSyQIPPDFTSQEDYLRHLADEGLRERLAAGPPgYKRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 291 KQ----IERELELIAELGYESYFLTVQDIVAFARGREI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNE 365
Cdd:TIGR00594 320 AQykerLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIpVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 366 PPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGrwSDQAPSAERLEE 445
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIP--PRPGKTLKEALE 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 446 AgfDPQ-------SPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKV 518
Cdd:TIGR00594 478 A--SPQlrqlyeeDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLKM 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 519 DVLALGMLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAI 598
Cdd:TIGR00594 556 DFLGLKTLTLIQDATELIRK-RRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNAL 634
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 599 VRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLE 678
Cdd:TIGR00594 635 YRPGPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGK-KKAEEMA 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 679 HHRERLTRGMLANGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLL 758
Cdd:TIGR00594 714 KEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYI 793
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 759 QDARRHALQTRPVDVRHSGWDcslepFGQAQPAIRLGLRMIRGFREENARRIEQVREAE-PFLDVHDLGRRA---RLDAR 834
Cdd:TIGR00594 794 AEAKKMGIEVLPPDINESGQD-----FAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINRVdfkKLNKK 868
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 835 ALELLADAGALRGLAGHR------------HKARWAVASVEPQLPLF---AEGTVIEESTVSLPLPSRGEELLS-DYALL 898
Cdd:TIGR00594 869 VLEALIKAGAFDSLGPNRktllaslddaldAVSRKKKAEALGQNSLFgalSEGTKPEYVFFPPDEEWPDKKLLAlEKETL 948
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 987521927 899 GTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQ-TASG--ITFITLEDEFGMVNVVV 968
Cdd:TIGR00594 949 GLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGLNSVKKKItTKNGkpMAFLQLEDETGSIEVVV 1021
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
4-255 |
6.23e-129 |
|
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: 391.05 E-value: 6.23e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 4 YAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPKLVLLAEDL 83
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTRLVLLARDR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 84 EGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGLLAIWLPNDHE------DEQAAWLRERFPQRLWLGVELHRGADDD 157
Cdd:cd07434 81 AGYGRLCRLITLGRRRAEKGEYRLTLADLLAHAEGLLLILLPPDRLpaaaalLAQLRWLARAFPGRLWLALELHLGGDDA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 158 ARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRTLEALQG--IYPQALLAE 235
Cdd:cd07434 161 RRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARlfLYPPEALAE 240
|
250 260
....*....|....*....|
gi 987521927 236 TLKIAERCRFDLEQLKYQYP 255
Cdd:cd07434 241 TLEIAARCTFSLDELRYEYP 260
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
267-522 |
2.12e-120 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 368.75 E-value: 2.12e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 267 SWLRHLTEQGITRRWPNGASAKVRKQIERELELIAELGYESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITE 345
Cdd:pfam07733 1 EYLRKLVEEGLKERYGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVgPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 346 LDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDV 425
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 426 LANCCGRWSDQAPSA--ERLEEAGFDPQSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVI 503
Cdd:pfam07733 161 LAKLIPFELGILEKAleEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKADDDDRPVT 240
|
250
....*....|....*....
gi 987521927 504 QWDKDDLDAVGLLKVDVLA 522
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
6-68 |
2.44e-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: 2.44e-11
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 987521927 6 ELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI 68
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEA 63
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
1-1024 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 1775.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 1 MSAYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL-----EQGPK 75
Cdd:PRK05672 2 LPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLgpdpdPGGPH 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 LVLLAEDLEGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGL---------------LAIWLPNDHEDEQAAWLRERF 140
Cdd:PRK05672 82 LLVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGHwailtgcrkgfvilaLPYGGDAAALAALAALLDAFF 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 141 PQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRT 220
Cdd:PRK05672 162 ADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERHLRS 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 221 LEALQGIYP--QALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNGASAKVRKQIERELE 298
Cdd:PRK05672 242 GAEMARLFPdyPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGIPPKARAQIEHELA 321
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 299 LIAELGYESYFLTVQDIVAFARGREILCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERR 378
Cdd:PRK05672 322 LIAELGYEGYFLTVHDIVRFARSQGILCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHDRR 401
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 379 EEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGRWSDQAPSAERLEEAGFDPQSPILRRV 458
Cdd:PRK05672 402 EEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDPESPIPRRV 481
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 459 LALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHA 538
Cdd:PRK05672 482 VELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAE 561
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 539 LRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNG 618
Cdd:PRK05672 562 HRG-RRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGPIQGGMVHPYLRRRNG 640
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 619 EEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAWKRHGGLEHHRERLTRGMLANGYEADFA 698
Cdd:PRK05672 641 QEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAAWRRKGRLERLRERLYDGMLARGYTGEFA 720
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 699 ARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRPVDVRHSGW 778
Cdd:PRK05672 721 DRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQPMGFYSPQQLVQDARRHGVEVLPVDVNASGW 800
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 779 DCSLEPFGQAQPAIRLGLRMIRGFREENARRIEQVREAEPFLDVHDLGRRARLDARALELLADAGALRGLAGHRHKARWA 858
Cdd:PRK05672 801 DATLEPLPDGGPAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRAGLDRRQLEALADAGALRSLGGDRRQALWA 880
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 859 VASVE-PQLPLFAeGTVIEESTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVA 937
Cdd:PRK05672 881 AGAAAtERLDLLP-GAPASEAAPALPGMSEGELVAADYWTTGLSLDSHPLALLRPRLDARGVVSAAELLDVEDGRRVRVA 959
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 938 GLVVGRQRPQTASGITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVRHVIAGRLHDLSPLLTGLD 1017
Cdd:PRK05672 960 GVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRHLVADRLEDLSPLLGGLR 1039
|
....*..
gi 987521927 1018 VRSRDFH 1024
Cdd:PRK05672 1040 TRSRDFH 1046
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1006 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1394.80 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 1 MS-AYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL------EQG 73
Cdd:COG0587 1 MSpSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVapgsrdDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 74 PKLVLLAEDLEGYQNLCRLITRGRRQAD-KGHYRLLREDLQQPLAGLLAIWLPNDHE-------------DEQAAWLRER 139
Cdd:COG0587 81 YHLVLLAKNREGYRNLCRLLSRAYLEGFyKGKPRIDLEDLAEHSEGLIALSGCLAGEvgqallagqydeaEAALARLKDI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 140 FPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLR 219
Cdd:COG0587 161 FGDRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 220 TLEALQGI---YPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNGASAKVRKQIERE 296
Cdd:COG0587 241 SPEEMAELfadLPEAL-ANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEEYRERLEYE 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 297 LELIAELGYESYFLTVQDIVAFARGREI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEH 375
Cdd:COG0587 320 LDVIEKMGFPGYFLIVWDFIRWARSNGIpVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCH 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 376 ERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANccGRWSDQAPSAER-LEEAG----FDP 450
Cdd:COG0587 400 ERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAK--LIPNDPGITLEKaLEEEPelreLYD 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 451 QSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALR 530
Cdd:COG0587 478 SDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIR 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 531 RSFDLIHALRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVH 610
Cdd:COG0587 558 DALDLIKENRG-IDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGGMVP 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 611 PYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLA 690
Cdd:COG0587 637 PYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGK-KKKEEMAKQREKFVEGAVA 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 691 NGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRP 770
Cdd:COG0587 716 NGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLP 795
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 771 VDVRHSGWDCSLEPfgqaQPAIRLGLRMIRGFREENARRIEQVREAE-PFLDVHDLGRRA---RLDARALELLADAGALR 846
Cdd:COG0587 796 PDVNESDWDFTVEP----GGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVdlrKLNKRVLEALIKAGAFD 871
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 847 GLAGHRHKARWAVASV------------EPQLPLFA---EGTVIEESTVSLPLPSRGEELLSDYALLGTTLGPHPLKLLR 911
Cdd:COG0587 872 SLGPNRRQLLWALEAAldaaqqaqkdkaSGQLSLFGgagDEEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYR 951
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 912 GQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVE 989
Cdd:COG0587 952 EELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGkrMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVR 1031
|
1050
....*....|....*..
gi 987521927 990 GILESSGEVRHVIAGRL 1006
Cdd:COG0587 1032 GKVQRRDGVVHLIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
7-968 |
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: 612.85 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 7 LHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPK----------- 75
Cdd:TIGR00594 4 LHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRfdkkriskgke 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 ---LVLLAEDLEGYQNLCRLITRGRRqadKGHY---RLLREDLQQPLAGLLAI-----------WLPN--DHEDEQAAWL 136
Cdd:TIGR00594 84 ayhLILLAKNNTGYRNLMKLSSLAYL---EGFYykpRIDKELLEEHSEGLIALsaclsgevpylLLLGeeRLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 137 RERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGER 216
Cdd:TIGR00594 161 QEIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDEF 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 217 HLRTLEALQGIY---PQALLAeTLKIAERCR-FDLEQLKYQYPR-ELVPAGHDPASWLRHLTEQGITRRWPNGAS-AKVR 290
Cdd:TIGR00594 241 YLKSPEEMAELFadiPEALAN-TVEIAERCNlVDVKLGPPRLPSyQIPPDFTSQEDYLRHLADEGLRERLAAGPPgYKRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 291 KQ----IERELELIAELGYESYFLTVQDIVAFARGREI-LCQGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNE 365
Cdd:TIGR00594 320 AQykerLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIpVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 366 PPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGrwSDQAPSAERLEE 445
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIP--PRPGKTLKEALE 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 446 AgfDPQ-------SPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDDLDAVGLLKV 518
Cdd:TIGR00594 478 A--SPQlrqlyeeDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLKM 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 519 DVLALGMLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAI 598
Cdd:TIGR00594 556 DFLGLKTLTLIQDATELIRK-RRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNAL 634
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 599 VRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLE 678
Cdd:TIGR00594 635 YRPGPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGK-KKAEEMA 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 679 HHRERLTRGMLANGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLL 758
Cdd:TIGR00594 714 KEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYI 793
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 759 QDARRHALQTRPVDVRHSGWDcslepFGQAQPAIRLGLRMIRGFREENARRIEQVREAE-PFLDVHDLGRRA---RLDAR 834
Cdd:TIGR00594 794 AEAKKMGIEVLPPDINESGQD-----FAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNgPFKSLFDFINRVdfkKLNKK 868
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 835 ALELLADAGALRGLAGHR------------HKARWAVASVEPQLPLF---AEGTVIEESTVSLPLPSRGEELLS-DYALL 898
Cdd:TIGR00594 869 VLEALIKAGAFDSLGPNRktllaslddaldAVSRKKKAEALGQNSLFgalSEGTKPEYVFFPPDEEWPDKKLLAlEKETL 948
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 987521927 899 GTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQ-TASG--ITFITLEDEFGMVNVVV 968
Cdd:TIGR00594 949 GLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGLNSVKKKItTKNGkpMAFLQLEDETGSIEVVV 1021
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
7-997 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 580.91 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 7 LHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPK----------- 75
Cdd:PRK05673 5 LHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKddvsgggayth 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 LVLLAEDLEGYQNLCRLITRGRRQADKGHY-RLLREDLQQPLAGLLAI----------WLPNDHEDE---QAAWLRERFP 141
Cdd:PRK05673 85 LTLLAKNETGYRNLFKLSSRAYLEGQYGYKpRIDREWLAEHSEGLIALsgcpsgevgtALLAGQYDEaeeAAAEYQEIFG 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 142 QRLWLgvELHR-GADDDAR-LDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIrnhlpvsEAGAYLF-PNGERH- 217
Cdd:PRK05673 165 DRFYL--ELMRhGLPIERRvEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCI-------AEGKTLDdPDRFRFy 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 218 -----LRTLE---ALQGIYPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNGASAKV 289
Cdd:PRK05673 236 speqyLKSAEemrELFADLPEAL-DNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLFPDEE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 290 R----KQIERELELIAELGYESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERN 364
Cdd:PRK05673 315 RpeyvERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVgPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERV 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 365 EPPDIDVDFEHERREEVIQYVFTRYGRQRaalTAVVSTYhGA----GAVRDVAKALGLPPEQVDVLAnccgrwsdQA--- 437
Cdd:PRK05673 395 SMPDFDIDFCQDRRDEVIRYVAEKYGRDA---VAQIITF-GTmkakAVIRDVGRVLGMPYGFVDRIT--------KLipp 462
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 438 ----PSAERLEEAG----FDPQSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVIQWDKDD 509
Cdd:PRK05673 463 dpgiTLAKAYEEEPelreLYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPVTQFDMKD 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 510 LDAVGLLKVDVLALGMLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKF 589
Cdd:PRK05673 543 VEAAGLVKFDFLGLRTLTIIDDALKLIKK-RRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCF 621
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 590 YDLVIQVAIVRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMA 669
Cdd:PRK05673 622 EDIIALVALYRPGPMESGMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMG 701
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 670 AwKRHGGLEHHRERLTRGMLANGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSwpm 749
Cdd:PRK05673 702 K-KKPEEMAKQREIFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTS--- 777
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 750 gfyspDQ--------LLQDARRHALQTRPVDVRHSGWDcslepFGQAQPAIRLGLRMIRGFREENARRIEQVREAE-PFL 820
Cdd:PRK05673 778 -----DMdntdkvavYLDECRRMGIKVLPPDVNESLYD-----FTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGgPFK 847
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 821 DVHDLGRR---ARLDARALELLADAGALRGLAGHR------HKArwAVASVEP--------QLPLFAEGTVIEEStVSLP 883
Cdd:PRK05673 848 DLFDFCARvdlKKVNKRVLESLIKAGAFDSLGPNRaallasLED--AVDAADQhkkaeasgQFDLFGGLGEEPED-VEVS 924
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 884 LPSRGE----ELLS-DYALLGTTLGPHPLKLLRGQLKARRCRDSRELAKLGHGRPIRVAGLVVGRQRPQTASG--ITFIT 956
Cdd:PRK05673 925 VPDVEEwdkkEKLAgERETLGLYLSGHPLDGYEDELRRLRDTRLADLEPTEGGSVVTVAGLVVSVRRRVTKRGnkMAIVT 1004
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|.
gi 987521927 957 LEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGE 997
Cdd:PRK05673 1005 LEDLSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDDG 1045
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-992 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 557.97 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 1 MSAYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI------RLEQGP 74
Cdd:PRK06826 2 KMSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVyvaprsRFDKEP 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 75 K-------LVLLAEDLEGYQNLCRLITRGrrqADKGHY---RLLREDLQQPLAGLLAI-----------WLPNDHED--E 131
Cdd:PRK06826 82 DidnetyhLVLLAKNETGYKNLMKIVSKA---FTEGFYykpRVDHELLKEHSEGLIALsaclagevpryILKGNYEKakE 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 132 QAAWLRERF-PQRLWLGVELHrGADDDARLDK-LLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAY 209
Cdd:PRK06826 159 AALFYKDIFgKENFYLELQDH-GIPEQRKVNEeLIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENRM 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 210 LFPNGERHLRT---LEALQGIYPQALlAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNgAS 286
Cdd:PRK06826 238 RFPSDEFYLKSpeeMYELFSYVPEAL-ENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPN-PS 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 287 AKVRKQIERELELIAELGYESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNE 365
Cdd:PRK06826 316 EELIERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVgPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 366 PPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLA----NCCGRWSDQA--PS 439
Cdd:PRK06826 396 MPDIDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAkmipTELGITIDKAleLN 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 440 AErLEEAgFDpQSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVenaSMAERTVI-QWDKDDLDAVGLLKV 518
Cdd:PRK06826 476 PE-LKEA-YE-NDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPL---QKNDGSIVtQFTMTTLEELGLLKM 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 519 DVLALGMLSALRRSFDLIHALRGGKrLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAI 598
Cdd:PRK06826 550 DFLGLRTLTVIRDAVDLIKKNRGIE-IDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGISL 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 599 VRPGPIqgDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLE 678
Cdd:PRK06826 629 YRPGPM--DSIPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSK-KKHDVME 705
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 679 HHR--------ERLTRGMLANGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWpMG 750
Cdd:PRK06826 706 EERknfiygivDEGGPGCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNSV-MG 784
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 751 fySPDQL---LQDARRHALQTRPVDVrhsgwDCSLEPFGQAQPAIRLGLRMIRGFREENARRIEQVREAE-PFLDVHDLG 826
Cdd:PRK06826 785 --NSDKVafyIEECRRLGIEVLPPDI-----NESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKgKFKSLVDFC 857
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 827 RRARLDA---RALELLADAGALRGLAGHRHKARWAVASV------------EPQLPLFAEGTVIEESTVSLPLPSRGE-- 889
Cdd:PRK06826 858 ERVDTSQinkRAVESLIKAGAFDSLGVYRSQLLAVYEKIldsiskqrkkniEGQISLFDLIGEEEESSLEIKYPDIKEfd 937
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 890 --ELLS-DYALLGTTLGPHPLKLLRGQLKARRCRDSREL---------AKLGHGRPIRVAGLVVGRQRPQTASG--ITFI 955
Cdd:PRK06826 938 kkELLAmEKEMLGLYISGHPLEEYEETLKKQTSATISDIisdeeedgeSKLKDGDKVIIGGIITEVKRKTTRNNemMAFL 1017
|
1050 1060 1070
....*....|....*....|....*....|....*..
gi 987521927 956 TLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGIL 992
Cdd:PRK06826 1018 TLEDLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRV 1054
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
4-1009 |
1.84e-144 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 460.03 E-value: 1.84e-144
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 4 YAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL-----EQGPKLVL 78
Cdd:PRK06920 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIfseeeEKSYPLVL 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 79 LAEDLEGYQNLCRLITRGRRQADKGhyrLLREDLQQPLAGLLAI---------WLPNDHEDEQAAWLRERFPQRLWLG-- 147
Cdd:PRK06920 83 LAENEIGYQNLLKISSSIMTKSKEG---IPKKWLAHYAKGLIAIspgkdgeieQLLLEDKESQAEEVARAYQNMFGNFym 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 148 -VELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRTLEALQG 226
Cdd:PRK06920 160 sLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYYLKSSDEMEA 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 227 IYPQ--ALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRHLTEQGITRRWPNGASAKVRKqIERELELIAELG 304
Cdd:PRK06920 240 LFSHvpEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINR-LNHELNVISRMG 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 305 YESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQ 383
Cdd:PRK06920 319 FSDYFLIVWDFMKYAHENHILTgPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDTRRDEMIR 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 384 YVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCgrwsdqaPS--AERLEEA--------GFDPQSP 453
Cdd:PRK06920 399 YVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLI-------PSklGITLKDAyeesqslrEFIQGNL 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 454 ILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSF 533
Cdd:PRK06920 472 LHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGH-NDVYVTQYPADALEELGLLKMDFLGLRNLTLLENII 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 534 DLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGdmVHPYL 613
Cdd:PRK06920 551 KFIEQ-KTGKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQ--IPTFI 627
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 614 RRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLANGY 693
Cdd:PRK06920 628 ESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSK-KNRDILDQERKHFVQGCLQNGY 706
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 694 EADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSWPMGFYSPDQLLQDARRHALQTRPVDV 773
Cdd:PRK06920 707 DETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSL 786
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 774 RHSGWdcslePFGQAQPAIRLGLRMIRGFREENARRIEQVREAEPFLDVHDLGRRA---RLDARALELLADAGALRGLAG 850
Cdd:PRK06920 787 QRSGY-----NFQIEGNAIRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMpskFVTERNLEAFVWSGCFDDFGV 861
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 851 HRHKarwAVASVEPQLPlFAEGTVIEESTVSLPLPSRGEEL-LSDY-----ALLGTTLGPHPLKLLRGQLKARRCRDSRE 924
Cdd:PRK06920 862 SRTN---LWKSLKGALE-YANLARDLGDAVPKSKYVQGEELsFIEQlnkekEVLGFYLSSYPTAQYVKLAKELEIPSLAQ 937
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 925 LAKLGhGRPIRVAGLVVGRQ--RPQTASGITFITLEDEFGMVNVVVRHDlAERQRRPFL-ESRLLQVEGILESSGEVRHV 1001
Cdd:PRK06920 938 AMRHK-KKVQRAIVYITSVKviRTKKGQKMAFITFCDQNDEMEAVVFPE-TYIHFSDKLqEGAIVLVDGTIELRNHKLQW 1015
|
....*...
gi 987521927 1002 IAGRLHDL 1009
Cdd:PRK06920 1016 IVNGLYPL 1023
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
4-255 |
6.23e-129 |
|
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: 391.05 E-value: 6.23e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 4 YAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPKLVLLAEDL 83
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTRLVLLARDR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 84 EGYQNLCRLITRGRRQADKGHYRLLREDLQQPLAGLLAIWLPNDHE------DEQAAWLRERFPQRLWLGVELHRGADDD 157
Cdd:cd07434 81 AGYGRLCRLITLGRRRAEKGEYRLTLADLLAHAEGLLLILLPPDRLpaaaalLAQLRWLARAFPGRLWLALELHLGGDDA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 158 ARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGERHLRTLEALQG--IYPQALLAE 235
Cdd:cd07434 161 RRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARlfLYPPEALAE 240
|
250 260
....*....|....*....|
gi 987521927 236 TLKIAERCRFDLEQLKYQYP 255
Cdd:cd07434 241 TLEIAARCTFSLDELRYEYP 260
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
267-522 |
2.12e-120 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 368.75 E-value: 2.12e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 267 SWLRHLTEQGITRRWPNGASAKVRKQIERELELIAELGYESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITE 345
Cdd:pfam07733 1 EYLRKLVEEGLKERYGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVgPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 346 LDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDV 425
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 426 LANCCGRWSDQAPSA--ERLEEAGFDPQSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASMAERTVI 503
Cdd:pfam07733 161 LAKLIPFELGILEKAleEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKADDDDRPVT 240
|
250
....*....|....*....
gi 987521927 504 QWDKDDLDAVGLLKVDVLA 522
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
3-915 |
5.30e-120 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 396.02 E-value: 5.30e-120
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 3 AYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSE-------IRLEQGPK 75
Cdd:PRK07374 2 AFVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEmyvingsIDDPQPKK 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 -----LVLLAEDLEGYQNLCRLIT----RGRRqaDKGHYR---LLREDLQQPLAGL------LAIWLP-------NDHED 130
Cdd:PRK07374 82 ekryhLVVLAKNATGYKNLVKLTTishlNGMR--GRGIFSrpcIDKELLKQYSEGLivstacLGGEIPqailrgrPDVAR 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 131 EQAAWLRERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAgAYL 210
Cdd:PRK07374 160 DVAAWYKEVFGDDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDE-KRL 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 211 FPNGERHLRTLEALQGIYPQAL--------LAETLKIAERCR-FDLEQlKYQYPRELVPAGHDPASWLRHLTEQGITRRW 281
Cdd:PRK07374 239 RYTGTEYIKSEEEMLRLFRDHLdpeviqeaIANTVEVAEKVEeYDILG-TYRMPRFPIPEGHTAVSYLTEVTEQGLLKRL 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 282 PNGASAKV----RKQIERELELIAELGYESYFLTVQDIVAFARGREI-LCQGRGSAANSAVCFALGITELDPDRTNLLFE 356
Cdd:PRK07374 318 KLNSLDEIdenyKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIpVGPGRGSAAGSLVAYALGITNIDPVKNGLLFE 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 357 RFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCC----GR 432
Cdd:PRK07374 398 RFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIpvvrGK 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 433 -------WSDQAPSAERLEEAGFDPQspiLRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmaERTVI-Q 504
Cdd:PRK07374 478 paklkamIGKESPSPEFREKYEKDPR---VKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRNN--DGQVItQ 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 505 WDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHALRGgKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRL 584
Cdd:PRK07374 553 YFMEDIESLGLLKMDFLGLKNLTMIEKTLELVEQSTG-ERIDPDNLPLDDEKTFELLARGDLEGIFQLESSGMRQVVRDL 631
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 585 RPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADEL 664
Cdd:PRK07374 632 KPSSLEDISSILALYRPGPLDAGLIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAGYSLGQADLL 711
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 665 RRSMAAwKRHGGLEHHRERLTRGMLANGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALI 744
Cdd:PRK07374 712 RRAMGK-KKVSEMQKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLKAHYPVAYMAALL 790
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 745 ---------------NSWPMGfyspdqllqdarrhaLQTRPVDVRHSGWDcslepFGQAQPAIRLGLRMIRGFREENARR 809
Cdd:PRK07374 791 tvnagssdkvqryisNCNSMG---------------IEVMPPDINRSGID-----FTPKGNRILFGLSAVKNLGDGAIRN 850
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 810 IEQVREAE-PFLDVHDLGRR---ARLDARALELLADAGALRGLAGHRHKAR----------WAVASVEP----QLPLF-A 870
Cdd:PRK07374 851 IIAARDSDgPFKSLADLCDRlpsNVLNRRSLESLIHCGALDAFSPNANRAQliadldlvldWASSRARDrasgQGNLFdL 930
|
970 980 990 1000 1010
....*....|....*....|....*....|....*....|....*....|....
gi 987521927 871 EGTVIEESTVSLPLPSRG---------EELLSDYALLGTTLGPHPLKLLRGQLK 915
Cdd:PRK07374 931 LAGSEEEASNDLSSAPKAapvpdypptEKLKLEKELLGFYLSDHPLKQLTEPAK 984
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
4-824 |
1.08e-101 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 343.17 E-value: 1.08e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 4 YAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL---EQGPKLVLLA 80
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIfveEQEVTLRLIA 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 81 EDLEGYQNLCRLIT---RGRRQADkghyrllreDLQQPLAGLlAIWLPNDHEDEQAAwlrerfpqrlwLGVELHRGADDD 157
Cdd:PRK07279 82 KNTQGYKNLLKISTakmSGKKQFS---------DLSQYLEGI-AVIVPYFDWSETLE-----------LPFDYYIGVDQE 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 158 ArldkllaLASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGayLFPNGErHLRTLEALQGIY----PQALL 233
Cdd:PRK07279 141 T-------PGSDFKRPILPLRTVRYFESADRETLQMLHAIRDNLSLREVP--LVSSDQ-ELISCQSLETLFqerfPQALD 210
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 234 aetlkiaercrfDLEQL----KYQYPRELV--------PAGHDpaswLRHLTEQGITRRwpnGASAKV-RKQIERELELI 300
Cdd:PRK07279 211 ------------NLEKLvsgiSYDFDTDLKlprfnrdrPAVEE----LRELAELGLKEK---GLWSSPyQERLDKELSVI 271
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 301 AELGYESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERRE 379
Cdd:PRK07279 272 HDMGFDDYFLIVWDLLRFGRSQGYYMgMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDIDLPDIYRS 351
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 380 EVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCCGRWSDQAPSAERleEAGFDPQ--SPI-LR 456
Cdd:PRK07279 352 EFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKISFRDSLASVYEK--NISFRQIinSKLeYQ 429
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 457 RVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmaERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLI 536
Cdd:PRK07279 430 KAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYGD--DMMITQYDAHAVEANGLLKMDFLGLRNLTFVQKMQEKV 507
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 537 hALRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPiqGDMVHPYLRRR 616
Cdd:PRK07279 508 -AKDYGIHIDIEAIDLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNRPGA--SDYTDNFVKRR 584
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 617 NGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLANGYEAD 696
Cdd:PRK07279 585 HGQEKVDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSK-KNASEMQKMEEDFLQGALELGHSEE 663
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 697 FAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINswpmgfYSPDQLLQDARRHALQTRPVDVrhs 776
Cdd:PRK07279 664 KARELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFYDIMLN------YSSSDYITDALEFGFEVAKLSI--- 734
|
810 820 830 840 850
....*....|....*....|....*....|....*....|....*....|
gi 987521927 777 gwdcSLEPFGQ--AQPAIRLGLRMIRGFREENARRIeqvREAEPFLDVHD 824
Cdd:PRK07279 735 ----NTIPYHDkiENKKIYLGLKNIKGLPRDLAYWI---IENRPFSSIED 777
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
1-711 |
1.79e-94 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 319.77 E-value: 1.79e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 1 MSaYAELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQG------- 73
Cdd:PRK09532 1 MS-FVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVINGdiekqkr 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 74 -PKL--VLLAEDLEGYQNLCRLITRGRRQADKGHYRLLR-----EDLQQPLAGLL------------AIWLPN-DHEDEQ 132
Cdd:PRK09532 80 rRKYhqVVLAKNTQGYKNLVKLTTISHLQGVQGKGIFARpcinkELLEQYHEGLIvtsaclggeipqAILSGRpDAARKV 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 133 AAWLRERFPQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFp 212
Cdd:PRK09532 160 AKWYKKLFGDDFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLRY- 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 213 NGERHLRTLEALQGIYPQAL--------LAETLKIAERcrfdLEQLKY----QYPRELVPAGHDPASWLRHLTEQGITRR 280
Cdd:PRK09532 239 SGTEYLKSAEEMRLLFRDHLpddviaeaIANTLEVADK----IEPYNIlgepRIPNYPVPSGHTPDTYVEEVAWQGLLER 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 281 WPNGASAKV----RKQIERELELIAELGYESYFLTVQDIVAFARGREI-LCQGRGSAANSAVCFALGITELDPDRTNLLF 355
Cdd:PRK09532 315 LNCKSRSEVepvyKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIpVGPGRGSAAGSLVAYCLKITNIDPVHHGLLF 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 356 ERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDVLANCC----G 431
Cdd:PRK09532 395 ERFLNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIpvsrG 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 432 R-------WSDQAPSAERLEEAGFDPQspiLRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVENASmaERTVI- 503
Cdd:PRK09532 475 KptklkvmISDETPEPEFKEKYDNDPR---VRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNN--DGAVIt 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 504 QWDKDDLDAVGLLKVDVLALGMLSALRRSFDLIHALRG------------GKRLSI------ASIPSEDPATYEMISRAD 565
Cdd:PRK09532 550 QYFMEDLESLGLLKMDFLGLRNLTTIQKTADLIKENRGveidldqlpldeRKALKIlakgeaKKLPKDVQKTHKLLERGD 629
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 566 TIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQ 645
Cdd:PRK09532 630 LEGIFQLESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAGLIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQEQ 709
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 987521927 646 VMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLANGYEADFAARIFEQIKGFGSY 711
Cdd:PRK09532 710 IMKMAQDLAGYSLGEADLLRRAMGK-KKISEMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
194-847 |
4.15e-92 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 315.24 E-value: 4.15e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 194 MTAIRNHLPVSEagaylFPNGE----RHLRTLEALQGIYPQALLAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWL 269
Cdd:PRK05898 157 MLAIKNDLKIDE-----LKNCQdfdnNHFLNDNEAQSLFSPIQLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEIL 231
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 270 RHLTEQGITRRWP--NGASAKV-RKQIERELELIAELGYESYFLTVQDIVAFARGREILC-QGRGSAANSAVCFALGITE 345
Cdd:PRK05898 232 KQLCISGLNKRLNanDGQVKKIyVKRLKYELDIINEKQFDDYFLIVYDFINFAKSNGIIIgPGRGSAAGSLIAYLLHITD 311
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 346 LDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYGRQRAALTAVVSTYHGAGAVRDVAKALGLPPEQVDV 425
Cdd:PRK05898 312 IDPIKYNLIFERFLNPTRKSMPDIDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDK 391
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 426 LANCCGRWSDQAPSAERLEEAGFDPQSPILRRVLALTGELIGFPRHLSQHPGGFVISEQPLDTLVPVEnASMAERTVIQW 505
Cdd:PRK05898 392 ICKNIKPDYEEDLDLAIKKNTILKEMYVLHKELFDLAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIQ-LGINDRPLSQY 470
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 506 DKDDLDAVGLLKVDVLALGMLSALRRSFDLIHaLRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLR 585
Cdd:PRK05898 471 SMEYLERFGLIKMDLLGLKNLTIIDNVLKLIK-ENQNKKIDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVK 549
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 586 PQKFYDLVIQVAIVRPGPIQGdmVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELR 665
Cdd:PRK05898 550 PQNIEDISIVSALFRPGPQQN--IKTFVERRFKREEFSYWNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFR 627
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 666 RSMAAWKRHgGLEHHRERLTRGMLANGYEADFAARIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALIN 745
Cdd:PRK05898 628 RAISKKDEK-ILIQLKKDFIEGALKNNYKQPLVNQIFEYIFSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLS 706
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 746 SWPMGFYSPDQLLQDARRHALQTRPVDVRHSGWDCSLEPFGQaqpAIRLGLRMIRGFREENARRIEQVREA---EPFLDV 822
Cdd:PRK05898 707 HTSASKDKLLSYLNEAKEFNISIKKPDINYSSNSFVLDTQKQ---IIRFGFNTIKGFGDELLKKIKSALQNktfSDFISY 783
|
650 660
....*....|....*....|....*
gi 987521927 823 HDLGRRARLDARALELLADAGALRG 847
Cdd:PRK05898 784 IDALKKNNVSLSNIEILINVGTFDS 808
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
7-846 |
6.07e-86 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 298.14 E-value: 6.07e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 7 LHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQgPKLVLLAEDLEGY 86
Cdd:PRK07135 6 LHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDLEVEN-FRFILLAKNYSGY 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 87 QNLCRLITRGRRQADKGHYRLLREDL---QQPLAGLLA-----IWLPN------DHEDEQAAWLRERfpqRLWLgvelhr 152
Cdd:PRK07135 85 KLLNELSSKKSKNKEIELNDLDSDNIiiiDHPKNGFYAknkeqLELKNyyinsnDPKIENAVYVQER---KLLF------ 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 153 gADDDARLDKLLAlashlrlppvacgdvhmhargrralqdcmtaIRNHLPVSEAGAYLFPNgerhlrtlEALQGIyPQAL 232
Cdd:PRK07135 156 -AEDNEYLKILNK-------------------------------IGNNKEENSNFKFFDFE--------KWFEDI-DEKI 194
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 233 LAETLKIAERCRFDLEQLKYQYPRELVPAGHDPASWLRH-LTEQGITRRWPNGASAKVRKQIERELELIAELGYESYFLT 311
Cdd:PRK07135 195 LKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKiLKESVINKKAELKYYPNVKERINYEYSVIKKLKFSNYFLI 274
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 312 VQDIVAFARGREILC-QGRGSAANSAVCFALGITELDPDRTNLLFERFLSRERNEPPDIDVDFEHERREEVIQYVFTRYG 390
Cdd:PRK07135 275 IWDFIKWARKNKISIgPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDIDIDIQDDRRDEVIDYIFEKYG 354
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 391 RQRAALTAVVSTYHGAGAVRDVAKALGLPpeQVDVLANccgrwSDQAPSAERLEEAG----------FDPQSPILRRVLA 460
Cdd:PRK07135 355 YEHCATISTFQTLGAKSAIRDVGRMLGIP--ESDVNAI-----SKLIPNNQSLEEAYdknksffrelISKGDPIYKKLYK 427
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 461 LTGELIGFPRHLSQHPGGFVISEQPLDTLVPVeNASMAERTVIQWDKDDLDAVGLLKVDVLALGMLSALRRSFDLI-HAL 539
Cdd:PRK07135 428 IAKKLEGLPRQSGTHAAGIIISNKPITNYVPT-FESKDNYNQVQYSMEFLEDFGLLKIDLLGLKNLTIIKNIEEKInKEL 506
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 540 RGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPIQgdMVHPYLRRRNGE 619
Cdd:PRK07135 507 LFDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRPGPIQ--YIPIYAKNKKNP 584
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 620 EPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERLTRGMLANGYEADFAA 699
Cdd:PRK07135 585 KNIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISK-KDETKLDKIKDKFIEGGIKNGYSKKVLE 663
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 700 RIFEQIKGFGSYGFPESHAASFALLTYASSWLKRHEPAAFACALINSwpmGFYSPDQL---LQDARRHALQTRPVDVRHS 776
Cdd:PRK07135 664 KIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISN---SNGSQENIkkyVKEAKNNGIKVYSPDINFS 740
|
810 820 830 840 850 860 870
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 987521927 777 GWDCSLEpFGQaqpaIRLGLRMIRGFREENARRIEQVR-EAEPFLDVHDLGRRAR---LDARALELLADAGALR 846
Cdd:PRK07135 741 TENAVFD-NGK----IFLPLIMIKGLGSVAIKKIIDERnKNGKYKNFFDFILRLKfigISKSIIEKLIKANTLR 809
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
525-692 |
1.50e-72 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 237.05 E-value: 1.50e-72
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 525 MLSALRRSFDLIHAlRGGKRLSIASIPSEDPATYEMISRADTIGVFQIESRAQMAMLPRLRPQKFYDLVIQVAIVRPGPI 604
Cdd:pfam17657 1 TLTIIRDALDLIKE-NRGIGIDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGPM 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 605 QGDMVHPYLRRRNGEEPVAYPSAELEEVFERTLGVPLFQEQVMELAIVAADYTPGEADELRRSMAAwKRHGGLEHHRERL 684
Cdd:pfam17657 80 QGGNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGK-KKPEEMEKLREKF 158
|
....*...
gi 987521927 685 TRGMLANG 692
Cdd:pfam17657 159 IEGAKENG 166
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
5-247 |
1.03e-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: 128.09 E-value: 1.03e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 5 AELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLE---QGPKLVLLAE 81
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTVEgdgEPYPLLLLAK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 82 DLEGYQNLCRLITRGR-RQADKGHYRLLREDLQQPLAGLLAIwLPNDHedeqaawlrerfpqrlwlgvelhrgadddarl 160
Cdd:cd07431 81 NNEGYQNLLRLSTAAMlGEEKDGVPYLDLEELAEAASGLLVV-LLGPL-------------------------------- 127
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 161 dkLLALASHLRLPPVACGDVHMHARGRRALQDCMTAirnhlpvseagaylfpngerhlrtlealqgiyPQAlLAETLKIA 240
Cdd:cd07431 128 --LLLLAAEQGLPLVATNDVHYLNPEDAFAADVLTA--------------------------------FLA-VANTVRIA 172
|
....*..
gi 987521927 241 ERCRFDL 247
Cdd:cd07431 173 KECAVEL 179
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
7-255 |
9.17e-30 |
|
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: 119.85 E-value: 9.17e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 7 LHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI------RLEQGPK----- 75
Cdd:cd12113 5 LHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVyvapgsRFDKKDKkgdkr 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 76 ---LVLLAEDLEGYQNLCRLITRGRRQadkGHY---RLLREDLQQP----------LAGLLAIWLPNDHED---EQAAWL 136
Cdd:cd12113 85 yyhLVLLAKNEEGYRNLMKLVSLAYLE---GFYykpRIDKELLAKYseglialsacLAGEIPQLLLNGDEEearEAALEY 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 137 RERF-PQRLWLGVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNHLPVSEAGAYLFPNGE 215
Cdd:cd12113 162 RDIFgKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFDTDE 241
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 987521927 216 RHLRTLE---ALQGIYPQAlLAETLKIAERCRFDLEQLKYQYP 255
Cdd:cd12113 242 FYLKSPEemrELFPDVPEA-LENTLEIAERCNVELDFGKLHLP 283
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
769-855 |
2.80e-23 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 94.85 E-value: 2.80e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 769 RPVDVRHSGWDCSLEPfgqaqPAIRLGLRMIRGFREENARRIEQVREAEPFLDVHDLGRRAR--LDARALELLADAGALR 846
Cdd:pfam14579 5 LPPDINRSDWDFTVEG-----GGIRLGLGAIKGLGEAAAERIVEERENGPFKSLEDFARRVDlkLNKRVLEALIKAGAFD 79
|
....*....
gi 987521927 847 GLAGHRHKA 855
Cdd:pfam14579 80 SLGGNRRQL 88
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
7-256 |
4.71e-22 |
|
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: 97.16 E-value: 4.71e-22
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 7 LHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLE------QGPKLVLLA 80
Cdd:cd07433 5 LRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVAnpddadEPFRLTLLA 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 81 EDLEGYQNLCRLITRG-RRQADKGHYRLLREDLQQPLAGLLAI----------WLPNDHEDE---QAAWLRERFPQRLWL 146
Cdd:cd07433 85 QNEQGYKNLTELISRAyLEGQRNGGPHIKLEWLAEYSEGLIALsggrdgdigqLLLEGNPDLaeaLLQFLKKIFPDRFYL 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 147 GVELHRGADDDARLDKLLALASHLRLPPVACGDVHMHARGRRALQDCMTAIRNhlpvseaGAYLF-PNGER------HLR 219
Cdd:cd07433 165 ELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAE-------GRTLDdPRRPRryspqqYFK 237
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 987521927 220 TLEALQGIY---PQAlLAETLKIAERCRFDLEQLKYQYPR 256
Cdd:cd07433 238 SAEEMAELFadlPEA-IENTVEIAKRCNVRIELGKPFLPD 276
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
6-152 |
4.71e-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: 88.37 E-value: 4.71e-20
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 6 ELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI------------RLEQG 73
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVyvapgsreetekLLAKY 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 74 PKLVLLAEDLEGYQNLCRLITRGRRQADKghYRLLREDLQQPLAGLLA------------IWLPNDHED--EQAAWLRER 139
Cdd:pfam02811 81 FDLVLLAVHEVGYKNLIKLSSRAYLEGFK--PRIDKELLEEYFEGLIAlsgcvlghldliLLAPGDYEEaeELAEEYLEI 158
|
170
....*....|...
gi 987521927 140 FPQRlWLGVELHR 152
Cdd:pfam02811 159 FGED-GFYLEINT 170
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
935-1022 |
9.76e-18 |
|
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: 78.71 E-value: 9.76e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 935 RVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVRHVIAGRLHDLSpl 1012
Cdd:cd04485 1 TVAGLVTSVRRRRTKKGkrMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAERIEDLE-- 78
|
90
....*....|
gi 987521927 1013 ltglDVRSRD 1022
Cdd:cd04485 79 ----DARERL 84
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
6-68 |
2.44e-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: 2.44e-11
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 987521927 6 ELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI 68
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEA 63
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
6-120 |
1.81e-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: 1.81e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 6 ELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRLEQGPKLVLLAEDLEG 85
Cdd:cd07435 3 ELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYLVDPYHITILVKNQTG 82
|
90 100 110
....*....|....*....|....*....|....*
gi 987521927 86 YQNLCRLITRGRRQADKGHYRLLREDLQQPLAGLL 120
Cdd:cd07435 83 LKNLYKLVSLSHTKYFYRVPRIPKSELEKYREGLL 117
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
7-68 |
1.68e-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: 1.68e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 987521927 7 LHCLSNFSFqrGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEI 68
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 ... |
934-1009 |
7.79e-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: 7.79e-08
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 987521927 934 IRVAGLVVGRQRpqTASGITFITLEDEFGMVNVVVRHDLAERQRRPFLESRLLQVEGILESSGEVR-HVIAGRLHDL 1009
Cdd:pfam01336 1 VTVAGRVTSIRR--SGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKGGElELVVEEIELL 75
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
5-70 |
5.88e-07 |
|
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: 49.55 E-value: 5.88e-07
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 987521927 5 AELHCLSNFSFQrGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL 70
Cdd:cd07432 1 ADLHIHSVFSPD-SDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGVEVTL 65
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
6-70 |
9.00e-06 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 49.84 E-value: 9.00e-06
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 987521927 6 ELHCLSNFSFQRGASSAAELFARAARLGYRALAITDECSLAGIVRAWQAAREHQVQLIVGSEIRL 70
Cdd:PRK00448 336 ELHLHTKMSTMDAIPSVSELVKRAAKWGHKAIAITDHGVVQAFPEAYNAAKKAGIKVIYGVEANL 400
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
713-1001 |
1.80e-05 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 48.52 E-value: 1.80e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 713 FPESHAASFALLTYASSWLKRHEPAAFACALINSwpmgfYSPDQ-----LLQDARRHALQTRPVDVRHSGWDcsLEPFGQ 787
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTA-----NSGNQdkvqkYRENCQKMGIEVEPPDINRSGKD--FTPVGE 110
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 788 aqpAIRLGLRMIRGFrEENArrIEQVREA----EPFLDVHDLGRRARLDA---RALELLADAGALRGLAGHRHK------ 854
Cdd:PRK07373 111 ---KILFGLSAVRNL-GEGA--IESILKAreegGEFKSLADFCDRVDLRVvnrRALETLIYCGAFDKIEPNRQQlindle 184
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 855 --ARWAVASVEP----QLPLF-----------AEGTVIEESTVSLPLP--SRGEELLSDYALLGTTLGPHPLKLLRgqlK 915
Cdd:PRK07373 185 lvIDWAQKRAKEkasgQGNLFdllggntsnssAANNAFEQAPSAPPVAdfSLQEKLKLEKELLGFYVSEHPLKSIR---R 261
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 987521927 916 ARRCRDSRELAKLGHGRP---IRVAGLVVGRQRPQTASG--ITFITLEDEFGMVNVVVRHDLAER-QRRPFLESRLL--- 986
Cdd:PRK07373 262 PARLLSPINLSELEEQKEktkVSAVVMLNEVKKIVTKKGdpMAFLQLEDLSGQSEAVVFPKSYERiSELLQVDARLIiwg 341
|
330 340
....*....|....*....|..
gi 987521927 987 -------QVEGILESSGEVRHV 1001
Cdd:PRK07373 342 kvdrrddQVQLIVEDAEPIEEV 363
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
5-70 |
6.14e-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: 37.02 E-value: 6.14e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 987521927 5 AELHCLSNFSfQRGASSAAELFARAARLGYRALAITDECSLAGIV---------RAWQAAReHQVQLIVGSEIRL 70
Cdd:cd07309 1 VDLHTHTVFS-DGDHAKLTELVDKAKELGPDALAITDHGNLRGLAefntagk*nHIKAAEA-AGIKIIIGSEVNL 73
|
|
| |
