|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-1188 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 2079.89 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1 MNKDFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKD 80
Cdd:PRK06826 1 MKMSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVYVAPRSRFDKE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 81 PNYDKYQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFA 160
Cdd:PRK06826 81 PDIDNETYHLVLLAKNETGYKNLMKIVSKAFTEGFYYKPRVDHELLKEHSEGLIALSACLAGEVPRYILKGNYEKAKEAA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 161 LDYRDIFGEENFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFG 240
Cdd:PRK06826 161 LFYKDIFGKENFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENRMRFP 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 241 SDEFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERYDNPSNEILE 320
Cdd:PRK06826 241 SDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPNPSEELIE 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 321 RLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPDID 400
Cdd:PRK06826 321 RLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSMPDID 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 401 IDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPNLKE 480
Cdd:PRK06826 401 IDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKMIPTELGITIDKALELNPELKE 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 481 LYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQDAITTQFTMTTLEELGLLKMDFLGLRTLTVI 560
Cdd:PRK06826 481 AYENDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPLQKNDGSIVTQFTMTTLEELGLLKMDFLGLRTLTVI 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 561 RDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRPGPMD 640
Cdd:PRK06826 561 RDAVDLIKKNRGI-----EIDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGISLYRPGPMD 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 641 SIPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQYFIHGK 720
Cdd:PRK06826 636 SIPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSKKKHDVMEEERKNFIYGI 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 721 FDEDGnieiAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGNTDKVVE 800
Cdd:PRK06826 716 VDEGG----PGCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNSVMGNSDKVAF 791
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 801 YIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKDTNKRVIE 880
Cdd:PRK06826 792 YIEECRRLGIEVLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKGKFKSLVDFCERVDTSQINKRAVE 871
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 881 SLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEEDSDfqqIYSLPKRQEYEERERLNLEKEV 960
Cdd:PRK06826 872 SLIKAGAFDSLGVYRSQLLAVYEKILDSISKQRKKNIEGQISLFDLIGEEEESSL---EIKYPDIKEFDKKELLAMEKEM 948
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 961 LGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEESYLQMNETDVIMGGMIVTKTIKTTKRNEIMAFIELEDLYGAIEI 1040
Cdd:PRK06826 949 LGLYISGHPLEEYEETLKKQTSATISDIISDEEEDGESKLKDGDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEV 1028
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1041 IVFPQLLQKYNVILNEDNIIYVKGTLSIKEGENAKLIAREIkdinddtdfadrnynsgrtrnvENIKPESGKKLYLKIDS 1120
Cdd:PRK06826 1029 IVFPKVYEKYRSLLNEDNIVLIKGRVSLREDEEPKLICEEI----------------------EPLVINSEKKLYLRVED 1086
|
1130 1140 1150 1160 1170 1180 1190
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1121 MSDTDTT-NNIVEIAKQYPGNDSIYLYpmdenINGKRKAYKMTGAL-TCICDEFINNLEELLPKDNIKVK 1188
Cdd:PRK06826 1087 KKDIKLKlKELKEILKQYPGNTPVYLY-----TEKERKKFKLDRELwVNLSPELINELKELLGEENVKVV 1151
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1082 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1662.51 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1 MNKDFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKD 80
Cdd:COG0587 1 MSPSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 81 PnydkyqgHLVLLAKNMEGYKNLIKIVSTSYVEGFYY-KPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQF 159
Cdd:COG0587 81 Y-------HLVLLAKNREGYRNLCRLLSRAYLEGFYKgKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAA 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 160 ALDYRDIFGEeNFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRF 239
Cdd:COG0587 154 LARLKDIFGD-RFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRF 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 240 GSDEFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERY-DNPSNEI 318
Cdd:COG0587 233 ANAERYLKSPEEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYpEGIPEEY 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 319 LERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPD 398
Cdd:COG0587 313 RERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPD 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 399 IDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPNL 478
Cdd:COG0587 393 IDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEPEL 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 479 KELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYK--HQDAITTQFTMTTLEELGLLKMDFLGLRT 556
Cdd:COG0587 473 RELYDSDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERaaMGGRPVTQFDKDDVEALGLLKFDFLGLRT 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 557 LTVIRDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRP 636
Cdd:COG0587 553 LTVIRDALDLIKENRGI-----DIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRP 627
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 637 GPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQ 714
Cdd:COG0587 628 GPMQGgmVPPYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEMAKQRE 707
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 715 YFihgkfdedgnieIAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGN 794
Cdd:COG0587 708 KF------------VEGAVANGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMG 775
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 795 TDKVVEYIRECKALEIDVLPPDINKSFSKFSVE-GDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKD 873
Cdd:COG0587 776 FYKPAQYVQEARRHGIEVLPPDVNESDWDFTVEpGGAIRLGLGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRVDLRK 855
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 874 TNKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEEDSDfqqiySLPKRQEYEERER 953
Cdd:COG0587 856 LNKRVLEALIKAGAFDSLGPNRRQLLWALEAALDAAQQAQKDKASGQLSLFGGAGDEEVAEP-----ALPELPEWSEKEK 930
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 954 LNLEKEVLGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEEsylqmnetdVIMGGMIVTKTIKTTKRNEIMAFIELED 1033
Cdd:COG0587 931 LAAEKEALGLYLSGHPLDLYREELRRLGVTPAADLAELRDGRR---------VRVAGLVTSRQRPGTKKGKRMAFVTLED 1001
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*....
gi 489531519 1034 LYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSiKEGENAKLIAREIK 1082
Cdd:COG0587 1002 ETGSIEVVVFPEVYERYRRLLLEDRLLLVRGKVQ-RRDGVVHLIAERIE 1049
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
5-1043 |
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: 1360.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRD-KDPNY 83
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDkKRISK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 DKYQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALDY 163
Cdd:TIGR00594 81 GKEAYHLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 164 RDIFGEEnFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGSDE 243
Cdd:TIGR00594 161 QEIFGDD-YYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 244 FYLKSREEMEELFPYALEAIDNTVKIADMCN-VEFDFNTIHLPKYDVPEGYTP-ETYLRELCFNGLKERYDNPSNEIL-- 319
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYQIPPDFTSqEDYLRHLADEGLRERLAAGPPGYKrr 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 320 ----ERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERIS 395
Cdd:TIGR00594 320 aqykERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 396 MPDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTN 475
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKEALEAS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 476 PNLKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQD--AITTQFTMTTLEELGLLKMDFLG 553
Cdd:TIGR00594 480 PQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEggAISTQYDMDDLEAVGLLKMDFLG 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 554 LRTLTVIRDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISL 633
Cdd:TIGR00594 560 LKTLTLIQDATELIRKRRGI-----DLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNAL 634
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 634 FRPGPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEE 711
Cdd:TIGR00594 635 YRPGPMESgmIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEEMAK 714
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 712 ERQYFIHgkfdedgnieiaGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSV 791
Cdd:TIGR00594 715 EREKFVE------------GAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSE 782
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 792 MGNTDKVVEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQ 871
Cdd:TIGR00594 783 INDIEKVAVYIAEAKKMGIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDF 862
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 872 KDTNKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAfgdsEEDSDFQQIYSLPKRQEYEER 951
Cdd:TIGR00594 863 KKLNKKVLEALIKAGAFDSLGPNRKTLLASLDDALDAVSRKKKAEALGQNSLFGA----LSEGTKPEYVFFPPDEEWPDK 938
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 952 ERLNLEKEVLGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEESYlqmnetdvIMGGMIVTKTIKTTKRNEIMAFIEL 1031
Cdd:TIGR00594 939 KLLALEKETLGLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVR--------TLGGLNSVKKKITTKNGKPMAFLQL 1010
|
1050
....*....|..
gi 489531519 1032 EDLYGAIEIIVF 1043
Cdd:TIGR00594 1011 EDETGSIEVVVF 1022
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-285 |
0e+00 |
|
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: 548.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 4 DFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKDPNY 83
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVAPGSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 -DKYQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALD 162
Cdd:cd12113 81 gDKRYYHLVLLAKNEEGYRNLMKLVSLAYLEGFYYKPRIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAALE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 YRDIFGEENFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGSD 242
Cdd:cd12113 161 YRDIFGKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFDTD 240
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 489531519 243 EFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLP 285
Cdd:cd12113 241 EFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
298-553 |
3.40e-141 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 426.92 E-value: 3.40e-141
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 298 YLRELCFNGLKERYDNP-SNEILERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDI 376
Cdd:pfam07733 2 YLRKLVEEGLKERYGEGlPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITEV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 377 DPIKYSLLFERFLNPERISMPDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKV 456
Cdd:pfam07733 82 DPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDRL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 457 AKEIPFALGMtIDKALDTNPNLKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYK--HQDAITT 534
Cdd:pfam07733 162 AKLIPFELGI-LEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKadDDDRPVT 240
|
250
....*....|....*....
gi 489531519 535 QFTMTTLEELGLLKMDFLG 553
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
7-73 |
2.59e-26 |
|
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: 102.73 E-value: 2.59e-26
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489531519 7 HLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAA 73
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-1188 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 2079.89 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1 MNKDFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKD 80
Cdd:PRK06826 1 MKMSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVYVAPRSRFDKE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 81 PNYDKYQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFA 160
Cdd:PRK06826 81 PDIDNETYHLVLLAKNETGYKNLMKIVSKAFTEGFYYKPRVDHELLKEHSEGLIALSACLAGEVPRYILKGNYEKAKEAA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 161 LDYRDIFGEENFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFG 240
Cdd:PRK06826 161 LFYKDIFGKENFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENRMRFP 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 241 SDEFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERYDNPSNEILE 320
Cdd:PRK06826 241 SDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPNPSEELIE 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 321 RLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPDID 400
Cdd:PRK06826 321 RLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSMPDID 400
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 401 IDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPNLKE 480
Cdd:PRK06826 401 IDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKMIPTELGITIDKALELNPELKE 480
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 481 LYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQDAITTQFTMTTLEELGLLKMDFLGLRTLTVI 560
Cdd:PRK06826 481 AYENDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPLQKNDGSIVTQFTMTTLEELGLLKMDFLGLRTLTVI 560
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 561 RDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRPGPMD 640
Cdd:PRK06826 561 RDAVDLIKKNRGI-----EIDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGISLYRPGPMD 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 641 SIPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQYFIHGK 720
Cdd:PRK06826 636 SIPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSKKKHDVMEEERKNFIYGI 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 721 FDEDGnieiAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGNTDKVVE 800
Cdd:PRK06826 716 VDEGG----PGCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNSVMGNSDKVAF 791
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 801 YIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKDTNKRVIE 880
Cdd:PRK06826 792 YIEECRRLGIEVLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKGKFKSLVDFCERVDTSQINKRAVE 871
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 881 SLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEEDSDfqqIYSLPKRQEYEERERLNLEKEV 960
Cdd:PRK06826 872 SLIKAGAFDSLGVYRSQLLAVYEKILDSISKQRKKNIEGQISLFDLIGEEEESSL---EIKYPDIKEFDKKELLAMEKEM 948
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 961 LGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEESYLQMNETDVIMGGMIVTKTIKTTKRNEIMAFIELEDLYGAIEI 1040
Cdd:PRK06826 949 LGLYISGHPLEEYEETLKKQTSATISDIISDEEEDGESKLKDGDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEV 1028
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1041 IVFPQLLQKYNVILNEDNIIYVKGTLSIKEGENAKLIAREIkdinddtdfadrnynsgrtrnvENIKPESGKKLYLKIDS 1120
Cdd:PRK06826 1029 IVFPKVYEKYRSLLNEDNIVLIKGRVSLREDEEPKLICEEI----------------------EPLVINSEKKLYLRVED 1086
|
1130 1140 1150 1160 1170 1180 1190
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1121 MSDTDTT-NNIVEIAKQYPGNDSIYLYpmdenINGKRKAYKMTGAL-TCICDEFINNLEELLPKDNIKVK 1188
Cdd:PRK06826 1087 KKDIKLKlKELKEILKQYPGNTPVYLY-----TEKERKKFKLDRELwVNLSPELINELKELLGEENVKVV 1151
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1082 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1662.51 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1 MNKDFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKD 80
Cdd:COG0587 1 MSPSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 81 PnydkyqgHLVLLAKNMEGYKNLIKIVSTSYVEGFYY-KPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQF 159
Cdd:COG0587 81 Y-------HLVLLAKNREGYRNLCRLLSRAYLEGFYKgKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAA 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 160 ALDYRDIFGEeNFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRF 239
Cdd:COG0587 154 LARLKDIFGD-RFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRF 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 240 GSDEFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERY-DNPSNEI 318
Cdd:COG0587 233 ANAERYLKSPEEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYpEGIPEEY 312
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 319 LERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPD 398
Cdd:COG0587 313 RERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPD 392
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 399 IDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPNL 478
Cdd:COG0587 393 IDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEPEL 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 479 KELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYK--HQDAITTQFTMTTLEELGLLKMDFLGLRT 556
Cdd:COG0587 473 RELYDSDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERaaMGGRPVTQFDKDDVEALGLLKFDFLGLRT 552
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 557 LTVIRDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRP 636
Cdd:COG0587 553 LTVIRDALDLIKENRGI-----DIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRP 627
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 637 GPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQ 714
Cdd:COG0587 628 GPMQGgmVPPYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEMAKQRE 707
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 715 YFihgkfdedgnieIAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGN 794
Cdd:COG0587 708 KF------------VEGAVANGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMG 775
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 795 TDKVVEYIRECKALEIDVLPPDINKSFSKFSVE-GDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKD 873
Cdd:COG0587 776 FYKPAQYVQEARRHGIEVLPPDVNESDWDFTVEpGGAIRLGLGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRVDLRK 855
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 874 TNKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEEDSDfqqiySLPKRQEYEERER 953
Cdd:COG0587 856 LNKRVLEALIKAGAFDSLGPNRRQLLWALEAALDAAQQAQKDKASGQLSLFGGAGDEEVAEP-----ALPELPEWSEKEK 930
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 954 LNLEKEVLGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEEsylqmnetdVIMGGMIVTKTIKTTKRNEIMAFIELED 1033
Cdd:COG0587 931 LAAEKEALGLYLSGHPLDLYREELRRLGVTPAADLAELRDGRR---------VRVAGLVTSRQRPGTKKGKRMAFVTLED 1001
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*....
gi 489531519 1034 LYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSiKEGENAKLIAREIK 1082
Cdd:COG0587 1002 ETGSIEVVVFPEVYERYRRLLLEDRLLLVRGKVQ-RRDGVVHLIAERIE 1049
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
4-1151 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1601.30 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 4 DFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAaRGLRDKDPNY 83
Cdd:PRK05673 1 RFVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVA-PEKKDDVSGG 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 DKYqGHLVLLAKNMEGYKNLIKIVSTSYVEGFY-YKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALD 162
Cdd:PRK05673 80 GAY-THLTLLAKNETGYRNLFKLSSRAYLEGQYgYKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAAE 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 YRDIFGEeNFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGSD 242
Cdd:PRK05673 159 YQEIFGD-RFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFRFYSP 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 243 EFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERY-----DNPSNE 317
Cdd:PRK05673 238 EQYLKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLaflfpDEERPE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 318 ILERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMP 397
Cdd:PRK05673 318 YVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVSMP 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 398 DIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPN 477
Cdd:PRK05673 398 DFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPGITLAKAYEEEPE 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 478 LKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYK--HQDAITTQFTMTTLEELGLLKMDFLGLR 555
Cdd:PRK05673 478 LRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRdpDSGMPVTQFDMKDVEAAGLVKFDFLGLR 557
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 556 TLTVIRDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFR 635
Cdd:PRK05673 558 TLTIIDDALKLIKKRRGI-----DVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIALVALYR 632
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 636 PGPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEER 713
Cdd:PRK05673 633 PGPMESgmIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKPEEMAKQR 712
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 714 qyfihGKFdedgnieIAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMG 793
Cdd:PRK05673 713 -----EIF-------VEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMD 780
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 794 NTDKVVEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKD 873
Cdd:PRK05673 781 NTDKVAVYLDECRRMGIKVLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKK 860
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 874 TNKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEEDSDFqqiySLPKRQEYEERER 953
Cdd:PRK05673 861 VNKRVLESLIKAGAFDSLGPNRAALLASLEDAVDAADQHKKAEASGQFDLFGGLGEEPEDVEV----SVPDVEEWDKKEK 936
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 954 LNLEKEVLGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKeeeesylqmNETDVIMGGMIVTKTIKTTKRNEIMAFIELED 1033
Cdd:PRK05673 937 LAGERETLGLYLSGHPLDGYEDELRRLRDTRLADLEPTE---------GGSVVTVAGLVVSVRRRVTKRGNKMAIVTLED 1007
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1034 LYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSIKEGENaKLIAREIKDINDdtdfadrnynsgrtrnvENIKPESGKK 1113
Cdd:PRK05673 1008 LSGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDDGGL-RLTAREVMDLEE-----------------ARAKYARPLR 1069
|
1130 1140 1150
....*....|....*....|....*....|....*...
gi 489531519 1114 LYLKiDSMSDTDTTNNIVEIAKQYPGNDSIYLYPMDEN 1151
Cdd:PRK05673 1070 ISLP-DRQLTPQLLERLKQVLEPHRGTSPVHLYLQDPD 1106
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
5-1043 |
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: 1360.14 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRD-KDPNY 83
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDkKRISK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 DKYQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALDY 163
Cdd:TIGR00594 81 GKEAYHLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 164 RDIFGEEnFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGSDE 243
Cdd:TIGR00594 161 QEIFGDD-YYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 244 FYLKSREEMEELFPYALEAIDNTVKIADMCN-VEFDFNTIHLPKYDVPEGYTP-ETYLRELCFNGLKERYDNPSNEIL-- 319
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYQIPPDFTSqEDYLRHLADEGLRERLAAGPPGYKrr 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 320 ----ERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERIS 395
Cdd:TIGR00594 320 aqykERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 396 MPDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTN 475
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKEALEAS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 476 PNLKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQD--AITTQFTMTTLEELGLLKMDFLG 553
Cdd:TIGR00594 480 PQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEggAISTQYDMDDLEAVGLLKMDFLG 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 554 LRTLTVIRDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISL 633
Cdd:TIGR00594 560 LKTLTLIQDATELIRKRRGI-----DLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNAL 634
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 634 FRPGPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEE 711
Cdd:TIGR00594 635 YRPGPMESgmIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEEMAK 714
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 712 ERQYFIHgkfdedgnieiaGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSV 791
Cdd:TIGR00594 715 EREKFVE------------GAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSE 782
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 792 MGNTDKVVEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQ 871
Cdd:TIGR00594 783 INDIEKVAVYIAEAKKMGIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDF 862
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 872 KDTNKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMDRKKNVQGQISLFDAfgdsEEDSDFQQIYSLPKRQEYEER 951
Cdd:TIGR00594 863 KKLNKKVLEALIKAGAFDSLGPNRKTLLASLDDALDAVSRKKKAEALGQNSLFGA----LSEGTKPEYVFFPPDEEWPDK 938
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 952 ERLNLEKEVLGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEESYlqmnetdvIMGGMIVTKTIKTTKRNEIMAFIEL 1031
Cdd:TIGR00594 939 KLLALEKETLGLYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVR--------TLGGLNSVKKKITTKNGKPMAFLQL 1010
|
1050
....*....|..
gi 489531519 1032 EDLYGAIEIIVF 1043
Cdd:TIGR00594 1011 EDETGSIEVVVF 1022
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
5-1085 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 1112.49 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKDPN-Y 83
Cdd:PRK07374 3 FVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMYVINGSIDDPQPKkE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 DKYqgHLVLLAKNMEGYKNLIKIVSTSYVEG-----FYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQ 158
Cdd:PRK07374 83 KRY--HLVVLAKNATGYKNLVKLTTISHLNGmrgrgIFSRPCIDKELLKQYSEGLIVSTACLGGEIPQAILRGRPDVARD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 159 FALDYRDIFGEEnFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMR 238
Cdd:PRK07374 161 VAAWYKEVFGDD-FYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDEKRLR 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 239 FGSDEfYLKSREEMEELFPYAL------EAIDNTVKIADmcNVE-FD-FNTIHLPKYDVPEGYTPETYLRELCFNGLKER 310
Cdd:PRK07374 240 YTGTE-YIKSEEEMLRLFRDHLdpeviqEAIANTVEVAE--KVEeYDiLGTYRMPRFPIPEGHTAVSYLTEVTEQGLLKR 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 311 YDNPSNEIL-----ERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLF 385
Cdd:PRK07374 317 LKLNSLDEIdenykERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIPVGPGRGSAAGSLVAYALGITNIDPVKNGLLF 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 386 ERFLNPERISMPDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFA-- 463
Cdd:PRK07374 397 ERFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIPVVrg 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 464 ----LGMTIDKAlDTNPNLKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQD-AITTQFTM 538
Cdd:PRK07374 477 kpakLKAMIGKE-SPSPEFREKYEKDPRVKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRNNDgQVITQYFM 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 539 TTLEELGLLKMDFLGLRTLTVIRDTLDLIEKNRviknyTEKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQ 618
Cdd:PRK07374 556 EDIESLGLLKMDFLGLKNLTMIEKTLELVEQST-----GERIDPDNLPLDDEKTFELLARGDLEGIFQLESSGMRQVVRD 630
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 619 LKPDNFEDIVAGISLFRPGPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDL 696
Cdd:PRK07374 631 LKPSSLEDISSILALYRPGPLDAglIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAGYSLGQADL 710
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 697 VRRAMSKKKMDVMEEERQYFIHgkfdedgnieiaGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLK 776
Cdd:PRK07374 711 LRRAMGKKKVSEMQKHRGIFVE------------GASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLK 778
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 777 TYYPVEFMAALITSVMGNTDKVVEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESN 856
Cdd:PRK07374 779 AHYPVAYMAALLTVNAGSSDKVQRYISNCNSMGIEVMPPDINRSGIDFTPKGNRILFGLSAVKNLGDGAIRNIIAARDSD 858
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 857 GLFVDLVDLVKRLDQKDTNKRVIESLIKCGAFDNISE--NRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEED- 933
Cdd:PRK07374 859 GPFKSLADLCDRLPSNVLNRRSLESLIHCGALDAFSPnaNRAQLIADLDLVLDWASSRARDRASGQGNLFDLLAGSEEEa 938
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 934 -SDFQQIYSLPKRQEYEERERLNLEKEVLGMYVSGHPLsqfeKELQEKTSMDNG-KLNSLKEeeesylQMNETDVIMGGM 1011
Cdd:PRK07374 939 sNDLSSAPKAAPVPDYPPTEKLKLEKELLGFYLSDHPL----KQLTEPAKLLAPiSLSSLEE------QPDKAKVSAIAM 1008
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489531519 1012 IVTKTIKTTKRNEIMAFIELEDLYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSIKEgENAKLI---AREIKDIN 1085
Cdd:PRK07374 1009 IPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD-DRVQLIiddCREIDDLR 1084
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
5-1188 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 1020.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGcevYTAARGLRDKDPNYD 84
Cdd:PRK06920 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIG---LTASIFSEEEEKSYP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 85 kyqghLVLLAKNMEGYKNLIKIVSTsyvegFYYKPRVDMEE--LKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALD 162
Cdd:PRK06920 80 -----LVLLAENEIGYQNLLKISSS-----IMTKSKEGIPKkwLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARA 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 YRDIFGEENFFLE---IQDHNLPEQKevnsgLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRF 239
Cdd:PRK06920 150 YQNMFGNFYMSLQhhaIQDELLLQEK-----LPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRL 224
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 240 GSDEFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERYDNPSNEIL 319
Cdd:PRK06920 225 KTDQYYLKSSDEMEALFSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHI 304
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 320 ERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPDI 399
Cdd:PRK06920 305 NRLNHELNVISRMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDI 384
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 400 DIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPNLK 479
Cdd:PRK06920 385 DIDFPDTRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLR 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 480 ELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYK-HQDAITTQFTMTTLEELGLLKMDFLGLRTLT 558
Cdd:PRK06920 465 EFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEgHNDVYVTQYPADALEELGLLKMDFLGLRNLT 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 559 VIRDTLDLIEKNRVIknyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRPGP 638
Cdd:PRK06920 545 LLENIIKFIEQKTGK-----EIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGP 619
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 639 MDSIPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQYFIH 718
Cdd:PRK06920 620 MEQIPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQ 699
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 719 gkfdedgnieiaGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGNTDKV 798
Cdd:PRK06920 700 ------------GCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKI 767
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 799 VEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNgLFVDLVDLVKRLDQKDTNKRV 878
Cdd:PRK06920 768 VQYIRETKRKGFHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALYEEREKK-MFEDLFEFCLRMPSKFVTERN 846
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 879 IESLIKCGAFDNISENRASLMAGYESLLESVsmdrkknvqgqiSLFDAFGDSEEDSDFQQIYSLPKrqeyeeRERLNLEK 958
Cdd:PRK06920 847 LEAFVWSGCFDDFGVSRTNLWKSLKGALEYA------------NLARDLGDAVPKSKYVQGEELSF------IEQLNKEK 908
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 959 EVLGMYVSGHPLSQFEKELQEKTSMDNGKLNSLKEEEESylqmnetdviMGGMIV-TKTIKtTKRNEIMAFIELEDLYGA 1037
Cdd:PRK06920 909 EVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQR----------AIVYITsVKVIR-TKKGQKMAFITFCDQNDE 977
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1038 IEIIVFPQLLQKYNVILNEDNIIYVKGTLSIKEgENAKLIAREIKDInddtdfadrnynsgrtRNVENIKPESGKKLYLK 1117
Cdd:PRK06920 978 MEAVVFPETYIHFSDKLQEGAIVLVDGTIELRN-HKLQWIVNGLYPL----------------EEMDAYEEKKDASVYVK 1040
|
1130 1140 1150 1160 1170 1180 1190
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489531519 1118 IDSMSDTDTTNNIVEIAKQYPGNDSIYLYPMDEningkRKAYKMTGALTCICD-EFINNLEELLPKDNIKVK 1188
Cdd:PRK06920 1041 LPSQYEKKLLNQVTKILFDYSGFAKVLIYYEKE-----HKMVQLSRSLSIHPSeECLGALREIVGEENVVVK 1107
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
5-779 |
0e+00 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 761.20 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAaRGLRDKDPNYD 84
Cdd:PRK09532 3 FVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVI-NGDIEKQKRRR 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 85 KYqgHLVLLAKNMEGYKNLIKIVSTSYVEGF-----YYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQF 159
Cdd:PRK09532 82 KY--HQVVLAKNTQGYKNLVKLTTISHLQGVqgkgiFARPCINKELLEQYHEGLIVTSACLGGEIPQAILSGRPDAARKV 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 160 ALDYRDIFGEEnFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRF 239
Cdd:PRK09532 160 AKWYKKLFGDD-FYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLRY 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 240 GSDEfYLKSREEMEELFPYAL------EAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERYDN 313
Cdd:PRK09532 239 SGTE-YLKSAEEMRLLFRDHLpddviaEAIANTLEVADKIEPYNILGEPRIPNYPVPSGHTPDTYVEEVAWQGLLERLNC 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 314 PS-NEI----LERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERF 388
Cdd:PRK09532 318 KSrSEVepvyKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIPVGPGRGSAAGSLVAYCLKITNIDPVHHGLLFERF 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 389 LNPERISMPDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALG--- 465
Cdd:PRK09532 398 LNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIPVSRGkpt 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 466 ----MTIDKAldTNPNLKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQD-AITTQFTMTT 540
Cdd:PRK09532 478 klkvMISDET--PEPEFKEKYDNDPRVRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNNDgAVITQYFMED 555
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 541 LEELGLLKMDFLGLRTLTVIRDTLDLIEKNRVIK--------------NYTEKIDFSKMDYDDPKVYEMLSSGNTLGVFQ 606
Cdd:PRK09532 556 LESLGLLKMDFLGLRNLTTIQKTADLIKENRGVEidldqlplderkalKILAKGEAKKLPKDVQKTHKLLERGDLEGIFQ 635
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 607 LESAGMRSFMKQLKPDNFEDIVAGISLFRPGPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVR 684
Cdd:PRK09532 636 LESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAglIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQEQIMKMAQ 715
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 685 DLGGYSYGRSDLVRRAMSKKKMDVMEEERQYFIHgkfdedgnieiaGCIRNGVEEEIANKIFDDMIDFARYAfnkshaaa 764
Cdd:PRK09532 716 DLAGYSLGEADLLRRAMGKKKISEMQKHREKFID------------GAAKNGVSKKVAENLFDQMVKFAEYC-------- 775
|
810
....*....|....*
gi 489531519 765 ygvLAYETAYLKTYY 779
Cdd:PRK09532 776 ---LSYDTEVLTVEY 787
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
3-1084 |
0e+00 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 668.70 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 3 KDFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVytaarglrDKDpN 82
Cdd:PRK07135 1 MKLINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDL--------EVE-N 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 83 YdkyqgHLVLLAKNMEGYKNLIKIVSTSYvegfyYKPRVDMEELKKHNKGIIalsaclagDVARALMNRNYEKAKQFald 162
Cdd:PRK07135 72 F-----RFILLAKNYSGYKLLNELSSKKS-----KNKEIELNDLDSDNIIII--------DHPKNGFYAKNKEQLEL--- 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 yrdifgeENFFLEIQDHNLPeqkevNSGLVKLSKetgiplvatndvhYVNKEDSKIHDVLMCIQMGKTLNdpnrmrFGSD 242
Cdd:PRK07135 131 -------KNYYINSNDPKIE-----NAVYVQERK-------------LLFAEDNEYLKILNKIGNNKEEN------SNFK 179
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 243 EFYLKSR-EEMEELFpyaleaIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKERYDNPSNEIL-- 319
Cdd:PRK07135 180 FFDFEKWfEDIDEKI------LKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKILKESVINKKAELKYYPNvk 253
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 320 ERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPDI 399
Cdd:PRK07135 254 ERINYEYSVIKKLKFSNYFLIIWDFIKWARKNKISIGPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDI 333
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 400 DIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFalGMTIDKALDTNPNL- 478
Cdd:PRK07135 334 DIDIQDDRRDEVIDYIFEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIPN--NQSLEEAYDKNKSFf 411
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 479 KELYDQ-DPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQDA-ITTQFTMTTLEELGLLKMDFLGLRT 556
Cdd:PRK07135 412 RELISKgDPIYKKLYKIAKKLEGLPRQSGTHAAGIIISNKPITNYVPTFESKDNyNQVQYSMEFLEDFGLLKIDLLGLKN 491
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 557 LTVIRDTLDLIEKNRVIKNyteKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRP 636
Cdd:PRK07135 492 LTIIKNIEEKINKELLFDH---LINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRP 568
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 637 GPMDSIPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQYF 716
Cdd:PRK07135 569 GPIQYIPIYAKNKKNPKNIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISKKDETKLDKIKDKF 648
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 717 IHGKfdedgnieiagcIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGNTD 796
Cdd:PRK07135 649 IEGG------------IKNGYSKKVLEKIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISNSNGSQE 716
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 797 KVVEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKDTNK 876
Cdd:PRK07135 717 NIKKYVKEAKNNGIKVYSPDINFSTENAVFDNGKIFLPLIMIKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGISK 796
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 877 RVIESLIKCGAFDNISeNRASLMAGYESLLESVSMDRKKNVQGQISLFDAFGDSEEDSDFQQIYSLPKRQEYEErerlnl 956
Cdd:PRK07135 797 SIIEKLIKANTLRSFG-NQDTLLNNLELAKNYAETILSKVAKNLYDDYKNFGLDLEFILEEIERDLEEESKNEI------ 869
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 957 ekEVLGMYVSGHPLSQFEKElqektsmdNGKLNSLKEEEESYLQmnetdvimggMIVTKTIKTTKRNEIMAFIELEDLYG 1036
Cdd:PRK07135 870 --EYLGMSFNAFDTNKLEKN--------QIRLKDLRINTEYRLA----------IEVKNVKRLRKANKEYKKVILSDDSV 929
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*...
gi 489531519 1037 AIEIIVFPQLLQKYNVILNEDNIiyvKGTLSiKEGENAKLIAREIKDI 1084
Cdd:PRK07135 930 EITIFVNDNDYLLFETLKKGDIY---EFLIS-KSKNNKFYIINNKKKE 973
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
5-1146 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 632.07 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVytaarglrdkDPNYD 84
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLEL----------NIFVE 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 85 KYQGHLVLLAKNMEGYKNLIKIvSTSYVEGfyykpRVDMEELKKHNKGIialsaclagdvarALMNRNYEKAKQFALDYr 164
Cdd:PRK07279 72 EQEVTLRLIAKNTQGYKNLLKI-STAKMSG-----KKQFSDLSQYLEGI-------------AVIVPYFDWSETLELPF- 131
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 165 difgeeNFFLEIqDHNLPEQKevnsglvklSKETGIPLVAtndVHYVNKEDSKIHDVLMCIQMGKTLND-PNRmrfGSDE 243
Cdd:PRK07279 132 ------DYYIGV-DQETPGSD---------FKRPILPLRT---VRYFESADRETLQMLHAIRDNLSLREvPLV---SSDQ 189
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 244 FyLKSREEMEELFP-YALEAIDNTVKIadMCNVEFDFNT-IHLPKYDvPEGYTPEtYLRELCFNGLKERYDNpSNEILER 321
Cdd:PRK07279 190 E-LISCQSLETLFQeRFPQALDNLEKL--VSGISYDFDTdLKLPRFN-RDRPAVE-ELRELAELGLKEKGLW-SSPYQER 263
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 322 LNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMPDIDI 401
Cdd:PRK07279 264 LDKELSVIHDMGFDDYFLIVWDLLRFGRSQGYYMGMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDI 343
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 402 DFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFalGMTIDKALDTNPNLKEL 481
Cdd:PRK07279 344 DLPDIYRSEFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKISF--RDSLASVYEKNISFRQI 421
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 482 YDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYKHQDAITTQFTMTTLEELGLLKMDFLGLRTLTVIR 561
Cdd:PRK07279 422 INSKLEYQKAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYGDDMMITQYDAHAVEANGLLKMDFLGLRNLTFVQ 501
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 562 DTldlieKNRVIKNYTEKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRPGPMDS 641
Cdd:PRK07279 502 KM-----QEKVAKDYGIHIDIEAIDLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNRPGASDY 576
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 642 IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQYFihgkf 721
Cdd:PRK07279 577 TDNFVKRRHGQEKVDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSKKNASEMQKMEEDF----- 651
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 722 dedgnieIAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMaalitSVMGNtDKVVEY 801
Cdd:PRK07279 652 -------LQGALELGHSEEKARELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFY-----DIMLN-YSSSDY 718
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 802 IREckALEID--VLPPDINK-SFSKFsVEGDNIRFGLAAVKNVGVNIINNIIAEREsnglFVDLVDLVKRLDQKDTNKRV 878
Cdd:PRK07279 719 ITD--ALEFGfeVAKLSINTiPYHDK-IENKKIYLGLKNIKGLPRDLAYWIIENRP----FSSIEDFLTRLPENYQKKEF 791
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 879 IESLIKCGAFDNISENRASLMAGYESLLESVSmdrkknvqgqiSLFDAFGDSeedsdfqqIYSLPKRQEYEERERLNLEK 958
Cdd:PRK07279 792 LEPLIKIGLFDSFEKNRQKIINNLDNLFVFVN-----------ELGSLFADS--------SYSWVEAEDYSETEKYSLEQ 852
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 959 EVLGMYVSGHPLsqfeKELQEKTSMDNGKLNSLKEEEESYLqMNETDVImggmivtKTIKTTKRNEIMAFIELEDLYGAI 1038
Cdd:PRK07279 853 ELLGVGVSKHPL----QAIAEKSSRPFTPISQLVKNSEATI-LVQIQSI-------RVIRTKTKGQQMAFLSVTDTKKKL 920
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1039 EIIVFPQLLQKYNVILNEDNIIYVKGTLSIKEGEnAKLIAreikdinddtdfadrnynsgrtrnvENIKPESGKKLYLKI 1118
Cdd:PRK07279 921 DVTLFPETYRQYKDELKEGKFYYLKGKIQERDGR-LQMVL-------------------------QQIQEASSERFWILL 974
|
1130 1140
....*....|....*....|....*...
gi 489531519 1119 DsmsDTDTTNNIVEIAKQYPGNDSIYLY 1146
Cdd:PRK07279 975 E---NHEHDQEISEILGAFPGSIPVIIH 999
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
1-895 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 605.31 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1 MNKDFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVytaaRGLRDKD 80
Cdd:PRK05672 1 MLPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAEL----SLGPDPD 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 81 PNydkyQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKG-IIALSACLAGDVARALMNRNYEKAKQF 159
Cdd:PRK05672 77 PG----GPHLLVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGhWAILTGCRKGFVILALPYGGDAAALAA 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 160 ALDYRDIFGEENFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRF 239
Cdd:PRK05672 153 LAALLDAFFADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLA 232
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 240 GSDEFYLKSREEMEELFPYALEAIDNTVKIADMCNveFDFNTI--HLPKYDVPEGYTPETYLRELCFNGLKERYDNP-SN 316
Cdd:PRK05672 233 PNGERHLRSGAEMARLFPDYPEALAETVELAERCA--FDLDLLayEYPDEPVPAGHTPASWLRQLTEAGAARRYGPGiPP 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 317 EILERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVgPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISM 396
Cdd:PRK05672 311 KARAQIEHELALIAELGYEGYFLTVHDIVRFARSQGILC-QGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEP 389
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 397 PDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKeipfalgmTIDKALDTNP 476
Cdd:PRK05672 390 PDIDVDFEHDRREEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAK--------QVSRWSGSAD 461
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 477 NLKEL--YDQDPET---KEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPL--YKHQDAITTQFTMTTLEELGLLKM 549
Cdd:PRK05672 462 DLQRLrqAGLDPESpipRRVVELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVenAAMEGRSVIQWDKDDCAAVGLVKV 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 550 DFLGLRTLTVIRDTLDLIEKNRviknyTEKIDFSKMDYDDPKVYEMLSSGNTLGVFQLES-AGMrSFMKQLKPDNFEDIV 628
Cdd:PRK05672 542 DVLALGMLSALHRAFDLIAEHR-----GRRLTLASIPLDDPAVYDMLCRADSVGVFQVESrAQM-AMLPRLRPRTFYDLV 615
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 629 AGISLFRPGPM--DSIPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAM-SKKK 705
Cdd:PRK05672 616 VEVAIVRPGPIqgGMVHPYLRRRNGQEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMaAWRR 695
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 706 MDVMEEERQYFihgkfdedgnieIAGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMA 785
Cdd:PRK05672 696 KGRLERLRERL------------YDGMLARGYTGEFADRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCA 763
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 786 ALITSV-MG--NTDKVVeyiRECKALEIDVLPPDINKSFSKFSVEGDN-----IRFGLAAVKNVGVNIINNIIAEREsNG 857
Cdd:PRK05672 764 ALLNSQpMGfySPQQLV---QDARRHGVEVLPVDVNASGWDATLEPLPdggpaVRLGLRLVRGLGEEAAERIVAARA-RG 839
|
890 900 910
....*....|....*....|....*....|....*...
gi 489531519 858 LFVDLVDLVKRLdqkDTNKRVIESLIKCGAFDNISENR 895
Cdd:PRK05672 840 PFTSVEDLARRA---GLDRRQLEALADAGALRSLGGDR 874
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
5-912 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 579.10 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYtaarglrDKDPNYD 84
Cdd:PRK05898 2 FINLNTHSHYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGLEIE-------YQSTNAT 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 85 kyqghLVLLAKNMEGYKNLIKIVS--TSYVEGFYYKprvDMEELkkhnkgiiaLSACLAGDVaralmnrnyekakqfald 162
Cdd:PRK05898 75 -----LVLYAKNYNGYLNLIKISSfiMTNKEFEIQD---YLDDL---------FIVCKKGTF------------------ 119
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 yrdIFGEENFFLEIqdhnlpEQKEVNSglvklsketgiplVATNDVHYVNKEDSKIHDVLMCIQMGKTLND-PNRMRFgs 241
Cdd:PRK05898 120 ---VFKSPNFYQTH------NQNAPNA-------------IAFNSVFYANKNDKIVFNAMLAIKNDLKIDElKNCQDF-- 175
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 242 DEFYLKSREEMEELFpyALEAIDNTVKIADMCNVEFDFNTIHLPKYDVPEGYTPETYLRELCFNGLKER---YDNPSNEI 318
Cdd:PRK05898 176 DNNHFLNDNEAQSLF--SPIQLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEILKQLCISGLNKRlnaNDGQVKKI 253
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 319 -LERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDIDPIKYSLLFERFLNPERISMP 397
Cdd:PRK05898 254 yVKRLKYELDIINEKQFDDYFLIVYDFINFAKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMP 333
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 398 DIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKVAKEIPFALGMTIDKALDTNPN 477
Cdd:PRK05898 334 DIDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDKICKNIKPDYEEDLDLAIKKNTI 413
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 478 LKELYdqdPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPL-YKHQDAITTQFTMTTLEELGLLKMDFLGLRT 556
Cdd:PRK05898 414 LKEMY---VLHKELFDLAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIqLGINDRPLSQYSMEYLERFGLIKMDLLGLKN 490
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 557 LTVIRDTLDLIEknrviKNYTEKIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFRP 636
Cdd:PRK05898 491 LTIIDNVLKLIK-----ENQNKKIDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALFRP 565
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 637 GPMDSIPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEERQYF 716
Cdd:PRK05898 566 GPQQNIKTFVERRFKREEFSYWNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFRRAISKKDEKILIQLKKDF 645
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 717 IHgkfdedgnieiaGCIRNGVEEEIANKIFDDMIDFARYAFNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGNTD 796
Cdd:PRK05898 646 IE------------GALKNNYKQPLVNQIFEYIFSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLSHTSASKD 713
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 797 KVVEYIRECKALEIDVLPPDINKSFSKFSVEGDN--IRFGLAAVKNVGVNIINNIIAEREsNGLFVDLVDLVKRLDQKDT 874
Cdd:PRK05898 714 KLLSYLNEAKEFNISIKKPDINYSSNSFVLDTQKqiIRFGFNTIKGFGDELLKKIKSALQ-NKTFSDFISYIDALKKNNV 792
|
890 900 910
....*....|....*....|....*....|....*...
gi 489531519 875 NKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMD 912
Cdd:PRK05898 793 SLSNIEILINVGTFDSFKLSRLFLLNNLPEIFEKTSLN 830
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-285 |
0e+00 |
|
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: 548.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 4 DFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKDPNY 83
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVAPGSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 -DKYQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALD 162
Cdd:cd12113 81 gDKRYYHLVLLAKNEEGYRNLMKLVSLAYLEGFYYKPRIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAALE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 YRDIFGEENFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGSD 242
Cdd:cd12113 161 YRDIFGKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFDTD 240
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 489531519 243 EFYLKSREEMEELFPYALEAIDNTVKIADMCNVEFDFNTIHLP 285
Cdd:cd12113 241 EFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
298-553 |
3.40e-141 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 426.92 E-value: 3.40e-141
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 298 YLRELCFNGLKERYDNP-SNEILERLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPGRGSAAGSIVAYTLKITDI 376
Cdd:pfam07733 2 YLRKLVEEGLKERYGEGlPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITEV 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 377 DPIKYSLLFERFLNPERISMPDIDIDFCYERREEVIDYVKRKYGDDHVAQIITFGTMGAKAAIRDVGRVLDIGYNKVDKV 456
Cdd:pfam07733 82 DPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDRL 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 457 AKEIPFALGMtIDKALDTNPNLKELYDQDPETKEIINISKQIEGMLRHASTHAAGVVISKNPVDEYVPLYK--HQDAITT 534
Cdd:pfam07733 162 AKLIPFELGI-LEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKadDDDRPVT 240
|
250
....*....|....*....
gi 489531519 535 QFTMTTLEELGLLKMDFLG 553
Cdd:pfam07733 241 QFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-287 |
3.29e-110 |
|
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: 346.00 E-value: 3.29e-110
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 4 DFAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYtaargLRDKDPNy 83
Cdd:cd07433 1 SFVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLN-----VANPDDA- 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 84 DKYqGHLVLLAKNMEGYKNLIKIVSTSYVEGFY-YKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALD 162
Cdd:cd07433 75 DEP-FRLTLLAQNEQGYKNLTELISRAYLEGQRnGGPHIKLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQF 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 163 YRDIFGEeNFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGSD 242
Cdd:cd07433 154 LKKIFPD-RFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRYSP 232
|
250 260 270 280
....*....|....*....|....*....|....*....|....*...
gi 489531519 243 EFYLKSREEMEELF---PyalEAIDNTVKIADMCNVEFDFNTIHLPKY 287
Cdd:cd07433 233 QQYFKSAEEMAELFadlP---EAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
757-1084 |
2.83e-81 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 273.48 E-value: 2.83e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 757 FNKSHAAAYGVLAYETAYLKTYYPVEFMAALITSVMGNTDKVVEYIRECKALEIDVLPPDINKSFSKFSVEGDNIRFGLA 836
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTANSGNQDKVQKYRENCQKMGIEVEPPDINRSGKDFTPVGEKILFGLS 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 837 AVKNVGVNIINNIIAERESNGLFVDLVDLVKRLDQKDTNKRVIESLIKCGAFDNISENRASLMAGYESLLESVSMDRKKN 916
Cdd:PRK07373 118 AVRNLGEGAIESILKAREEGGEFKSLADFCDRVDLRVVNRRALETLIYCGAFDKIEPNRQQLINDLELVIDWAQKRAKEK 197
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 917 VQGQISLFDAFGDSEE-----DSDFQQIYSLPKRQEYEERERLNLEKEVLGMYVSGHPLsqfeKELQEKTSMdngkLN-- 989
Cdd:PRK07373 198 ASGQGNLFDLLGGNTSnssaaNNAFEQAPSAPPVADFSLQEKLKLEKELLGFYVSEHPL----KSIRRPARL----LSpi 269
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 990 SLKEEEEsylQMNETDVIMGGMIVTKTIKTTKRNEIMAFIELEDLYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSIK 1069
Cdd:PRK07373 270 NLSELEE---QKEKTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRR 346
|
330
....*....|....*
gi 489531519 1070 EgENAKLIAREIKDI 1084
Cdd:PRK07373 347 D-DQVQLIVEDAEPI 360
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
556-719 |
1.06e-70 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 233.19 E-value: 1.06e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 556 TLTVIRDTLDLIEKNRVIKnytekIDFSKMDYDDPKVYEMLSSGNTLGVFQLESAGMRSFMKQLKPDNFEDIVAGISLFR 635
Cdd:pfam17657 1 TLTIIRDALDLIKENRGIG-----IDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYR 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 636 PGPMDS--IPAYIKNKSNPKDVTYLHEKLKPIMEVTYGCLVYQEQVMQVVRDLGGYSYGRSDLVRRAMSKKKMDVMEEER 713
Cdd:pfam17657 76 PGPMQGgnVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGKKKPEEMEKLR 155
|
....*.
gi 489531519 714 QYFIHG 719
Cdd:pfam17657 156 EKFIEG 161
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
7-179 |
2.95e-70 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 232.05 E-value: 2.95e-70
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 7 HLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARGLRDKDPnYDKY 86
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVYVAPGSREETEK-LLAK 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 87 QGHLVLLAKNMEGYKNLIKIVSTSYVEGFyyKPRVDMEELKKHNKGIIALSACLAGDVARALMNRN-YEKAKQFALDYRD 165
Cdd:pfam02811 80 YFDLVLLAVHEVGYKNLIKLSSRAYLEGF--KPRIDKELLEEYFEGLIALSGCVLGHLDLILLAPGdYEEAEELAEEYLE 157
|
170
....*....|....
gi 489531519 166 IFGEENFFLEIQDH 179
Cdd:pfam02811 158 IFGEDGFYLEINTH 171
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
8-273 |
4.45e-59 |
|
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: 204.24 E-value: 4.45e-59
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 8 LHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAarglrdkDPNydkyq 87
Cdd:cd07435 4 LHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYLV-------DPY----- 71
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 88 gHLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFALDYRDif 167
Cdd:cd07435 72 -HITILVKNQTGLKNLYKLVSLSHTKYFYRVPRIPKSELEKYREGLLIGSACENGELFEAALNKKSDEELEEIASFYD-- 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 168 geenfFLEIQ--DHNLP-----------EQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKtlndp 234
Cdd:cd07435 149 -----YIEIQplDNYQFliekglikseeELKEINKRIIKLGKKLNKPVVATGDVHYLDPEDKIYREILLAGQGGG----- 218
|
250 260 270 280
....*....|....*....|....*....|....*....|....*
gi 489531519 235 NRMRFGSDEFYLKSREEMEELFPY-----ALEA-IDNTVKIADMC 273
Cdd:cd07435 219 DGRADEQPDLYFRTTDEMLDEFSYlgeekAYEVvVTNTNKIADMI 263
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
82-898 |
2.44e-56 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 214.70 E-value: 2.44e-56
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 82 NYDKYQG-HLVLLAKNMEGYKNLIKIVSTSYVEGFYYKPRVDMEELKKHNKGIIALSACLAGDVARALMNRNYEKAKQFA 160
Cdd:PRK00448 604 AYKKARPkHATILVKNQVGLKNLFKLVSLSNTKYFYRVPRIPRSLLDKYREGLLIGSACEEGEVFDAVLQKGDEELEEIA 683
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 161 --LDYRDIFGEENFFLEIQDHNLPEQ---KEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKtlNDPN 235
Cdd:PRK00448 684 kfYDYIEIQPPANYQHLIERELVKDEeelKEIIKNLIELGKKLNKPVVATGDVHYLDPEDKIYRKILVASQGGG--NPLN 761
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 236 RMRFgsDEFYLKSREEMEELFPY-----ALEA-IDNTVKIADMcnvefdFNTIHlPkydVPEG-YTP-----ETYLRELC 303
Cdd:PRK00448 762 RHPL--PELHFRTTDEMLDEFAFlgeelAKEIvVENTNKIADL------IEEIE-P---IKDKlYTPkiegaEEEIRELT 829
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 304 FNGLKERYDNPSNEILE-RLNYELDVIEKMGYVEYFLIVWDFINFSKENNIIVGPgRGSAAGSIVAYTLKITDIDPI--- 379
Cdd:PRK00448 830 YKKAHEIYGEPLPEIVEkRIEKELNSIIGNGFAVIYLISQKLVKKSLEDGYLVGS-RGSVGSSFVATMIGITEVNPLpph 908
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 380 ------KYSLL--------------------------------FERFLNPERISMPDIDIDFCYERREEVIDYVKRKYGD 421
Cdd:PRK00448 909 yvcpncKYSEFftdgsvgsgfdlpdkdcpkcgtklkkdghdipFETFLGFKGDKVPDIDLNFSGEYQPVAHNYTKVLFGE 988
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 422 DHVAQIITFGTMGAKAAirdvgrvldIGYnkVDKVAKEIpfalGMTIDKAldtnpnlkelydqdpetkEIINISKQIEGM 501
Cdd:PRK00448 989 DHVFRAGTIGTVAEKTA---------YGY--VKKYEEDT----GKFYRNA------------------EIDRLAQGCTGV 1035
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 502 LRHASTHAAGVVIsknpvdeyVPLYKH-------------QDA--ITTQFTMTTLEElGLLKMDFLGLRTLTVIRDTLDL 566
Cdd:PRK00448 1036 KRTTGQHPGGIIV--------VPKYMDiydftpiqypaddVNSewKTTHFDFHSIHD-NLLKLDILGHDDPTMIRMLQDL 1106
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 567 ieknrviknytEKIDFSKMDYDDPKVYEMLSSGNTLGVF--QLES-AGM-----------RSFMKQLKPDNFEDIVAgIS 632
Cdd:PRK00448 1107 -----------TGIDPKTIPMDDPKVMKLFSSTEALGVTpeQIGCeTGTlgipefgtkfvRQMLEETKPKTFAELVQ-IS 1174
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 633 -LfrpgpmdsipayiknkSNPKDV------TYLHEKLKPIMEVTyGClvyqeqvmqvvrdlggysygRSD----LVRRAM 701
Cdd:PRK00448 1175 gL----------------SHGTDVwlgnaqELIKEGIATLSDVI-GC--------------------RDDimvyLIHKGL 1217
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 702 -SKKKMDVMEEERQyfihGKFDEDGNIEIAgcIRNGVEE---EIANKIfddmidfaRYAFNKSHAAAYGVLAYETAYLKT 777
Cdd:PRK00448 1218 ePKLAFKIMESVRK----GKGLTEEEEELM--KENNVPDwyiESCKKI--------KYMFPKAHAAAYVLMAWRIAYFKV 1283
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 778 YYPVEFMAAL---------ITSVMGNTDKVVEYIRECKA---------------LEI---------DVLPPDINKS-FSK 823
Cdd:PRK00448 1284 HYPLAYYAAYfsvraddfdLETMSKGKEAIKAKMKEIKSkgndasnkekdlltvLEIalemlergfKFQKVDLYKSdATE 1363
|
890 900 910 920 930 940 950
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489531519 824 FSVEGDNIRFGLAAVKNVGVNIINNIIAEREsNGLFVDLVDLVKRldqKDTNKRVIESLIKCGAFDNISE-NRASL 898
Cdd:PRK00448 1364 FIIEGDSLIPPFNALPGLGENVAKSIVEARE-EGEFLSKEDLRKR---TKVSKTLIEKLDELGVLDDLPEtNQLSL 1435
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
6-277 |
3.79e-48 |
|
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: 169.31 E-value: 3.79e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 6 AHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAarglrdkdpnYDK 85
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTVE----------GDG 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 86 YQGHLVLLAKNMEGYKNLIKIVSTSYVEGFYY-KPRVDMEELKKHNKGIIALsaclagdvaralmnrnyekakqfaldyr 164
Cdd:cd07431 71 EPYPLLLLAKNNEGYQNLLRLSTAAMLGEEKDgVPYLDLEELAEAASGLLVV---------------------------- 122
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 165 dIFGEEnffleiqdhnlpeqkevnsgLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLmciqmgktlndpnrmrfgsdef 244
Cdd:cd07431 123 -LLGPL--------------------LLLLAAEQGLPLVATNDVHYLNPEDAFAADVL---------------------- 159
|
250 260 270
....*....|....*....|....*....|...
gi 489531519 245 ylksreemeelfpYALEAIDNTVKIADMCNVEF 277
Cdd:cd07431 160 -------------TAFLAVANTVRIAKECAVEL 179
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
5-274 |
5.11e-35 |
|
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: 134.51 E-value: 5.11e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 5 FAHLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAArGLRdkdpnyd 84
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLAD-GTR------- 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 85 kyqghLVLLAKNMEGYKNLIKIVSTSYVE---GFYykpRVDMEELKKHNKGIIALsaCLAGDVARALmnrnyEKAKQFAL 161
Cdd:cd07434 73 -----LVLLARDRAGYGRLCRLITLGRRRaekGEY---RLTLADLLAHAEGLLLI--LLPPDRLPAA-----AALLAQLR 137
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 162 DYRDIFGEeNFFLEIQDHNLPEQKEVNSGLVKLSKETGIPLVATNDVHYVNKEDSKIHDVLMCIQMGKTLNDPNRMRFGS 241
Cdd:cd07434 138 WLARAFPG-RLWLALELHLGGDDARRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAAN 216
|
250 260 270
....*....|....*....|....*....|...
gi 489531519 242 DEFYLKSREEMEELFPYALEAIDNTVKIADMCN 274
Cdd:cd07434 217 AERHLRSPAELARLFLYPPEALAETLEIAARCT 249
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
810-898 |
4.13e-33 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 122.97 E-value: 4.13e-33
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 810 IDVLPPDINKSFSKFSVEGDNIRFGLAAVKNVGVNIINNIIAEREsNGLFVDLVDLVKRLDQKdTNKRVIESLIKCGAFD 889
Cdd:pfam14579 2 IEVLPPDINRSDWDFTVEGGGIRLGLGAIKGLGEAAAERIVEERE-NGPFKSLEDFARRVDLK-LNKRVLEALIKAGAFD 79
|
....*....
gi 489531519 890 NISENRASL 898
Cdd:pfam14579 80 SLGGNRRQL 88
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
7-73 |
2.59e-26 |
|
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: 102.73 E-value: 2.59e-26
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 489531519 7 HLHVHTEYSLLDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAA 73
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
1007-1086 |
2.41e-21 |
|
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: 89.11 E-value: 2.41e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 489531519 1007 IMGGMIVTKTIKTTKRNEIMAFIELEDLYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSIKEGENaKLIAREIKDIND 1086
Cdd:cd04485 1 TVAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGL-RLIAERIEDLED 79
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
8-69 |
8.45e-13 |
|
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: 66.49 E-value: 8.45e-13
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489531519 8 LHVHTEYSLlDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEV 69
Cdd:cd07432 3 LHIHSVFSP-DSDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGVEV 63
|
|
| YciV |
COG0613 |
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and ... |
8-75 |
1.60e-11 |
|
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and metabolism];
Pssm-ID: 440378 [Multi-domain] Cd Length: 188 Bit Score: 64.55 E-value: 1.60e-11
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 489531519 8 LHVHTEYSllDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEVYTAARG 75
Cdd:COG0613 6 LHVHTTAS--DGSLSPEELVARAKAAGLDVLAITDHDTVAGYEEAAEAAKELGLLVIPGVEISTRWEG 71
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
6-70 |
3.06e-11 |
|
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: 60.52 E-value: 3.06e-11
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 489531519 6 AHLHVHTEYSLLDgFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDF--------YKTAIKEGIKPIIGCEVY 70
Cdd:cd07309 1 VDLHTHTVFSDGD-HAKLTELVDKAKELGPDALAITDHGNLRGLAEFntagk*nhIKAAEAAGIKIIIGSEVN 72
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
8-69 |
1.02e-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: 58.17 E-value: 1.02e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 489531519 8 LHVHTEYSllDGFSRVKKLIKRAKELNMSSIAITDHGCMFGVIDFYKTAIKEGIKPIIGCEV 69
Cdd:cd07438 3 LHTHSTAS--DGTLSPEELVELAKEAGLKVLAITDHDTVAGLEEALAAAKELGIELIPGVEI 62
|
|
| tRNA_anti-codon |
pfam01336 |
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ... |
1006-1084 |
3.77e-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: 51.47 E-value: 3.77e-08
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 489531519 1006 VIMGGMIVTKTikttKRNEIMAFIELEDLYGAIEIIVFPQLLQKYNVILNEDNIIYVKGTLSIKEGENAKLIAREIKDI 1084
Cdd:pfam01336 1 VTVAGRVTSIR----RSGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKGGELELVVEEIELL 75
|
|
| HIS2 |
COG1387 |
Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and ... |
8-69 |
3.67e-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: 49.38 E-value: 3.67e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 489531519 8 LHVHTEYSllDGFSRVKKLIKRAKELNMSSIAITDHGCMFGV--------IDFYKTAIKE------GIKPIIGCEV 69
Cdd:COG1387 5 LHTHTTYS--DGEGTIEEMVEAAIELGLEYIAITDHSPSLFVanglseerLLEYLEEIEElnekypDIKILKGIEV 78
|
|
| PHP_PolX |
cd07436 |
Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; The bacterial/archaeal ... |
8-43 |
1.03e-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: 1.03e-03
10 20 30
....*....|....*....|....*....|....*.
gi 489531519 8 LHVHTEYSllDGFSRVKKLIKRAKELNMSSIAITDH 43
Cdd:cd07436 9 LHVHTTWS--DGRNSIEEMAEAARALGYEYIAITDH 42
|
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