|
Name |
Accession |
Description |
Interval |
E-value |
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
2-1003 |
1.03e-128 |
|
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: 422.56 E-value: 1.03e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 2 IGCHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLsahLDAIRTVREMKKKGdmpedFKLILGNEAYLVDS 81
Cdd:TIGR00594 2 VHLHVHSDYS---LLDGAAKIKPLVKKAKELGMPALALTDHGNM---FGAVEFYKACKKAG-----IKPIIGCEAYVAPG 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 82 LEEVRDNYKSGVTKFpHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmervPTVKKdveELLSKDPGHIIATTACLGSEV 161
Cdd:TIGR00594 71 SRFDKKRISKGKEAY-HLILLAKNNTGYRNLMKLSSLAYLEGFYYK-----PRIDK---ELLEEHSEGLIALSACLSGEV 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 162 NIHLLKikafeetGDSQSIKQHKLkihefitWCIEVFGKDkFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHY 241
Cdd:TIGR00594 142 PYLLLL-------GEERLAEEAAL-------KYQEIFGDD-YYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHY 206
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 242 LRPEDRAIHQAFLNAKDGER---------EVDSFYeacfVQNVDEIHERMDYIDKevidqAIKNTMLIGEMIEDYTIEH- 311
Cdd:TIGR00594 207 INPEDAHAHEILLCIQTGKTlsdpkrlkfYSDEFY----LKSPEEMAELFADIPE-----ALANTVEIAERCNLVDVKLg 277
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 312 EPIIPKM-ELPNFKLrhlfkpaydqyeyikkmsesadeQDRYLLKLIEDGFEEKLKTSELtreafhKILNRINVELGELW 390
Cdd:TIGR00594 278 PPRLPSYqIPPDFTS-----------------------QEDYLRHLADEGLRERLAAGPP------GYKRRAQYKERLEY 328
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 391 EISQKLNQSMSSYYITVREIINiiWDDECGgdSLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDID 470
Cdd:TIGR00594 329 ELDVINSMGFPGYFLIVWDFIK--WAKDHG--IPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERISMPDID 404
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 471 IDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGSnwPLKHCFYGDKEt 550
Cdd:TIGR00594 405 IDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGK--TLKEALEASPQ- 481
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 551 grkpIKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFNDEYTKSNAMMKTPK-GAYITQFNMGDSEAMGSVKFDL 629
Cdd:TIGR00594 482 ----LRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEgGAISTQYDMDDLEAVGLLKMDF 557
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 630 LTIEALDKIRVTLDQLIENNEIEWqgSLKEtynkyihpdvIEYEDDKLWEMAGNGEIMDLFQFSTEvGHQSVVK-VKPKN 708
Cdd:TIGR00594 558 LGLKTLTLIQDATELIRKRRGIDL--DIAS----------IPLDDKKTFSLLQEGDTTGVFQLESR-GMQDLLKrLKPDG 624
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 709 LLEAAVTNSLMR--LMSDGEeqpVDTYVKYKNNlnkwyEEMTRYGLSEkeirvMERHLKDIYGVADTQEVVMQMVmdKDI 786
Cdd:TIGR00594 625 FEDIIAVNALYRpgPMESGM---IPDFIDRKHG-----REPIEYPHPL-----LEPILKETYGVIVYQEQVMQIA--QRL 689
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 787 ANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWN--VQFKrqfGYSFSLLHTLAYSIIALQELNL 864
Cdd:TIGR00594 690 AGFSLGEADLLRRAMGKKKAEEMAKEREKFVEGAEKNGYDPEIAENLFDliEKFA---GYGFNKSHAAAYGMISYQTAYL 766
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 865 NYRYnPLYWNTACLTVNSGGIDtedtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFRtdINNNSILFGLK 944
Cdd:TIGR00594 767 KANY-PAEFMAALLTSEINDIE----------------KVAVYIAEAKKMGIEVLPPDINESGQDFA--VEDKGIRYGLG 827
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 75090791 945 GMNGIGDDVIHHIVLNR----PYSDFNDFIERMFKSGIIKKgQVIQLIKGGCFDSFG-NRQEIM 1003
Cdd:TIGR00594 828 AIKGVGESVVKSIIEERnkngPFKSLFDFINRVDFKKLNKK-VLEALIKAGAFDSLGpNRKTLL 890
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
5-1003 |
1.46e-125 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 414.85 E-value: 1.46e-125
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGdmpedFKLILGNEAYLvdSLEE 84
Cdd:COG0587 9 HVHSEYS---LLDGASRPEELVARAAELGMPALAITDHGNLFG---AVRFYKAAKKAG-----IKPIIGCELYV--APGS 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYksgvtkfPHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmerVPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:COG0587 76 RDDAG-------YHLVLLAKNREGYRNLCRLLSRAYLEGFYKG----KPRIDL---EDLAEHSEGLIALSGCLAGEVGQA 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLK--IKAFEETgdsqsikqhklkihefITWCIEVFGkDKFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHYL 242
Cdd:COG0587 142 LLAgqYDEAEAA----------------LARLKDIFG-DRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYL 204
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 243 RPEDRAIHQAF--------LNAKDGEREV-DSFYeacfVQNVDEIHERmdYIDkevIDQAIKNTMLIGEMIEDYTIEHEP 313
Cdd:COG0587 205 NPEDAEAHDVLlcirtgktLDDPGRRRFAnAERY----LKSPEEMAEL--FAD---LPEALANTLEIAERCNFSLDLGKY 275
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 314 IIPKMELPnfklrhlfkpaydqyeyikkmsESADEQDrYLLKLIEDGFEEKLKtsELTREafhKILNRINVELGelweIS 393
Cdd:COG0587 276 QLPKFPVP----------------------EGETEEE-YLRKLAEEGLERRYP--EGIPE---EYRERLEYELD----VI 323
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 394 QKLNqsMSSYYITVREIIN------IiwddecggdsLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLP 467
Cdd:COG0587 324 EKMG--FPGYFLIVWDFIRwarsngI----------PVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMP 391
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 468 DIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGsnWPLKHCFYGD 547
Cdd:COG0587 392 DIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPG--ITLEKALEEE 469
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 548 KEtgrkpIKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFND---EYTksnAMMKTP-KGAYITQFNMGDSEAMG 623
Cdd:COG0587 470 PE-----LRELYDSDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDpltDLV---PLERAAmGGRPVTQFDKDDVEALG 541
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 624 SVKFDLLTIEALDKIRVTLDqLIenneiewqgslKETYNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQF-STevGHQSVV 702
Cdd:COG0587 542 LLKFDFLGLRTLTVIRDALD-LI-----------KENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLeSR--GMRSLL 607
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 703 K-VKPKNLLEAAVTNSLMR---LMSDGeeqpVDTYVKYKNNLNKWyeemtRYgLSEKeirvMERHLKDIYGVADTQEVVM 778
Cdd:COG0587 608 KrLKPDCFEDLVALVALYRpgpMQGGM----VPPYIRRKHGREPV-----EY-PHPE----LEPILKETYGVIVYQEQVM 673
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 779 QMVMdkDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWNvQFKRqF-GYSF--SllHTLAYS 855
Cdd:COG0587 674 QIAQ--VLAGFSLGEADLLRRAMGKKKKEEMAKQREKFVEGAVANGYDEEFAEEIFD-QIEK-FaGYGFnkS--HAAAYA 747
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 856 IIALQELNL--NYrynPLYWNTACLTVNSGGIDtedtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFRTD 933
Cdd:COG0587 748 LLAYQTAYLkaHY---PAEFMAALLNSQPMGFY----------------KPAQYVQEARRHGIEVLPPDVNESDWDFTVE 808
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 75090791 934 INNNsILFGLKGMNGIGDDVIHHIV----LNRPYSDFNDFIERMfKSGIIKKGQVIQLIKGGCFDSFG-NRQEIM 1003
Cdd:COG0587 809 PGGA-IRLGLGAIKGVGEAAAEAIVaareENGPFTSLFDFCRRV-DLRKLNKRVLEALIKAGAFDSLGpNRRQLL 881
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
5-1003 |
1.47e-101 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 349.79 E-value: 1.47e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGDMPedfklILGNEAYLvdSLEE 84
Cdd:PRK05673 6 HVHSEYS---LLDGAAKIKPLVKKAAELGMPAVALTDHGNLFG---AVEFYKAAKGAGIKP-----IIGCEAYV--APEK 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYKSGvtKFPHFLMLAMDPKGHEQLRILSSQAWENSFYTGTmervPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:PRK05673 73 KDDVSGGG--AYTHLTLLAKNETGYRNLFKLSSRAYLEGQYGYK----PRIDR---EWLAEHSEGLIALSGCPSGEVGTA 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLKiKAFEEtgdsqsIKQHKLKIHEfitwcieVFGkDKFFIELQPA-LSEEQIYcNKKLIDIANGYDLQMIVTTDAHYLR 243
Cdd:PRK05673 144 LLA-GQYDE------AEEAAAEYQE-------IFG-DRFYLELMRHgLPIERRV-EHALLELAKELGLPLVATNDVHYLT 207
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 244 PEDRAIHQAFLNAKDGE---------REVDSFYeacfVQNVDEIHERMDyiDkevIDQAIKNTMLIGEMIEDYTIEHEPI 314
Cdd:PRK05673 208 PEDAEAHEALLCIAEGKtlddpdrfrFYSPEQY----LKSAEEMRELFA--D---LPEALDNTVEIAERCNVEVRLGKPF 278
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 315 ipkmeLPNFKLRhlfkpaydqyeyikkmsESADEQDrYLLKLIEDGFEEKLKTsELTREAFHKILNRINVELGElweISQ 394
Cdd:PRK05673 279 -----LPRFPTP-----------------DGETEED-YLRKEAKEGLEERLAF-LFPDEERPEYVERLEYELDV---IIQ 331
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 395 KlnqSMSSYYITVREIINiiWDDECGgdSLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTE 474
Cdd:PRK05673 332 M---GFPGYFLIVADFIQ--WAKDNG--IPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVSMPDFDIDFC 404
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 475 GSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGsnWPLKHCFygdKETGRkp 554
Cdd:PRK05673 405 QDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPG--ITLAKAY---EEEPE-- 477
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 555 IKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFNDEYTKSNAMMKTPK-GAYITQFNMGDSEAMGSVKFDL---- 629
Cdd:PRK05673 478 LRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDsGMPVTQFDMKDVEAAGLVKFDFlglr 557
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 630 -LTIealdkirvtLDQLIENneiewqgsLKETYNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTEvGHQSVVK-VKPK 707
Cdd:PRK05673 558 tLTI---------IDDALKL--------IKKRRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESR-GMRDLLKrLKPD 619
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 708 NL--LEAAVtnSLMRlmsdgeeqP-------VDTYVKYKNNLNKW---YEEMtryglseKEIrvmerhLKDIYGVADTQE 775
Cdd:PRK05673 620 CFedIIALV--ALYR--------PgpmesgmIPNFIDRKHGREEIeypHPEL-------EPI------LKETYGIIVYQE 676
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 776 VVMQMVmdKDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWNVQFKrqF-GYSFSLLHTLAY 854
Cdd:PRK05673 677 QVMQIA--QVLAGYSLGGADLLRRAMGKKKPEEMAKQREIFVEGAKKNGIDEEAADAIFDLLEK--FaGYGFNKSHAAAY 752
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 855 SIIALQELNL--NYrynPLYWNTACLTvnSGGIDTEdtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFRT 932
Cdd:PRK05673 753 ALVSYQTAYLkaHY---PAEFMAALLT--SDMDNTD--------------KVAVYLDECRRMGIKVLPPDVNESLYDFTV 813
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 75090791 933 DinNNSILFGLKGMNGIGDDVIHHIVLNR----PYSDFNDFIERMFKSGIIKKgqVIQ-LIKGGCFDSFG-NRQEIM 1003
Cdd:PRK05673 814 V--DGDIRYGLGAIKGVGEGAVEAIVEAReeggPFKDLFDFCARVDLKKVNKR--VLEsLIKAGAFDSLGpNRAALL 886
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
352-630 |
2.06e-81 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 267.83 E-value: 2.06e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 352 YLLKLIEDGFEEKLKtseltREAFHKILNRINVELGELWEISqklnqsMSSYYITVREIINIIWDDECggdsLVGAARGS 431
Cdd:pfam07733 2 YLRKLVEEGLKERYG-----EGLPEEYQERLEYELNVIIKMG------FAGYFLIVWDLVKWAKDNGI----LVGPGRGS 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 432 AAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQT 511
Cdd:pfam07733 67 AAGSLVAYLLGITEVDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRD 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 512 ACRGLGIDNDISQYLSGMIPFERGsnwplkhcfYGDKETGRKP-IKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVI 590
Cdd:pfam07733 147 VGRALGLPYDEIDRLAKLIPFELG---------ILEKALEEEPeLKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVV 217
|
250 260 270 280
....*....|....*....|....*....|....*....|.
gi 75090791 591 IFNDEYTKSNAMMKTP-KGAYITQFNMGDSEAMGSVKFDLL 630
Cdd:pfam07733 218 ISPDPLTDFVPLYKADdDDRPVTQFDKDDLEDLGLLKMDFL 258
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
5-316 |
2.38e-42 |
|
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: 156.83 E-value: 2.38e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGdmpedFKLILGNEAYLVDSLEE 84
Cdd:cd12113 6 HVHTEYS---LLDGAIRIKDLVKRAKELGMPALAITDHGNMFG---AIEFYKAAKKAG-----IKPIIGCEVYVAPGSRF 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYKSGVTKFpHFLMLAMDPKGHEQLRILSSQAWENSFYtgtmeRVPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:cd12113 75 DKKDKKGDKRYY-HLVLLAKNEEGYRNLMKLVSLAYLEGFY-----YKPRIDK---ELLAKYSEGLIALSACLAGEIPQL 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLKikafeetGDsqsIKQHKLKIHEFItwciEVFGKDKFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHYLRP 244
Cdd:cd12113 146 LLN-------GD---EEEAREAALEYR----DIFGKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNK 211
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 245 EDRAIHQAFL------NAKDGER---EVDSFYeacfVQNVDEIHERMDYidkevIDQAIKNTMLIGEMIEDYTIEHEPII 315
Cdd:cd12113 212 EDAEAHDVLLciqtgkTLDDPNRmrfDTDEFY----LKSPEEMRELFPD-----VPEALENTLEIAERCNVELDFGKLHL 282
|
.
gi 75090791 316 P 316
Cdd:cd12113 283 P 283
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
4-80 |
1.84e-13 |
|
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: 66.52 E-value: 1.84e-13
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 75090791 4 CHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLsahLDAIRTVREMKKKGdmpedFKLILGNEAYLVD 80
Cdd:smart00481 2 LHVHSDYS---LLDGALSPEELVKRAKELGLKAIAITDHGNL---FGAVEFYKAAKKAG-----IKPIIGLEANIVD 67
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
2-1003 |
1.03e-128 |
|
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: 422.56 E-value: 1.03e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 2 IGCHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLsahLDAIRTVREMKKKGdmpedFKLILGNEAYLVDS 81
Cdd:TIGR00594 2 VHLHVHSDYS---LLDGAAKIKPLVKKAKELGMPALALTDHGNM---FGAVEFYKACKKAG-----IKPIIGCEAYVAPG 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 82 LEEVRDNYKSGVTKFpHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmervPTVKKdveELLSKDPGHIIATTACLGSEV 161
Cdd:TIGR00594 71 SRFDKKRISKGKEAY-HLILLAKNNTGYRNLMKLSSLAYLEGFYYK-----PRIDK---ELLEEHSEGLIALSACLSGEV 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 162 NIHLLKikafeetGDSQSIKQHKLkihefitWCIEVFGKDkFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHY 241
Cdd:TIGR00594 142 PYLLLL-------GEERLAEEAAL-------KYQEIFGDD-YYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHY 206
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 242 LRPEDRAIHQAFLNAKDGER---------EVDSFYeacfVQNVDEIHERMDYIDKevidqAIKNTMLIGEMIEDYTIEH- 311
Cdd:TIGR00594 207 INPEDAHAHEILLCIQTGKTlsdpkrlkfYSDEFY----LKSPEEMAELFADIPE-----ALANTVEIAERCNLVDVKLg 277
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 312 EPIIPKM-ELPNFKLrhlfkpaydqyeyikkmsesadeQDRYLLKLIEDGFEEKLKTSELtreafhKILNRINVELGELW 390
Cdd:TIGR00594 278 PPRLPSYqIPPDFTS-----------------------QEDYLRHLADEGLRERLAAGPP------GYKRRAQYKERLEY 328
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 391 EISQKLNQSMSSYYITVREIINiiWDDECGgdSLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDID 470
Cdd:TIGR00594 329 ELDVINSMGFPGYFLIVWDFIK--WAKDHG--IPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERISMPDID 404
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 471 IDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGSnwPLKHCFYGDKEt 550
Cdd:TIGR00594 405 IDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGK--TLKEALEASPQ- 481
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 551 grkpIKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFNDEYTKSNAMMKTPK-GAYITQFNMGDSEAMGSVKFDL 629
Cdd:TIGR00594 482 ----LRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEgGAISTQYDMDDLEAVGLLKMDF 557
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 630 LTIEALDKIRVTLDQLIENNEIEWqgSLKEtynkyihpdvIEYEDDKLWEMAGNGEIMDLFQFSTEvGHQSVVK-VKPKN 708
Cdd:TIGR00594 558 LGLKTLTLIQDATELIRKRRGIDL--DIAS----------IPLDDKKTFSLLQEGDTTGVFQLESR-GMQDLLKrLKPDG 624
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 709 LLEAAVTNSLMR--LMSDGEeqpVDTYVKYKNNlnkwyEEMTRYGLSEkeirvMERHLKDIYGVADTQEVVMQMVmdKDI 786
Cdd:TIGR00594 625 FEDIIAVNALYRpgPMESGM---IPDFIDRKHG-----REPIEYPHPL-----LEPILKETYGVIVYQEQVMQIA--QRL 689
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 787 ANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWN--VQFKrqfGYSFSLLHTLAYSIIALQELNL 864
Cdd:TIGR00594 690 AGFSLGEADLLRRAMGKKKAEEMAKEREKFVEGAEKNGYDPEIAENLFDliEKFA---GYGFNKSHAAAYGMISYQTAYL 766
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 865 NYRYnPLYWNTACLTVNSGGIDtedtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFRtdINNNSILFGLK 944
Cdd:TIGR00594 767 KANY-PAEFMAALLTSEINDIE----------------KVAVYIAEAKKMGIEVLPPDINESGQDFA--VEDKGIRYGLG 827
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|....
gi 75090791 945 GMNGIGDDVIHHIVLNR----PYSDFNDFIERMFKSGIIKKgQVIQLIKGGCFDSFG-NRQEIM 1003
Cdd:TIGR00594 828 AIKGVGESVVKSIIEERnkngPFKSLFDFINRVDFKKLNKK-VLEALIKAGAFDSLGpNRKTLL 890
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
5-1003 |
1.46e-125 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 414.85 E-value: 1.46e-125
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGdmpedFKLILGNEAYLvdSLEE 84
Cdd:COG0587 9 HVHSEYS---LLDGASRPEELVARAAELGMPALAITDHGNLFG---AVRFYKAAKKAG-----IKPIIGCELYV--APGS 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYksgvtkfPHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmerVPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:COG0587 76 RDDAG-------YHLVLLAKNREGYRNLCRLLSRAYLEGFYKG----KPRIDL---EDLAEHSEGLIALSGCLAGEVGQA 141
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLK--IKAFEETgdsqsikqhklkihefITWCIEVFGkDKFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHYL 242
Cdd:COG0587 142 LLAgqYDEAEAA----------------LARLKDIFG-DRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYL 204
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 243 RPEDRAIHQAF--------LNAKDGEREV-DSFYeacfVQNVDEIHERmdYIDkevIDQAIKNTMLIGEMIEDYTIEHEP 313
Cdd:COG0587 205 NPEDAEAHDVLlcirtgktLDDPGRRRFAnAERY----LKSPEEMAEL--FAD---LPEALANTLEIAERCNFSLDLGKY 275
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 314 IIPKMELPnfklrhlfkpaydqyeyikkmsESADEQDrYLLKLIEDGFEEKLKtsELTREafhKILNRINVELGelweIS 393
Cdd:COG0587 276 QLPKFPVP----------------------EGETEEE-YLRKLAEEGLERRYP--EGIPE---EYRERLEYELD----VI 323
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 394 QKLNqsMSSYYITVREIIN------IiwddecggdsLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLP 467
Cdd:COG0587 324 EKMG--FPGYFLIVWDFIRwarsngI----------PVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMP 391
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 468 DIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGsnWPLKHCFYGD 547
Cdd:COG0587 392 DIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPG--ITLEKALEEE 469
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 548 KEtgrkpIKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFND---EYTksnAMMKTP-KGAYITQFNMGDSEAMG 623
Cdd:COG0587 470 PE-----LRELYDSDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDpltDLV---PLERAAmGGRPVTQFDKDDVEALG 541
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 624 SVKFDLLTIEALDKIRVTLDqLIenneiewqgslKETYNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQF-STevGHQSVV 702
Cdd:COG0587 542 LLKFDFLGLRTLTVIRDALD-LI-----------KENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLeSR--GMRSLL 607
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 703 K-VKPKNLLEAAVTNSLMR---LMSDGeeqpVDTYVKYKNNLNKWyeemtRYgLSEKeirvMERHLKDIYGVADTQEVVM 778
Cdd:COG0587 608 KrLKPDCFEDLVALVALYRpgpMQGGM----VPPYIRRKHGREPV-----EY-PHPE----LEPILKETYGVIVYQEQVM 673
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 779 QMVMdkDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWNvQFKRqF-GYSF--SllHTLAYS 855
Cdd:COG0587 674 QIAQ--VLAGFSLGEADLLRRAMGKKKKEEMAKQREKFVEGAVANGYDEEFAEEIFD-QIEK-FaGYGFnkS--HAAAYA 747
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 856 IIALQELNL--NYrynPLYWNTACLTVNSGGIDtedtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFRTD 933
Cdd:COG0587 748 LLAYQTAYLkaHY---PAEFMAALLNSQPMGFY----------------KPAQYVQEARRHGIEVLPPDVNESDWDFTVE 808
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 75090791 934 INNNsILFGLKGMNGIGDDVIHHIV----LNRPYSDFNDFIERMfKSGIIKKGQVIQLIKGGCFDSFG-NRQEIM 1003
Cdd:COG0587 809 PGGA-IRLGLGAIKGVGEAAAEAIVaareENGPFTSLFDFCRRV-DLRKLNKRVLEALIKAGAFDSLGpNRRQLL 881
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
5-1003 |
1.47e-101 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 349.79 E-value: 1.47e-101
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGDMPedfklILGNEAYLvdSLEE 84
Cdd:PRK05673 6 HVHSEYS---LLDGAAKIKPLVKKAAELGMPAVALTDHGNLFG---AVEFYKAAKGAGIKP-----IIGCEAYV--APEK 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYKSGvtKFPHFLMLAMDPKGHEQLRILSSQAWENSFYTGTmervPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:PRK05673 73 KDDVSGGG--AYTHLTLLAKNETGYRNLFKLSSRAYLEGQYGYK----PRIDR---EWLAEHSEGLIALSGCPSGEVGTA 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLKiKAFEEtgdsqsIKQHKLKIHEfitwcieVFGkDKFFIELQPA-LSEEQIYcNKKLIDIANGYDLQMIVTTDAHYLR 243
Cdd:PRK05673 144 LLA-GQYDE------AEEAAAEYQE-------IFG-DRFYLELMRHgLPIERRV-EHALLELAKELGLPLVATNDVHYLT 207
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 244 PEDRAIHQAFLNAKDGE---------REVDSFYeacfVQNVDEIHERMDyiDkevIDQAIKNTMLIGEMIEDYTIEHEPI 314
Cdd:PRK05673 208 PEDAEAHEALLCIAEGKtlddpdrfrFYSPEQY----LKSAEEMRELFA--D---LPEALDNTVEIAERCNVEVRLGKPF 278
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 315 ipkmeLPNFKLRhlfkpaydqyeyikkmsESADEQDrYLLKLIEDGFEEKLKTsELTREAFHKILNRINVELGElweISQ 394
Cdd:PRK05673 279 -----LPRFPTP-----------------DGETEED-YLRKEAKEGLEERLAF-LFPDEERPEYVERLEYELDV---IIQ 331
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 395 KlnqSMSSYYITVREIINiiWDDECGgdSLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTE 474
Cdd:PRK05673 332 M---GFPGYFLIVADFIQ--WAKDNG--IPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVSMPDFDIDFC 404
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 475 GSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGsnWPLKHCFygdKETGRkp 554
Cdd:PRK05673 405 QDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPG--ITLAKAY---EEEPE-- 477
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 555 IKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFNDEYTKSNAMMKTPK-GAYITQFNMGDSEAMGSVKFDL---- 629
Cdd:PRK05673 478 LRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDsGMPVTQFDMKDVEAAGLVKFDFlglr 557
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 630 -LTIealdkirvtLDQLIENneiewqgsLKETYNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTEvGHQSVVK-VKPK 707
Cdd:PRK05673 558 tLTI---------IDDALKL--------IKKRRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESR-GMRDLLKrLKPD 619
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 708 NL--LEAAVtnSLMRlmsdgeeqP-------VDTYVKYKNNLNKW---YEEMtryglseKEIrvmerhLKDIYGVADTQE 775
Cdd:PRK05673 620 CFedIIALV--ALYR--------PgpmesgmIPNFIDRKHGREEIeypHPEL-------EPI------LKETYGIIVYQE 676
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 776 VVMQMVmdKDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWNVQFKrqF-GYSFSLLHTLAY 854
Cdd:PRK05673 677 QVMQIA--QVLAGYSLGGADLLRRAMGKKKPEEMAKQREIFVEGAKKNGIDEEAADAIFDLLEK--FaGYGFNKSHAAAY 752
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 855 SIIALQELNL--NYrynPLYWNTACLTvnSGGIDTEdtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFRT 932
Cdd:PRK05673 753 ALVSYQTAYLkaHY---PAEFMAALLT--SDMDNTD--------------KVAVYLDECRRMGIKVLPPDVNESLYDFTV 813
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 75090791 933 DinNNSILFGLKGMNGIGDDVIHHIVLNR----PYSDFNDFIERMFKSGIIKKgqVIQ-LIKGGCFDSFG-NRQEIM 1003
Cdd:PRK05673 814 V--DGDIRYGLGAIKGVGEGAVEAIVEAReeggPFKDLFDFCARVDLKKVNKR--VLEsLIKAGAFDSLGpNRAALL 886
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
2-1004 |
2.89e-94 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 329.76 E-value: 2.89e-94
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 2 IGCHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGDMPedfklILGNEAYLVDS 81
Cdd:PRK07374 4 VPLHNHSDYS---LLDGASQLPKMVERAKELGMPAIALTDHGVMYG---AIELLKLCKGKGIKP-----IIGNEMYVING 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 82 leEVRDNyKSGVTKFPHFLMLAMDPKGHEQLRILSSQAWENSFY-TGTMERvPTVKKdveELLSKDPGHIIATTACLGSE 160
Cdd:PRK07374 73 --SIDDP-QPKKEKRYHLVVLAKNATGYKNLVKLTTISHLNGMRgRGIFSR-PCIDK---ELLKQYSEGLIVSTACLGGE 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 161 VnihllkikafeetgdSQSIKQHKLKIHEFIT-WCIEVFGKDkFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDA 239
Cdd:PRK07374 146 I---------------PQAILRGRPDVARDVAaWYKEVFGDD-FYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDA 209
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 240 HYLRPEDRAIHQAFLNAKDGEREVDS----FYEACFVQNVDEIhERM--DYIDKEVIDQAIKNTMLIGEMIEDYTIEHEP 313
Cdd:PRK07374 210 HYLSKNDVEAHDALLCVLTGKLISDEkrlrYTGTEYIKSEEEM-LRLfrDHLDPEVIQEAIANTVEVAEKVEEYDILGTY 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 314 IIPKMELPnfklrhlfkPAYDQYEYIKKMSEsadeqdryllklieDGFEEKLKTSELTrEAFHKILNRINVELgelweis 393
Cdd:PRK07374 289 RMPRFPIP---------EGHTAVSYLTEVTE--------------QGLLKRLKLNSLD-EIDENYKERLSYEL------- 337
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 394 qKLNQSM--SSYYITVREIINIIWDDECGgdslVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDI 471
Cdd:PRK07374 338 -KIIEQMgfPTYFLVVWDYIRFAREQGIP----VGPGRGSAAGSLVAYALGITNIDPVKNGLLFERFLNPERKSMPDIDT 412
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 472 DTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGSNWPLKHCFygDKETg 551
Cdd:PRK07374 413 DFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIPVVRGKPAKLKAMI--GKES- 489
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 552 rkPIKEFIREVEQYPNLK---ETALKIEGlTNKR-SSHAAGVIIFNDEYTKSNAMMKTPKGAYITQFNMGDSEAMGSVKF 627
Cdd:PRK07374 490 --PSPEFREKYEKDPRVKkwvDMAMRIEG-TNKTfGVHAAGVVIASDPLDELVPLQRNNDGQVITQYFMEDIESLGLLKM 566
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 628 DLLTIEALDKIRVTLDqLIEnneiewqgslkETYNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTEVGHQSVVKVKPK 707
Cdd:PRK07374 567 DFLGLKNLTMIEKTLE-LVE-----------QSTGERIDPDNLPLDDEKTFELLARGDLEGIFQLESSGMRQVVRDLKPS 634
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 708 NLLEaavTNSLMRLMSDGeeqPVDTYV--KYKNnlNKWYEEMTRYGLSekeirVMERHLKDIYGVADTQEVVMQMVmdKD 785
Cdd:PRK07374 635 SLED---ISSILALYRPG---PLDAGLipKFIN--RKHGREAIDFAHP-----LLEPILTETYGIMVYQEQIMKIA--QD 699
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 786 IANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWN--VQFKRqfgYSFSLLHTLAYSIIALQELN 863
Cdd:PRK07374 700 LAGYSLGQADLLRRAMGKKKVSEMQKHRGIFVEGASKRGVDEKVADELFDqmVLFAE---YCFNKSHSTAYGAVTYQTAY 776
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 864 LNYRYnPLYWNTACLTVNSGGIDtedtkdnkktaatnygKVASAIGNIRQRGIKIDLPDINKADFGFrtDINNNSILFGL 943
Cdd:PRK07374 777 LKAHY-PVAYMAALLTVNAGSSD----------------KVQRYISNCNSMGIEVMPPDINRSGIDF--TPKGNRILFGL 837
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 75090791 944 KGMNGIGDDVIHHIVLNR----PYSDFNDFIERMfKSGIIKKGQVIQLIKGGCFDSF---GNRQEIMK 1004
Cdd:PRK07374 838 SAVKNLGDGAIRNIIAARdsdgPFKSLADLCDRL-PSNVLNRRSLESLIHCGALDAFspnANRAQLIA 904
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
5-1010 |
5.38e-92 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 322.61 E-value: 5.38e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDairTVREMKKKGdmpedFKLILGNEAYLV----D 80
Cdd:PRK06826 9 HVHTEYS---LLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVD---FYKAAKKQG-----IKPIIGCEVYVAprsrF 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 81 SLEEVRDNYKSgvtkfpHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmervPTVKKdveELLSKDPGHIIATTACLGSE 160
Cdd:PRK06826 78 DKEPDIDNETY------HLVLLAKNETGYKNLMKIVSKAFTEGFYYK-----PRVDH---ELLKEHSEGLIALSACLAGE 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 161 VNIHLLKikafeetGDSQSIKqhklkihEFITWCIEVFGKDKFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAH 240
Cdd:PRK06826 144 VPRYILK-------GNYEKAK-------EAALFYKDIFGKENFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVH 209
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 241 YLRPEDRAIHQAFL------NAKDGER---EVDSFYeacfVQNVDEIHERMDYIDkevidQAIKNTMLIGEMIEdYTIE- 310
Cdd:PRK06826 210 YIRKEDAKAHDVLLciqtgkTVDDENRmrfPSDEFY----LKSPEEMYELFSYVP-----EALENTVKIAERCN-VEFEf 279
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 311 HEPIIPKMELPnfklrhlfkPAYDQYEYIKKmsesadeqdryllkLIEDGFEEKLKTSEltreafHKILNRINVELGElw 390
Cdd:PRK06826 280 GKSKLPKFPLP---------EGYDPYEYLRE--------------LCYEGLKKRYPNPS------EELIERLEYELSV-- 328
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 391 eISQklnqsM--SSYYITVREIINIIWDDECggdsLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPD 468
Cdd:PRK06826 329 -IKQ-----MgyVDYFLIVWDFIRFARENGI----MVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSMPD 398
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 469 IDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGI-----DNdisqyLSGMIPFERG-------- 535
Cdd:PRK06826 399 IDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYpyaevDR-----IAKMIPTELGitidkale 473
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 536 SNWPLKHCFYGDKEtgrkpIKEFIreveqypnlkETALKIEGLTNKRSSHAAGVIIFNDEYTKSNAMMKTpKGAYITQFN 615
Cdd:PRK06826 474 LNPELKEAYENDER-----VRELI----------DTARALEGLPRHASTHAAGVVISSEPLVEYVPLQKN-DGSIVTQFT 537
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 616 MGDSEAMGSVKFDLLTIEALDKIRVTLDQLIENNEIEwqgslketynkyIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTE 695
Cdd:PRK06826 538 MTTLEELGLLKMDFLGLRTLTVIRDAVDLIKKNRGIE------------IDLDKIDYDDKKVYKMIGEGKTVGVFQLESA 605
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 696 vGHQSVVK-VKPKNLLEAAVTNSLMRlmsDGEEQPVDTYVKYKNNLNKwyeemTRYgLSEKeirvMERHLKDIYGVADTQ 774
Cdd:PRK06826 606 -GMRSFMKeLKPDSLEDIIAGISLYR---PGPMDSIPRYIKNKNNPEK-----IEY-LHPK----LEPILKVTYGCIVYQ 671
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 775 EVVMQMVmdKDIANFDIKESNYLRKSIAKKKEDVLkEVEELFFKKGKEI---------GTSDNLLNYVWN--VQFKrqfG 843
Cdd:PRK06826 672 EQVMQIV--RDLAGYSMGRSDLVRRAMSKKKHDVM-EEERKNFIYGIVDeggpgcirnGIDEETANKIFDsmMDFA---S 745
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 844 YSFSLLHTLAYSIIALQELNLNYRYnPLYWNTACLTvnsggidtedtkdnkkTAATNYGKVASAIGNIRQRGIKIDLPDI 923
Cdd:PRK06826 746 YAFNKSHAAAYAVVAYQTAYLKRYY-PVEFMAALLN----------------SVMGNSDKVAFYIEECRRLGIEVLPPDI 808
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 924 NKADFGFrtDINNNSILFGLKGMNGIGDDVIHHIVLNR----PYSDFNDFIERMfKSGIIKKGQVIQLIKGGCFDSFG-N 998
Cdd:PRK06826 809 NESYSKF--TVEGDKIRFGLAAVKNVGENAIDSIVEERekkgKFKSLVDFCERV-DTSQINKRAVESLIKAGAFDSLGvY 885
|
1050
....*....|..
gi 75090791 999 RQEIMKAFISLI 1010
Cdd:PRK06826 886 RSQLLAVYEKIL 897
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
352-630 |
2.06e-81 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 267.83 E-value: 2.06e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 352 YLLKLIEDGFEEKLKtseltREAFHKILNRINVELGELWEISqklnqsMSSYYITVREIINIIWDDECggdsLVGAARGS 431
Cdd:pfam07733 2 YLRKLVEEGLKERYG-----EGLPEEYQERLEYELNVIIKMG------FAGYFLIVWDLVKWAKDNGI----LVGPGRGS 66
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 432 AAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQT 511
Cdd:pfam07733 67 AAGSLVAYLLGITEVDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRD 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 512 ACRGLGIDNDISQYLSGMIPFERGsnwplkhcfYGDKETGRKP-IKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVI 590
Cdd:pfam07733 147 VGRALGLPYDEIDRLAKLIPFELG---------ILEKALEEEPeLKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVV 217
|
250 260 270 280
....*....|....*....|....*....|....*....|.
gi 75090791 591 IFNDEYTKSNAMMKTP-KGAYITQFNMGDSEAMGSVKFDLL 630
Cdd:pfam07733 218 ISPDPLTDFVPLYKADdDDRPVTQFDKDDLEDLGLLKMDFL 258
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
6-1005 |
8.64e-79 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 283.23 E-value: 8.64e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 6 CHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGDMPedfklILGNEAYLVDSLEEv 85
Cdd:PRK06920 8 CQTVFS---LLKSACKIDELVVRAKELGYSSLAITDENVMYG---VIPFYKACKKHGIHP-----IIGLTASIFSEEEE- 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 86 rdnyksgvTKFPhFLMLAMDPKGHEQLRILSS-----------QAWENSFYTGTMERVPTVKKDVEELLSKDpghiiatt 154
Cdd:PRK06920 76 --------KSYP-LVLLAENEIGYQNLLKISSsimtkskegipKKWLAHYAKGLIAISPGKDGEIEQLLLED-------- 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 155 aclgsevnihllkikAFEETgdsqsikqhklkiHEFITWCIEVFGKDKFFIELQPALSEEQIycNKKLIDIANGYDLQMI 234
Cdd:PRK06920 139 ---------------KESQA-------------EEVARAYQNMFGNFYMSLQHHAIQDELLL--QEKLPEFSNRVNIPVV 188
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 235 VTTDAHYLRPEDRAIHQAFLNAKDGEREVDSFYEAcfvQNVDEIH----ERMDYIDKEViDQAIKNTMLIGEMIEDYTIE 310
Cdd:PRK06920 189 ATNDVRYINQSDALVHECLLSVESGTKMTDPDRPR---LKTDQYYlkssDEMEALFSHV-PEAIYNTVEIAERCRVEIPF 264
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 311 HEPIIPKMELPNfklrhlfkpaydqyeyikkmSESADEqdrYLLKLIEDGFEEKLKTSEltrEAFhkiLNRINVELgelw 390
Cdd:PRK06920 265 HVNQLPKFPVPS--------------------NETADM---YLRRVCEEGLQKRYGTPK---EVH---INRLNHEL---- 311
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 391 EISQKLNqsMSSYYItvreiinIIWD-----DECGgdSLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPD 465
Cdd:PRK06920 312 NVISRMG--FSDYFL-------IVWDfmkyaHENH--ILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVT 380
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 466 LPDIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGSNwpLKhcfy 545
Cdd:PRK06920 381 LPDIDIDFPDTRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGIT--LK---- 454
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 546 gDKETGRKPIKEFIREVEQYPNLKETALKIEGLTNKRSSHAAGVIIFNDEYTKSNAMMKTPKGAYITQFNMGDSEAMGSV 625
Cdd:PRK06920 455 -DAYEESQSLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLL 533
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 626 KFDLLTIEALdkirvtldQLIEN--NEIEwqgslKETyNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTEvGHQSVVK 703
Cdd:PRK06920 534 KMDFLGLRNL--------TLLENiiKFIE-----QKT-GKEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESS-GMRNVLR 598
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 704 -VKPKNLLEAAVTNSLMRlmsDGEEQPVDTYVKYKN---NLNKWYEEMtryglseKEIrvmerhLKDIYGVADTQEVVMQ 779
Cdd:PRK06920 599 gLKPNEFEDIVAVNSLYR---PGPMEQIPTFIESKHgkrKIEYLHPDL-------KPI------LERTYGVIVYQEQIMQ 662
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 780 MVmdKDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLNYVWN--VQFKrqfGYSFSLLHTLAYSII 857
Cdd:PRK06920 663 IA--SKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDliVRFA---NYGFNRSHAVAYSMI 737
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 858 ALQELNLNYRYnPLYWNTACLTvnsggidtedtkdnkkTAATNYGKVASAIGNIRQRGIKIDLPDINKADFGFRtdINNN 937
Cdd:PRK06920 738 GYQLAYLKANY-TLEFMTALLS----------------SAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQ--IEGN 798
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 75090791 938 SILFGLKGMNGIGDDVIHHIVLNR---PYSDFNDFIERMFKSGIIKKgQVIQLIKGGCFDSFG-NRQEIMKA 1005
Cdd:PRK06920 799 AIRYSLLSIRNIGMATVTALYEERekkMFEDLFEFCLRMPSKFVTER-NLEAFVWSGCFDDFGvSRTNLWKS 869
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
2-826 |
6.40e-70 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 253.13 E-value: 6.40e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 2 IGCHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRTVRemkKKGDMPedfklILGNEAYLVDS 81
Cdd:PRK09532 4 VGLHIHSDYS---LLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCR---NKGIKP-----IIGNEMYVING 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 82 LEEVRDNYKsgvtKFpHFLMLAMDPKGHEQLRILSSQAWENSFYTGTMERVPTVKKdveELLSKDPGHIIATTACLGSEV 161
Cdd:PRK09532 73 DIEKQKRRR----KY-HQVVLAKNTQGYKNLVKLTTISHLQGVQGKGIFARPCINK---ELLEQYHEGLIVTSACLGGEI 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 162 nihllkikafeetgdSQSIKQHKLKI-HEFITWCIEVFGKDkFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAH 240
Cdd:PRK09532 145 ---------------PQAILSGRPDAaRKVAKWYKKLFGDD-FYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSH 208
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 241 YLRPEDRAIHQAFLNAKDGEREVDS----FYEACFVQNVDEIHERM-DYIDKEVIDQAIKNTMLIGEMIEDYTIEHEPII 315
Cdd:PRK09532 209 FISCYDVEAHDALLCIQTGKLITEDkrlrYSGTEYLKSAEEMRLLFrDHLPDDVIAEAIANTLEVADKIEPYNILGEPRI 288
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 316 PKMELPnfklrhlfkpaydqyeyikkmseSADEQDRYLLKLIEDGFEEKLKTSELtreafhkilNRINVELGELWEISQK 395
Cdd:PRK09532 289 PNYPVP-----------------------SGHTPDTYVEEVAWQGLLERLNCKSR---------SEVEPVYKERLEYELK 336
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 396 LNQSM--SSYYITVREIINIIWDDECGgdslVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDT 473
Cdd:PRK09532 337 MLQQMgfSTYFLVVWDYIKYARDNNIP----VGPGRGSAAGSLVAYCLKITNIDPVHHGLLFERFLNPERKSMPDIDTDF 412
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 474 EGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGSNWPLKHCFygDKETgrk 553
Cdd:PRK09532 413 CIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIPVSRGKPTKLKVMI--SDET--- 487
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 554 PIKEFIREVEQYPNLK---ETALKIEGlTNKR-SSHAAGVIIFNDEYTKSNAMMKTPKGAYITQFNMGDSEAMGSVKFDL 629
Cdd:PRK09532 488 PEPEFKEKYDNDPRVRrwlDMAIRIEG-TNKTfGVHAAGVVISSEPLDEIVPLQKNNDGAVITQYFMEDLESLGLLKMDF 566
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 630 LTIEALDKIRVTLDQLIENNEIE------------WQGSLKETYNKYIHPDVieyedDKLWEMAGNGEIMDLFQFSTEVG 697
Cdd:PRK09532 567 LGLRNLTTIQKTADLIKENRGVEidldqlplderkALKILAKGEAKKLPKDV-----QKTHKLLERGDLEGIFQLESSGM 641
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 698 HQSVVKVKPKNLLEaavTNSLMRLMSDGeeqPVDTYVKYKNNLNKWYEEMTRYglsekEIRVMERHLKDIYGVADTQEVV 777
Cdd:PRK09532 642 KQIVRDLKPSNIED---ISSILALYRPG---PLDAGLIPKFINRKHGREPIDY-----EHQLLEPILNETYGVLVYQEQI 710
|
810 820 830 840
....*....|....*....|....*....|....*....|....*....
gi 75090791 778 MQMVmdKDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTS 826
Cdd:PRK09532 711 MKMA--QDLAGYSLGEADLLRRAMGKKKISEMQKHREKFIDGAAKNGVS 757
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
339-1038 |
4.12e-60 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 224.72 E-value: 4.12e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 339 IKKMSESADEQDRYLLKLIEDGFEEKLKTSE-LTREAFHKilnRINVELgelwEISQKLNqsMSSYYITVREIINiiwdD 417
Cdd:PRK05898 217 IKYDKQNSIISSEILKQLCISGLNKRLNANDgQVKKIYVK---RLKYEL----DIINEKQ--FDDYFLIVYDFIN----F 283
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 418 ECGGDSLVGAARGSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTEGSKRQKILKALRERFGDKRVLQI 497
Cdd:PRK05898 284 AKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMPDIDTDIMDERRDEVVEYLFEKYGNDHVAHI 363
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 498 ATFGTEGSKSALQTACRGLGIDNDISQYLSGMIPFERGSNWPLKHCfygdketGRKPIKEFIReveQYPNLKETALKIEG 577
Cdd:PRK05898 364 ITFQRIKAKMAIRDVGRILGIDLKVIDKICKNIKPDYEEDLDLAIK-------KNTILKEMYV---LHKELFDLAKKIIN 433
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 578 LTNKRSSHAAGVIIFNDEYTKSNAMMKTPKGAYITQFNMGDSEAMGSVKFDLLTIEALDKIRVTLDQlienneiewqgsL 657
Cdd:PRK05898 434 APRQIGTHAAGVVLSNSLLTNIIPIQLGINDRPLSQYSMEYLERFGLIKMDLLGLKNLTIIDNVLKL------------I 501
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 658 KETYNKYIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTEvGHQSVV-KVKPKNLLEAAVTNSLMRlmsDGEEQPVDTYVKY 736
Cdd:PRK05898 502 KENQNKKIDLFNINLNDKNVFEDLAKGRTNGIFQLESP-GMKKVLkKVKPQNIEDISIVSALFR---PGPQQNIKTFVER 577
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 737 KNNlnkwYEEMTRYGLSEKEIrvmerhLKDIYGVADTQEVVMQMVMdkDIANFDIKESNYLRKSIAKKKEDVLKEVEELF 816
Cdd:PRK05898 578 RFK----REEFSYWNEATKKI------LEPTHGIIVYQEQVINLVK--TIANFDIATADNFRRAISKKDEKILIQLKKDF 645
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 817 FKKGKEIGTSDNLLNYVWNVQFKrqFG-YSFSLLHTLAYSIIALQELNLNYRYnPLYWNTACLTvnsggiDTEDTKDnkk 895
Cdd:PRK05898 646 IEGALKNNYKQPLVNQIFEYIFS--FAdYGFNHSHSLAYSYISYWMAYLKHYY-PLEFLSILLS------HTSASKD--- 713
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 896 taatnygKVASAIGNIRQRGIKIDLPDINKADFGFRTDINNNSILFGLKGMNGIGDDVIHHIVLNRPYSDFNDFIERM-- 973
Cdd:PRK05898 714 -------KLLSYLNEAKEFNISIKKPDINYSSNSFVLDTQKQIIRFGFNTIKGFGDELLKKIKSALQNKTFSDFISYIda 786
|
650 660 670 680 690 700
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 75090791 974 FKSGIIKKGQVIQLIKGGCFDSFGnrqeiMKAFISLISEPKSKLTLSNLKMLIENNIVPSEFAQE 1038
Cdd:PRK05898 787 LKKNNVSLSNIEILINVGTFDSFK-----LSRLFLLNNLPEIFEKTSLNGHFFELNLVGLEYAKD 846
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
274-1038 |
7.97e-60 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 223.80 E-value: 7.97e-60
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 274 NVDEIHERMDYIDKEVIDQAIKNTML--IGEMIEDYTIEHepIIPKMELPNFklrhlfkpaydqyeyikkMSESADEQDR 351
Cdd:PRK07135 170 NNKEENSNFKFFDFEKWFEDIDEKILkrTNYLVENINIEF--PKKEFNLPDF------------------DNNLGLESDL 229
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 352 YLLKLIEDGFEEKLKtsELtrEAFHKILNRINVELgelwEISQKLNqsMSSYYITVREIINiiWDDECGgdSLVGAARGS 431
Cdd:PRK07135 230 FLKKILKESVINKKA--EL--KYYPNVKERINYEY----SVIKKLK--FSNYFLIIWDFIK--WARKNK--ISIGPGRGS 295
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 432 AAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQT 511
Cdd:PRK07135 296 ASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDIDIDIQDDRRDEVIDYIFEKYGYEHCATISTFQTLGAKSAIRD 375
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 512 ACRGLGIDNDISQYLSGMIPFergsNWPLKHCfYGDKETGRKPIKEfiREVEQYPNLKETALKIEGLTNKRSSHAAGVII 591
Cdd:PRK07135 376 VGRMLGIPESDVNAISKLIPN----NQSLEEA-YDKNKSFFRELIS--KGDPIYKKLYKIAKKLEGLPRQSGTHAAGIII 448
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 592 FNDEYTKSNAMMKTPKGAYITQFNMGDSEAMGSVKFDLLTIEALDKIrvtldQLIEnNEIEWQGSLKETYNKyihpDVIE 671
Cdd:PRK07135 449 SNKPITNYVPTFESKDNYNQVQYSMEFLEDFGLLKIDLLGLKNLTII-----KNIE-EKINKELLFDHLINF----NDLP 518
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 672 YEDDKLWEMAGNGEIMDLFQFSTEVGHQSVVKVKPKNLLEAAVTNSLMRlmsDGEEQPVDTYVKYKNNLNKWyeemtryg 751
Cdd:PRK07135 519 IIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYR---PGPIQYIPIYAKNKKNPKNI-------- 587
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 752 lsEKEIRVMERHLKDIYGVADTQEVVMQMVmdKDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSDNLLN 831
Cdd:PRK07135 588 --EKIHPEYDEIVAPTYGIIIYQEQIMQIA--QKVAGFSFAQADLLRRAISKKDETKLDKIKDKFIEGGIKNGYSKKVLE 663
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 832 YVWNVQFKrqFG-YSFSLLHTLAYSIIALQELNLNYRYnPLYWNTACltvnsggIDTEDTKDNkktaatnygKVASAIGN 910
Cdd:PRK07135 664 KIYSLIEK--FAdYGFNKSHAVAYATLAYKMAYYKANY-PLVFYSAL-------ISNSNGSQE---------NIKKYVKE 724
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 911 IRQRGIKIDLPDINKADfgFRTDINNNSILFGLKGMNGIGDDVIHHIVLNRP----YSDFNDFIERMFKSGiIKKGQVIQ 986
Cdd:PRK07135 725 AKNNGIKVYSPDINFST--ENAVFDNGKIFLPLIMIKGLGSVAIKKIIDERNkngkYKNFFDFILRLKFIG-ISKSIIEK 801
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 75090791 987 LIKGGCFDSFGNRQ------EIMKAFISLISEPKSK---LTLSNLKMLIENNIVPSEFAQE 1038
Cdd:PRK07135 802 LIKANTLRSFGNQDtllnnlELAKNYAETILSKVAKnlyDDYKNFGLDLEFILEEIERDLE 862
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
353-1002 |
5.88e-46 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 180.61 E-value: 5.88e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 353 LLKLIEDGFEEKLKTSELTREAFHKilnrinvelgELWEISQklnQSMSSYYItvreiinIIWDDECGGDS---LVGAAR 429
Cdd:PRK07279 242 LRELAELGLKEKGLWSSPYQERLDK----------ELSVIHD---MGFDDYFL-------IVWDLLRFGRSqgyYMGMGR 301
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 430 GSAAGYLVNYLLDNTQINPMQYDLPHWRHIHKSRPDLPDIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSAL 509
Cdd:PRK07279 302 GSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDIDLPDIYRSEFLRYVRNRYGSDHSAQIVTFSTFGAKQAI 381
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 510 QTACRGLGI-DNDISQyLSGMIPFeRGSnwplKHCFYGDKETGRKPIKEFIreveQYPNLKETALKIEGLTNKRSSHAAG 588
Cdd:PRK07279 382 RDVFKRFGVpEYELSN-LTKKISF-RDS----LASVYEKNISFRQIINSKL----EYQKAFEIAKRIEGNPRQTSIHAAG 451
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 589 VIIFNDEYTkSNAMMKTPKGAYITQFNMGDSEAMGSVKFDLLTIEALdkirvTLDQlienneiEWQGSLKETYNKYIHPD 668
Cdd:PRK07279 452 VVMSDDDLT-NHIPLKYGDDMMITQYDAHAVEANGLLKMDFLGLRNL-----TFVQ-------KMQEKVAKDYGIHIDIE 518
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 669 VIEYEDDKLWEMAGNGEIMDLFQFStEVGHQSVVK-VKPKNLLEAAVTNSLMRlmsDGEEQPVDTYVKYKNNLnkwyEEM 747
Cdd:PRK07279 519 AIDLEDKETLALFAAGDTKGIFQFE-QPGAINLLKrIKPVCFEDIVATTSLNR---PGASDYTDNFVKRRHGQ----EKV 590
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 748 TRYGLSEKEIrvmerhLKDIYGVADTQEVVMQMVmdKDIANFDIKESNYLRKSIAKKKEDVLKEVEELFFKKGKEIGTSD 827
Cdd:PRK07279 591 DLIDPVIAPI------LEPTYGIMLYQEQVMQIA--QVFAGFSLGKADLLRRAMSKKNASEMQKMEEDFLQGALELGHSE 662
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 828 NLLNYVWNVQFKrqF-GYSFSLLHTLAYSIIALQ-------------ELNLNYRynplywntacltvNSGGIdtEDTKDN 893
Cdd:PRK07279 663 EKARELFDRMEK--FaGYGFNRSHAFAYSALAFQlayfkahypavfyDIMLNYS-------------SSDYI--TDALEF 725
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 894 kktaatnygkvasaignirqrGIKIDLPDINKADFGFRtdINNNSILFGLKGMNGIGDDVIHHIVLNRPYSDFNDFIERM 973
Cdd:PRK07279 726 ---------------------GFEVAKLSINTIPYHDK--IENKKIYLGLKNIKGLPRDLAYWIIENRPFSSIEDFLTRL 782
|
650 660 670
....*....|....*....|....*....|
gi 75090791 974 fKSGIIKKGQVIQLIKGGCFDSF-GNRQEI 1002
Cdd:PRK07279 783 -PENYQKKEFLEPLIKIGLFDSFeKNRQKI 811
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
5-316 |
2.38e-42 |
|
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: 156.83 E-value: 2.38e-42
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGdmpedFKLILGNEAYLVDSLEE 84
Cdd:cd12113 6 HVHTEYS---LLDGAIRIKDLVKRAKELGMPALAITDHGNMFG---AIEFYKAAKKAG-----IKPIIGCEVYVAPGSRF 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYKSGVTKFpHFLMLAMDPKGHEQLRILSSQAWENSFYtgtmeRVPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:cd12113 75 DKKDKKGDKRYY-HLVLLAKNEEGYRNLMKLVSLAYLEGFY-----YKPRIDK---ELLAKYSEGLIALSACLAGEIPQL 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLKikafeetGDsqsIKQHKLKIHEFItwciEVFGKDKFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHYLRP 244
Cdd:cd12113 146 LLN-------GD---EEEAREAALEYR----DIFGKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNK 211
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 245 EDRAIHQAFL------NAKDGER---EVDSFYeacfVQNVDEIHERMDYidkevIDQAIKNTMLIGEMIEDYTIEHEPII 315
Cdd:cd12113 212 EDAEAHDVLLciqtgkTLDDPNRmrfDTDEFY----LKSPEEMRELFPD-----VPEALENTLEIAERCNVELDFGKLHL 282
|
.
gi 75090791 316 P 316
Cdd:cd12113 283 P 283
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
635-824 |
2.92e-37 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 138.05 E-value: 2.92e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 635 LDKIRVTLDQLIENNEIEwqgslketynkyIHPDVIEYEDDKLWEMAGNGEIMDLFQFSTEVGHQSVVKVKPKNLLEAAV 714
Cdd:pfam17657 2 LTIIRDALDLIKENRGIG------------IDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVA 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 715 TNSLMRLMSDGEEQpVDTYVKYKNNlnkwyEEMTRYGLSEkeirvMERHLKDIYGVADTQEVVMQMVMdkDIANFDIKES 794
Cdd:pfam17657 70 LSALYRPGPMQGGN-VDDYIKRKHG-----KEKIEYPHPD-----LEPILKETYGVIVYQEQVMQIAQ--ILAGFSLGEA 136
|
170 180 190
....*....|....*....|....*....|
gi 75090791 795 NYLRKSIAKKKEDVLKEVEELFFKKGKEIG 824
Cdd:pfam17657 137 DLLRRAMGKKKPEEMEKLREKFIEGAKENG 166
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
5-805 |
2.77e-25 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 114.18 E-value: 2.77e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHtdrSNIRLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRTVREMkkkgdmpeDFKLILGneAYLVDSLEE 84
Cdd:PRK05672 9 HCH---SNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKEL--------GLRLVIG--AELSLGPDP 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNyksgvtkfPHFLMLAMDPKGHEQLRILSSQAwensfytgtmeRVPTVKK----DVEELLSKDPGHIIATTACLGSE 160
Cdd:PRK05672 76 DPGG--------PHLLVLARDREGYGRLSRLITRA-----------RLRAGKGeyrlDLDDLAEPAGGHWAILTGCRKGF 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 161 VnihllkIKAFEETGDSQSIKqhklkihEFITWCiEVFGKDKFFIELQP---ALSEEQiycNKKLIDIANGYDLQMIVTT 237
Cdd:PRK05672 137 V------ILALPYGGDAAALA-------ALAALL-DAFFADRVWLELTLhgrPDDDRR---NARLAALAARAGVPLVATG 199
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 238 DAHYLRPEDRAIHQAfLNAKDGEREVDsfyEA-CFVQNVDEIHERM---------DYidkeviDQAIKNTMLIGEMIE-- 305
Cdd:PRK05672 200 DVHMHHRSRRRLQDA-MTAIRARRSLA---EAgGWLAPNGERHLRSgaemarlfpDY------PEALAETVELAERCAfd 269
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 306 ----DYTIEHEPIiPKMELPNFKLRHLFKPAYDQYeYIKKMSESADEQDRYLLKLIED-GFEeklktseltreafhkiln 380
Cdd:PRK05672 270 ldllAYEYPDEPV-PAGHTPASWLRQLTEAGAARR-YGPGIPPKARAQIEHELALIAElGYE------------------ 329
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 381 rinvelgelweisqklnqsmsSYYITVREII------NIIwddeCGGdslvgaaRGSAAGYLVNYLLDNTQINPMQYDLP 454
Cdd:PRK05672 330 ---------------------GYFLTVHDIVrfarsqGIL----CQG-------RGSAANSAVCYALGITEVDPVQSGLL 377
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 455 HWRHIHKSRPDLPDIDIDTEGSKRQKILKALRERFGDKRVLQIATFGTEGSKSALQTACRGLGIDNDISQYLSGMIpfer 534
Cdd:PRK05672 378 FERFLSPERDEPPDIDVDFEHDRREEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQV---- 453
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 535 GSNWPLKHCFYGDKETGRKPIKEFIREVEQYpnlketALKIEGLTNKRSSHAAGVIIFNDEYTK----SNAMMktpKGAY 610
Cdd:PRK05672 454 SRWSGSADDLQRLRQAGLDPESPIPRRVVEL------AAQLIGFPRHLSQHSGGFVICDRPLARlvpvENAAM---EGRS 524
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 611 ITQFNMGDSEAMGSVKFDLLTIEALDKIRVTLDQLIENNEIEWqgSLKEtynkyihpdvIEYEDDKLWEMAGNGEIMDLF 690
Cdd:PRK05672 525 VIQWDKDDCAAVGLVKVDVLALGMLSALHRAFDLIAEHRGRRL--TLAS----------IPLDDPAVYDMLCRADSVGVF 592
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 691 QFSTEVGHQSVVKVKPKNLLEAAVTNSLMRlmsdgeeqP-------VDTYVKYKNNLnkwyEEMTrYGLSEKEiRVMERH 763
Cdd:PRK05672 593 QVESRAQMAMLPRLRPRTFYDLVVEVAIVR--------PgpiqggmVHPYLRRRNGQ----EPVT-YPHPELE-KVLERT 658
|
810 820 830 840
....*....|....*....|....*....|....*....|..
gi 75090791 764 LkdiyGVADTQEVVMQMVMdkDIANFDIKESNYLRKSIAKKK 805
Cdd:PRK05672 659 L----GVPLFQEQVMQIAI--DAAGFTPGEADQLRRAMAAWR 694
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
5-306 |
6.91e-25 |
|
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: 105.63 E-value: 6.91e-25
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSNirlLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRTVremKKKGdmpedFKLILGNEAYLVDSLee 84
Cdd:cd07435 5 HAHTKMSA---MDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAA---KKNG-----IKVIYGVEAYLVDPY-- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 vrdnyksgvtkfpHFLMLAMDPKGHEQLRILSSQAWENSFYtgtmeRVPTVKKdveELLSKDPGHIIATTACLGSEVNIH 164
Cdd:cd07435 72 -------------HITILVKNQTGLKNLYKLVSLSHTKYFY-----RVPRIPK---SELEKYREGLLIGSACENGELFEA 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLKIKAFEEtgdsqsIKQhKLKIHEFitwcIEVFGKD--KFFIELQPALSEEQIY-CNKKLIDIANGYDLQMIVTTDAHY 241
Cdd:cd07435 131 ALNKKSDEE------LEE-IASFYDY----IEIQPLDnyQFLIEKGLIKSEEELKeINKRIIKLGKKLNKPVVATGDVHY 199
|
250 260 270 280 290 300
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 75090791 242 LRPEDRAIHQAFLNAKDGEREVDSFYEACFVQNVDEIHERMDYIDKEVIDQA-IKNTMLIGEMIED 306
Cdd:cd07435 200 LDPEDKIYREILLAGQGGGDGRADEQPDLYFRTTDEMLDEFSYLGEEKAYEVvVTNTNKIADMIED 265
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
4-210 |
1.33e-23 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 98.77 E-value: 1.33e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 4 CHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLsahLDAIRTVREMKKKGdmpedFKLILGNEAYLVDsle 83
Cdd:pfam02811 2 LHVHSEYS---LLDGAARIEELVKRAKELGMPAIAITDHGNL---FGAVEFYKAAKKAG-----IKPIIGCEVYVAP--- 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 84 EVRDNYKSGVTKFPHFLMLAMDPKGHEQLRILSSQAWENSFytgtmerVPTVKKdveELLSKDPGHIIATTACLGSEVNI 163
Cdd:pfam02811 68 GSREETEKLLAKYFDLVLLAVHEVGYKNLIKLSSRAYLEGF-------KPRIDK---ELLEEYFEGLIALSGCVLGHLDL 137
|
170 180 190 200
....*....|....*....|....*....|....*....|....*..
gi 75090791 164 HLLKIKAFEEtgdsqsikqhklkIHEFITWCIEVFGKDKFFIELQPA 210
Cdd:pfam02811 138 ILLAPGDYEE-------------AEELAEEYLEIFGEDGFYLEINTH 171
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
915-1001 |
8.26e-21 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 87.91 E-value: 8.26e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 915 GIKIDLPDINKADFGFRtdINNNSILFGLKGMNGIGDDVIHHIVL---NRPYSDFNDFIERMfkSGIIKKGQVIQLIKGG 991
Cdd:pfam14579 1 GIEVLPPDINRSDWDFT--VEGGGIRLGLGAIKGLGEAAAERIVEereNGPFKSLEDFARRV--DLKLNKRVLEALIKAG 76
|
90
....*....|.
gi 75090791 992 CFDSFG-NRQE 1001
Cdd:pfam14579 77 AFDSLGgNRRQ 87
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
5-254 |
7.23e-16 |
|
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: 79.44 E-value: 7.23e-16
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGdmpedFKLILGNEAYLVDSLEE 84
Cdd:cd07433 6 RVHSEYS---LLDGAVRIKKLVKLAKEDGMPALAITDLSNLFG---AVKFYKAASKAG-----IKPIIGADLNVANPDDA 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VrdnyksgvtKFPHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmerVPTVKKdvEELLSKDPGHIIATTACLGsEVNIH 164
Cdd:cd07433 75 D---------EPFRLTLLAQNEQGYKNLTELISRAYLEGQRNG----GPHIKL--EWLAEYSEGLIALSGGRDG-DIGQL 138
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 165 LLkikafeetgdsqsiKQHKLKIHEFITWCIEVFGkDKFFIELQPALSEEQIYCNKKLIDIANGYDLQMIVTTDAHYLRP 244
Cdd:cd07433 139 LL--------------EGNPDLAEALLQFLKKIFP-DRFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKP 203
|
250
....*....|
gi 75090791 245 EDRAIHQAFL 254
Cdd:cd07433 204 EDFEAHEARV 213
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
4-80 |
1.84e-13 |
|
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: 66.52 E-value: 1.84e-13
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 75090791 4 CHCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLsahLDAIRTVREMKKKGdmpedFKLILGNEAYLVD 80
Cdd:smart00481 2 LHVHSDYS---LLDGALSPEELVKRAKELGLKAIAITDHGNL---FGAVEFYKAAKKAG-----IKPIIGLEANIVD 67
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
5-157 |
4.22e-11 |
|
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: 62.99 E-value: 4.22e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirLLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAhldAIRTVREMKKKGdmpedFKLILGNEAYLVDSLEE 84
Cdd:cd07431 4 HVHSSYS---LLDSAIRPEDLVARAKELGYSALALTDRNVLYG---AVRFYKACKKAG-----IKPIIGLELTVEGDGEP 72
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 75090791 85 VrdnyksgvtkfpHFLMLAMDPKGHEQLRILSSQAWENSFYTGtmerVPTVKKDveELLSKDPGHIIATTACL 157
Cdd:cd07431 73 Y------------PLLLLAKNNEGYQNLLRLSTAAMLGEEKDG----VPYLDLE--ELAEAASGLLVVLLGPL 127
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
38-457 |
8.03e-11 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 66.79 E-value: 8.03e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 38 AITDHEVLsAHLdAIRTVREMKKKGdmpedfklilgneaylVDSLEEVRDNYKSGVT---KFP-HFLMLAMDPKGHEQLR 113
Cdd:PRK00448 566 ADYDAEAT-AYL-LIKFLKDLKEKG----------------ITNLDELNKKLGSEDAykkARPkHATILVKNQVGLKNLF 627
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 114 ILSSQAWENSFYtgtmeRVPTVKKDVeelLSKDPGHIIATTACLGSEVnihllkIKAFEETGDSQSIKqhKLKIHEFItw 193
Cdd:PRK00448 628 KLVSLSNTKYFY-----RVPRIPRSL---LDKYREGLLIGSACEEGEV------FDAVLQKGDEELEE--IAKFYDYI-- 689
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 194 ciEVFGKD--KFFIELQPALSEEQIY-CNKKLIDIANGYDLQMIVTTDAHYLRPEDRAIHQAFLNAKDGE--REVDSFYE 268
Cdd:PRK00448 690 --EIQPPAnyQHLIERELVKDEEELKeIIKNLIELGKKLNKPVVATGDVHYLDPEDKIYRKILVASQGGGnpLNRHPLPE 767
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 269 ACFVqNVDEIHERMDYIDKEVIDQA-IKNTMLIGEMIEDYtiehEPIIPKmelpnfklrhLFKPaydqyeyikKMsesad 347
Cdd:PRK00448 768 LHFR-TTDEMLDEFAFLGEELAKEIvVENTNKIADLIEEI----EPIKDK----------LYTP---------KI----- 818
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 348 eqdryllklieDGFEEKLKtsELTREAFHKI---------LNRINVELGE--------LWEISQKL-NQSMSSYYitvre 409
Cdd:PRK00448 819 -----------EGAEEEIR--ELTYKKAHEIygeplpeivEKRIEKELNSiigngfavIYLISQKLvKKSLEDGY----- 880
|
410 420 430 440
....*....|....*....|....*....|....*....|....*...
gi 75090791 410 iiniiwddecggdsLVGaARGSAAGYLVNYLLDNTQINPMQydlPHWR 457
Cdd:PRK00448 881 --------------LVG-SRGSVGSSFVATMIGITEVNPLP---PHYV 910
|
|
| YciV |
COG0613 |
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and ... |
5-243 |
6.72e-10 |
|
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and metabolism];
Pssm-ID: 440378 [Multi-domain] Cd Length: 188 Bit Score: 59.92 E-value: 6.72e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirllDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRTVREmkkkgdmpEDFKLILGneaylvdslEE 84
Cdd:COG0613 7 HVHTTAS-----DGSLSPEELVARAKAAGLDVLAITDHDTVAGYEEAAEAAKE--------LGLLVIPG---------VE 64
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 85 VRDNYKsGVTkfPHFLMLAMDPKgHEQLRilssqawenSFYTGTMERVPTVKKDVEELLS--KDPG--HIIAttaclgse 160
Cdd:COG0613 65 ISTRWE-GRE--VHILGYGIDPE-DPALE---------ALLGIPVEKAEREWLSLEEAIDliREAGgvAVLA-------- 123
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 161 vniHLlkikafeetGDSQSIKQHKLKIHEFITW---CIEVFgkdkffielQPALSEEQiycNKKLIDIANGYDLQMIVTT 237
Cdd:COG0613 124 ---HP---------FRYKRGRWLDDLLEELADAgldGIEVY---------NGRHSPED---NERAAELAEEYGLLATGGS 179
|
....*.
gi 75090791 238 DAHYLR 243
Cdd:COG0613 180 DAHGPE 185
|
|
| HIS2 |
COG1387 |
Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and ... |
4-87 |
1.36e-06 |
|
Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and metabolism, General function prediction only]; Histidinol phosphatase or related hydrolase of the PHP family is part of the Pathway/BioSystem: Histidine biosynthesis
Pssm-ID: 440997 [Multi-domain] Cd Length: 232 Bit Score: 50.92 E-value: 1.36e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 4 CHCHTDRSnirllDSTNSVKELLKTAVKMEYKGLAITDH------------EVLSAHLDAIrtvREMKKKGdmpEDFKLI 71
Cdd:COG1387 5 LHTHTTYS-----DGEGTIEEMVEAAIELGLEYIAITDHspslfvanglseERLLEYLEEI---EELNEKY---PDIKIL 73
|
90
....*....|....*...
gi 75090791 72 LGNEA-YLVD-SLEEVRD 87
Cdd:COG1387 74 KGIEVdILPDgSLDYPDE 91
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
4-75 |
3.33e-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: 47.62 E-value: 3.33e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 75090791 4 CHCHTDRSNirllDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRtvremKKKGDmpeDFKLILGNE 75
Cdd:cd07432 3 LHIHSVFSP----DSDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALK-----EAYKD---GLLVIPGVE 62
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
5-81 |
1.65e-05 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 49.45 E-value: 1.65e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 75090791 5 HCHTDRSNirlLDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRTVremKKKGdmpedFKLILGNEAYLVDS 81
Cdd:PRK00448 338 HLHTKMST---MDAIPSVSELVKRAAKWGHKAIAITDHGVVQAFPEAYNAA---KKAG-----IKVIYGVEANLVDD 403
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
5-57 |
7.84e-05 |
|
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: 44.31 E-value: 7.84e-05
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|...
gi 75090791 5 HCHTDRSnirllDSTNSVKELLKTAVKMEYKGLAITDHEVLSAHLDAIRTVRE 57
Cdd:cd07438 4 HTHSTAS-----DGTLSPEELVELAKEAGLKVLAITDHDTVAGLEEALAAAKE 51
|
|
| PHP_PolX |
cd07436 |
Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; The bacterial/archaeal ... |
5-84 |
1.17e-03 |
|
Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; The bacterial/archaeal X-family DNA polymerases (PolXs) have a PHP domain at their C-terminus. The bacterial/archaeal PolX core domain and PHP domain interact with each other and together are involved in metal dependent 3'-5' exonuclease activity. 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. PolX is found in all kingdoms, however bacterial PolXs have a completely different domain structure from eukaryotic PolXs. Bacterial PolX has an extended conformation in contrast to the common closed 'right hand' conformation for DNA polymerases. This extended conformation is stabilized by the PHP domain. The PHP domain of PolX is structurally homologous to other members of the PHP family that has a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213991 [Multi-domain] Cd Length: 237 Bit Score: 42.02 E-value: 1.17e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 75090791 5 HCHTDRSnirllDSTNSVKELLKTAVKMEYKGLAITDH------------EVLSAHLDAIRTVREMKKkgdmpeDFKLIL 72
Cdd:cd07436 10 HVHTTWS-----DGRNSIEEMAEAARALGYEYIAITDHskslrvanglseERLREQIEEIDALNEKLP------GIRILK 78
|
90
....*....|..
gi 75090791 73 GNEaylVDSLEE 84
Cdd:cd07436 79 GIE---VDILPD 87
|
|
| |
