|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
1-1111 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 2041.28 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1 MSYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQEtEAYP 80
Cdd:PRK06920 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEE-KSYP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 81 LVLLAKNNEGYQNLIKISSVLKSKSKAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQLKHIFGEGHV 160
Cdd:PRK06920 80 LVLLAENEIGYQNLLKISSSIMTKSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGNFYM 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 161 YIALQPFQQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDRGEK---HFKSFDEMLE 237
Cdd:PRK06920 160 SLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTdqyYLKSSDEMEA 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 238 WYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQRKIASNDMYVKRLEYELSIIQKMNF 317
Cdd:PRK06920 240 LFSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINRLNHELNVISRMGF 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 318 SDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIISY 397
Cdd:PRK06920 320 SDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDTRRDEMIRY 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 398 VKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSELKTMLQQSEELRKVFQT 477
Cdd:PRK06920 400 VKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHERVFEI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 478 ALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQIERQENV 557
Cdd:PRK06920 480 AKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIEQKTGK 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 558 HINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMENIPLFIDRKHGRVKVSYP 637
Cdd:PRK06920 560 EIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEYL 639
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 638 HPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNIANDVYDLIV 717
Cdd:PRK06920 640 HPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIV 719
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 718 KFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSEFPFTVEKGE 797
Cdd:PRK06920 720 RFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNA 799
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 798 IRYSLRAIKNVGVSAVKDIYRARQEKPFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLASIDIALDHVSF 877
Cdd:PRK06920 800 IRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEYANL 879
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 878 L-NPEDQLDflgdttfsiKPKYAEIEEMPLVDLLQFEKEALGLYLSNHPVQAYRDRLRENGAVEIIRLSSYIKRKISMGG 956
Cdd:PRK06920 880 ArDLGDAVP---------KSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQRAIV 950
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 957 LLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIVQEAALLEEMDA-- 1034
Cdd:PRK06920 951 YITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAye 1030
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 736148167 1035 -KRKESVYIRVkEENHTQELLEQVKRVLSMHSGEADVYLYYEKQKKTMRLPDAYKVHANHAVIFQLKELLGEQNVVIK 1111
Cdd:PRK06920 1031 eKKDASVYVKL-PSQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
2-1026 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1454.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 2 SYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQETEAYPL 81
Cdd:COG0587 4 SFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDAGYHL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 82 VLLAKNNEGYQNLIKISSVLK----SKSKAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQLKHIFGE 157
Cdd:COG0587 84 VLLAKNREGYRNLCRLLSRAYlegfYKGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLKDIFGD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 158 gHVYIALQPFQQ--DESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEI---EEDRGEKHFKSF 232
Cdd:COG0587 164 -RFYLELQRHGLpeDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPgrrRFANAERYLKSP 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 233 DEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQR-KIASNDMYVKRLEYELSI 311
Cdd:COG0587 243 EEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRyPEGIPEEYRERLEYELDV 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 312 IQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRR 391
Cdd:COG0587 323 IEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCHERR 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 392 DEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSELKTMLQQSEEL 471
Cdd:COG0587 403 EEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEPELRELYDSDPEV 482
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 472 RKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQ-DGHEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQ 550
Cdd:COG0587 483 RRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLErAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIRDALDL 562
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 551 IERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMEN--IPLFIDRK 628
Cdd:COG0587 563 IKENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGgmVPPYIRRK 642
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 629 HGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNI 708
Cdd:COG0587 643 HGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEMAKQREKFVEGAVANGYDEEF 722
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 709 ANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSE 788
Cdd:COG0587 723 AEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLPPDVNESD 802
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 789 FPFTVE-KGEIRYSLRAIKNVGVSAVKDIYRARQEK-PFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLA 866
Cdd:COG0587 803 WDFTVEpGGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVDLRKLNKRVLEALIKAGAFDSLGPNRRQLLW 882
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 867 SIDIALDHVSFL---NPEDQLDFLGDTT--FSIKPKYAEIEEMPLVDLLQFEKEALGLYLSNHPVQAYRDRLRENGAVEI 941
Cdd:COG0587 883 ALEAALDAAQQAqkdKASGQLSLFGGAGdeEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYREELRRLGVTPA 962
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 942 IRLSS-YIKRKISMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQ 1020
Cdd:COG0587 963 ADLAElRDGRRVRVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVRGKVQRRDGVVH 1042
|
....*.
gi 736148167 1021 IIVQEA 1026
Cdd:COG0587 1043 LIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
3-989 |
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: 1325.47 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 3 YVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQET------ 76
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDkkrisk 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 77 --EAYPLVLLAKNNEGYQNLIKISSVLKSKS---KAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQL 151
Cdd:TIGR00594 81 gkEAYHLILLAKNNTGYRNLMKLSSLAYLEGfyyKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 152 KHIFGEGHvYIALQPF--QQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDR---GE 226
Cdd:TIGR00594 161 QEIFGDDY-YLELQDHgiPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKfysDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 227 KHFKSFDEMLEWYRDDRELLTRTVEIADRCE-VDLNLGQTKLPSY-PTPDQSTADQFLRRVCAEGMKQR------KIASN 298
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYqIPPDFTSQEDYLRHLADEGLRERlaagppGYKRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 299 DMYVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERIS 378
Cdd:TIGR00594 320 AQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 379 MPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTAS 458
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKEALEAS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 459 SELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHE-GVYLTQYAMNYLEDLGLLKMDFLG 537
Cdd:TIGR00594 480 PQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEgGAISTQYDMDDLEAVGLLKMDFLG 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 538 LRNLTLIESIKNQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGP 617
Cdd:TIGR00594 560 LKTLTLIQDATELIRKRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNALYRPGP 639
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 618 MEN--IPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHF 695
Cdd:TIGR00594 640 MESgmIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEEMAKEREKF 719
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 696 VEGCLKKEYPVNIANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEK 775
Cdd:TIGR00594 720 VEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYIAEAKKM 799
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 776 GISVLKPSINKSEFPFTVEKGEIRYSLRAIKNVGVSAVKDIYRAR-QEKPFEDLFDFCARVSPKSVNRKTIEALIFSGAM 854
Cdd:TIGR00594 800 GIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERnKNGPFKSLFDFINRVDFKKLNKKVLEALIKAGAF 879
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 855 DEFYPNRASLLASIDIALDHVSFLNPE---DQLDFLGDTTFSIKPKY---AEIEEMPLVDLLQFEKEALGLYLSNHPVQA 928
Cdd:TIGR00594 880 DSLGPNRKTLLASLDDALDAVSRKKKAealGQNSLFGALSEGTKPEYvffPPDEEWPDKKLLALEKETLGLYVSGHPLDA 959
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 736148167 929 YRDRLRENGAVEIIRLSSYIKRKI--SMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVF 989
Cdd:TIGR00594 960 YEKALKNTATPAAIEDLEAPNDSQvrTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
280-537 |
1.67e-134 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 407.66 E-value: 1.67e-134
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 280 QFLRRVCAEGMKQR-KIASNDMYVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITD 358
Cdd:pfam07733 1 EYLRKLVEEGLKERyGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 359 VDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADR 438
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 439 LAKLIPSKPGtTLKEAVTASSELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQ-DGHEGVYL 517
Cdd:pfam07733 161 LAKLIPFELG-ILEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYkADDDDRPV 239
|
250 260
....*....|....*....|
gi 736148167 518 TQYAMNYLEDLGLLKMDFLG 537
Cdd:pfam07733 240 TQFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
2-268 |
1.98e-82 |
|
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: 269.69 E-value: 1.98e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 2 SYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTA-----SVFIDEQET 76
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVyvapgSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 77 E---AYPLVLLAKNNEGYQNLIKISsvlkskSKAGLK---------EKWLKSYHRGLIAITPGASGYIETLLQHDQLEEA 144
Cdd:cd12113 81 GdkrYYHLVLLAKNEEGYRNLMKLV------SLAYLEgfyykpridKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEA 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 145 REAAKQLKHIFGEGHVYIALQ---PFQQDESLAGkLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSeiE 221
Cdd:cd12113 155 REAALEYRDIFGKDNFYLELQdhgLPEQKKVNEG-LIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLD--D 231
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 736148167 222 EDR-----GEKHFKSFDEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLP 268
Cdd:cd12113 232 PNRmrfdtDEFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
5-69 |
1.34e-20 |
|
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: 86.55 E-value: 1.34e-20
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 736148167 5 HLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASV 69
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANI 65
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
1-1111 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 2041.28 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1 MSYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQEtEAYP 80
Cdd:PRK06920 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSEEEE-KSYP 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 81 LVLLAKNNEGYQNLIKISSVLKSKSKAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQLKHIFGEGHV 160
Cdd:PRK06920 80 LVLLAENEIGYQNLLKISSSIMTKSKEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMFGNFYM 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 161 YIALQPFQQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDRGEK---HFKSFDEMLE 237
Cdd:PRK06920 160 SLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTdqyYLKSSDEMEA 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 238 WYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQRKIASNDMYVKRLEYELSIIQKMNF 317
Cdd:PRK06920 240 LFSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINRLNHELNVISRMGF 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 318 SDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIISY 397
Cdd:PRK06920 320 SDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDIDFPDTRRDEMIRY 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 398 VKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSELKTMLQQSEELRKVFQT 477
Cdd:PRK06920 400 VKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEESQSLREFIQGNLLHERVFEI 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 478 ALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQIERQENV 557
Cdd:PRK06920 480 AKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVTQYPADALEELGLLKMDFLGLRNLTLLENIIKFIEQKTGK 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 558 HINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMENIPLFIDRKHGRVKVSYP 637
Cdd:PRK06920 560 EIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPGPMEQIPTFIESKHGKRKIEYL 639
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 638 HPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNIANDVYDLIV 717
Cdd:PRK06920 640 HPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFVQGCLQNGYDETSAEKIYDLIV 719
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 718 KFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSEFPFTVEKGE 797
Cdd:PRK06920 720 RFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKGFHVLPPSLQRSGYNFQIEGNA 799
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 798 IRYSLRAIKNVGVSAVKDIYRARQEKPFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLASIDIALDHVSF 877
Cdd:PRK06920 800 IRYSLLSIRNIGMATVTALYEEREKKMFEDLFEFCLRMPSKFVTERNLEAFVWSGCFDDFGVSRTNLWKSLKGALEYANL 879
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 878 L-NPEDQLDflgdttfsiKPKYAEIEEMPLVDLLQFEKEALGLYLSNHPVQAYRDRLRENGAVEIIRLSSYIKRKISMGG 956
Cdd:PRK06920 880 ArDLGDAVP---------KSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHKKKVQRAIV 950
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 957 LLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIVQEAALLEEMDA-- 1034
Cdd:PRK06920 951 YITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTIELRNHKLQWIVNGLYPLEEMDAye 1030
|
1050 1060 1070 1080 1090 1100 1110
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 736148167 1035 -KRKESVYIRVkEENHTQELLEQVKRVLSMHSGEADVYLYYEKQKKTMRLPDAYKVHANHAVIFQLKELLGEQNVVIK 1111
Cdd:PRK06920 1031 eKKDASVYVKL-PSQYEKKLLNQVTKILFDYSGFAKVLIYYEKEHKMVQLSRSLSIHPSEECLGALREIVGEENVVVK 1107
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
2-1026 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1454.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 2 SYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQETEAYPL 81
Cdd:COG0587 4 SFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDAGYHL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 82 VLLAKNNEGYQNLIKISSVLK----SKSKAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQLKHIFGE 157
Cdd:COG0587 84 VLLAKNREGYRNLCRLLSRAYlegfYKGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLKDIFGD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 158 gHVYIALQPFQQ--DESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEI---EEDRGEKHFKSF 232
Cdd:COG0587 164 -RFYLELQRHGLpeDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPgrrRFANAERYLKSP 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 233 DEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQR-KIASNDMYVKRLEYELSI 311
Cdd:COG0587 243 EEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRyPEGIPEEYRERLEYELDV 322
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 312 IQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRR 391
Cdd:COG0587 323 IEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSMPDIDIDFCHERR 402
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 392 DEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSELKTMLQQSEEL 471
Cdd:COG0587 403 EEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEPELRELYDSDPEV 482
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 472 RKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQ-DGHEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQ 550
Cdd:COG0587 483 RRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLErAAMGGRPVTQFDKDDVEALGLLKFDFLGLRTLTVIRDALDL 562
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 551 IERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMEN--IPLFIDRK 628
Cdd:COG0587 563 IKENRGIDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYRPGPMQGgmVPPYIRRK 642
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 629 HGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNI 708
Cdd:COG0587 643 HGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEMAKQREKFVEGAVANGYDEEF 722
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 709 ANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSE 788
Cdd:COG0587 723 AEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQYVQEARRHGIEVLPPDVNESD 802
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 789 FPFTVE-KGEIRYSLRAIKNVGVSAVKDIYRARQEK-PFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLA 866
Cdd:COG0587 803 WDFTVEpGGAIRLGLGAIKGVGEAAAEAIVAAREENgPFTSLFDFCRRVDLRKLNKRVLEALIKAGAFDSLGPNRRQLLW 882
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 867 SIDIALDHVSFL---NPEDQLDFLGDTT--FSIKPKYAEIEEMPLVDLLQFEKEALGLYLSNHPVQAYRDRLRENGAVEI 941
Cdd:COG0587 883 ALEAALDAAQQAqkdKASGQLSLFGGAGdeEVAEPALPELPEWSEKEKLAAEKEALGLYLSGHPLDLYREELRRLGVTPA 962
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 942 IRLSS-YIKRKISMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQ 1020
Cdd:COG0587 963 ADLAElRDGRRVRVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVFPEVYERYRRLLLEDRLLLVRGKVQRRDGVVH 1042
|
....*.
gi 736148167 1021 IIVQEA 1026
Cdd:COG0587 1043 LIAERI 1048
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
2-1104 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1349.38 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 2 SYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASV----FIDEQETE 77
Cdd:PRK05673 1 RFVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVapekKDDVSGGG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 78 AY-PLVLLAKNNEGYQNLIKISSvlksksKAGL----------KEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEARE 146
Cdd:PRK05673 81 AYtHLTLLAKNETGYRNLFKLSS------RAYLegqygykpriDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEE 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 147 AAKQLKHIFGEgHVYIALQ--PFQQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDR 224
Cdd:PRK05673 155 AAAEYQEIFGD-RFYLELMrhGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFR 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 225 --GEKH-FKSFDEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQR-----KIA 296
Cdd:PRK05673 234 fySPEQyLKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERlaflfPDE 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 297 SNDMYVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPER 376
Cdd:PRK05673 314 ERPEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPER 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 377 ISMPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVT 456
Cdd:PRK05673 394 VSMPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPGITLAKAYE 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 457 ASSELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPI-QDGHEGVYLTQYAMNYLEDLGLLKMDF 535
Cdd:PRK05673 474 EEPELRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLyRDPDSGMPVTQFDMKDVEAAGLVKFDF 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 536 LGLRNLTLIESIKNQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRP 615
Cdd:PRK05673 554 LGLRTLTIIDDALKLIKKRRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIALVALYRP 633
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 616 GPME--NIPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERS 693
Cdd:PRK05673 634 GPMEsgMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKPEEMAKQRE 713
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 694 HFVEGCLKKEYPVNIANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAK 773
Cdd:PRK05673 714 IFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMDNTDKVAVYLDECR 793
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 774 EKGISVLKPSINKSEFPFTVEKGEIRYSLRAIKNVGVSAVKDIYRARQEK-PFEDLFDFCARVSPKSVNRKTIEALIFSG 852
Cdd:PRK05673 794 RMGIKVLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAREEGgPFKDLFDFCARVDLKKVNKRVLESLIKAG 873
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 853 AMDEFYPNRASLLASIDIALDHVSFLNPED---QLDF---LGDTTFSIKPKYAEIEEMPLVDLLQFEKEALGLYLSNHPV 926
Cdd:PRK05673 874 AFDSLGPNRAALLASLEDAVDAADQHKKAEasgQFDLfggLGEEPEDVEVSVPDVEEWDKKEKLAGERETLGLYLSGHPL 953
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 927 QAYRDRLRENGAVEIIRLSSYIKRK-ISMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTM 1005
Cdd:PRK05673 954 DGYEDELRRLRDTRLADLEPTEGGSvVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSEALEKYRDLLEEDRI 1033
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1006 LYVEGRVEVRNDSSQIIVQEAALLEEMDAKRKESVYIRVKEENHTQELLEQVKRVLSMHSGEADVYLYYEKQKK--TMRL 1083
Cdd:PRK05673 1034 VVVKGQVSFDDGGLRLTAREVMDLEEARAKYARPLRISLPDRQLTPQLLERLKQVLEPHRGTSPVHLYLQDPDAeaELRL 1113
|
1130 1140
....*....|....*....|.
gi 736148167 1084 PDAYKVHANHAVIFQLKELLG 1104
Cdd:PRK05673 1114 GDRWRVTPSDALLGDLKALLG 1134
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
3-989 |
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: 1325.47 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 3 YVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQET------ 76
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDkkrisk 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 77 --EAYPLVLLAKNNEGYQNLIKISSVLKSKS---KAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQL 151
Cdd:TIGR00594 81 gkEAYHLILLAKNNTGYRNLMKLSSLAYLEGfyyKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 152 KHIFGEGHvYIALQPF--QQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDR---GE 226
Cdd:TIGR00594 161 QEIFGDDY-YLELQDHgiPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKfysDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 227 KHFKSFDEMLEWYRDDRELLTRTVEIADRCE-VDLNLGQTKLPSY-PTPDQSTADQFLRRVCAEGMKQR------KIASN 298
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSYqIPPDFTSQEDYLRHLADEGLRERlaagppGYKRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 299 DMYVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERIS 378
Cdd:TIGR00594 320 AQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 379 MPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTAS 458
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKEALEAS 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 459 SELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHE-GVYLTQYAMNYLEDLGLLKMDFLG 537
Cdd:TIGR00594 480 PQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEgGAISTQYDMDDLEAVGLLKMDFLG 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 538 LRNLTLIESIKNQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGP 617
Cdd:TIGR00594 560 LKTLTLIQDATELIRKRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAVNALYRPGP 639
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 618 MEN--IPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHF 695
Cdd:TIGR00594 640 MESgmIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEEMAKEREKF 719
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 696 VEGCLKKEYPVNIANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEK 775
Cdd:TIGR00594 720 VEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAVYIAEAKKM 799
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 776 GISVLKPSINKSEFPFTVEKGEIRYSLRAIKNVGVSAVKDIYRAR-QEKPFEDLFDFCARVSPKSVNRKTIEALIFSGAM 854
Cdd:TIGR00594 800 GIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERnKNGPFKSLFDFINRVDFKKLNKKVLEALIKAGAF 879
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 855 DEFYPNRASLLASIDIALDHVSFLNPE---DQLDFLGDTTFSIKPKY---AEIEEMPLVDLLQFEKEALGLYLSNHPVQA 928
Cdd:TIGR00594 880 DSLGPNRKTLLASLDDALDAVSRKKKAealGQNSLFGALSEGTKPEYvffPPDEEWPDKKLLALEKETLGLYVSGHPLDA 959
|
970 980 990 1000 1010 1020
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 736148167 929 YRDRLRENGAVEIIRLSSYIKRKI--SMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVF 989
Cdd:TIGR00594 960 YEKALKNTATPAAIEDLEAPNDSQvrTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVVF 1022
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-1111 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 1295.24 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1 MSYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIG---LTA--SVFIDEQ- 74
Cdd:PRK06826 3 MSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGcevYVAprSRFDKEPd 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 75 -ETEAYPLVLLAKNNEGYQNLIKISSVlksKSKAGLKEK------WLKSYHRGLIAITPGASGYIETLLQHDQLEEAREA 147
Cdd:PRK06826 83 iDNETYHLVLLAKNETGYKNLMKIVSK---AFTEGFYYKprvdheLLKEHSEGLIALSACLAGEVPRYILKGNYEKAKEA 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 148 AKQLKHIFGEGHVYIALQP--FQQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEieEDR- 224
Cdd:PRK06826 160 ALFYKDIFGKENFYLELQDhgIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDD--ENRm 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 225 ----GEKHFKSFDEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQRKIASNDM 300
Cdd:PRK06826 238 rfpsDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPNPSEE 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 301 YVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMP 380
Cdd:PRK06826 318 LIERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSMP 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 381 DIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSE 460
Cdd:PRK06826 398 DIDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKMIPTELGITIDKALELNPE 477
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 461 LKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDgHEGVYLTQYAMNYLEDLGLLKMDFLGLRN 540
Cdd:PRK06826 478 LKEAYENDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPLQK-NDGSIVTQFTMTTLEELGLLKMDFLGLRT 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 541 LTLIESIKNQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMEN 620
Cdd:PRK06826 557 LTVIRDAVDLIKKNRGIEIDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGISLYRPGPMDS 636
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 621 IPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEG-- 698
Cdd:PRK06826 637 IPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSKKKHDVMEEERKNFIYGiv 716
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 699 ------CLKKEYPVNIANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEA 772
Cdd:PRK06826 717 deggpgCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNSVMGNSDKVAFYIEEC 796
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 773 KEKGISVLKPSINKSEFPFTVEKGEIRYSLRAIKNVGVSAVKDIYRARQEK-PFEDLFDFCARVSPKSVNRKTIEALIFS 851
Cdd:PRK06826 797 RRLGIEVLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEEREKKgKFKSLVDFCERVDTSQINKRAVESLIKA 876
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 852 GAMDEFYPNRASLLASIDIALDHVSFL---NPEDQL----DFLGDTTFSIKPKYAEIEEMPLVDLLQFEKEALGLYLSNH 924
Cdd:PRK06826 877 GAFDSLGVYRSQLLAVYEKILDSISKQrkkNIEGQIslfdLIGEEEESSLEIKYPDIKEFDKKELLAMEKEMLGLYISGH 956
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 925 PVQAYRDRLRENGAVEIIRLSSYIKR----------KISMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFR 994
Cdd:PRK06826 957 PLEEYEETLKKQTSATISDIISDEEEdgesklkdgdKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPKVYE 1036
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 995 KLSPLLEEGTMLYVEGRVEVRNDSS-QIIVQEAALLEEMDAKRkesVYIRVKEENHTQELLEQVKRVLSMHSGEADVYLY 1073
Cdd:PRK06826 1037 KYRSLLNEDNIVLIKGRVSLREDEEpKLICEEIEPLVINSEKK---LYLRVEDKKDIKLKLKELKEILKQYPGNTPVYLY 1113
|
1130 1140 1150
....*....|....*....|....*....|....*...
gi 736148167 1074 YEKQKKTMRLPDAYKVHANHAVIFQLKELLGEQNVVIK 1111
Cdd:PRK06826 1114 TEKERKKFKLDRELWVNLSPELINELKELLGEENVKVV 1151
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
1-1033 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 976.13 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1 MSYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVF---IDEQETE 77
Cdd:PRK07374 1 MAFVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMYVIngsIDDPQPK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 78 AYP---LVLLAKNNEGYQNLIKISSV-----LKSK---SKAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEARE 146
Cdd:PRK07374 81 KEKryhLVVLAKNATGYKNLVKLTTIshlngMRGRgifSRPCIDKELLKQYSEGLIVSTACLGGEIPQAILRGRPDVARD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 147 AAKQLKHIFGEGHvYIALQP--FQQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDR 224
Cdd:PRK07374 161 VAAWYKEVFGDDF-YLEIQDhgSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDEKRLR 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 225 --GEKHFKSFDEMLEWYRDD------RELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQR-KI 295
Cdd:PRK07374 240 ytGTEYIKSEEEMLRLFRDHldpeviQEAIANTVEVAEKVEEYDILGTYRMPRFPIPEGHTAVSYLTEVTEQGLLKRlKL 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 296 ASNDM----YVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERF 371
Cdd:PRK07374 320 NSLDEidenYKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIPVGPGRGSAAGSLVAYALGITNIDPVKNGLLFERF 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 372 LNPERISMPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIP---SKPg 448
Cdd:PRK07374 400 LNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIPvvrGKP- 478
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 449 TTLKEAV---TASSELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHEGVYLTQYAMNYL 525
Cdd:PRK07374 479 AKLKAMIgkeSPSPEFREKYEKDPRVKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRNNDGQVITQYFMEDI 558
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 526 EDLGLLKMDFLGLRNLTLIESIKNQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLED 605
Cdd:PRK07374 559 ESLGLLKMDFLGLKNLTMIEKTLELVEQSTGERIDPDNLPLDDEKTFELLARGDLEGIFQLESSGMRQVVRDLKPSSLED 638
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 606 IVAVNALYRPGPMEN--IPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKK 683
Cdd:PRK07374 639 ISSILALYRPGPLDAglIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAGYSLGQADLLRRAMGKK 718
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 684 DKKVLDEERSHFVEGCLKKEYPVNIANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNED 763
Cdd:PRK07374 719 KVSEMQKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLKAHYPVAYMAALLTVNAGSSD 798
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 764 KVAQYFYEAKEKGISVLKPSINKSEFPFTVEKGEIRYSLRAIKNVGVSAVKDIYRARQEK-PFEDLFDFCARVSPKSVNR 842
Cdd:PRK07374 799 KVQRYISNCNSMGIEVMPPDINRSGIDFTPKGNRILFGLSAVKNLGDGAIRNIIAARDSDgPFKSLADLCDRLPSNVLNR 878
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 843 KTIEALIFSGAMDEFYP--NRASLLASIDIALDHVSFLNPE------DQLDFLG------DTTFSIKPKYAEIEEMPLVD 908
Cdd:PRK07374 879 RSLESLIHCGALDAFSPnaNRAQLIADLDLVLDWASSRARDrasgqgNLFDLLAgseeeaSNDLSSAPKAAPVPDYPPTE 958
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 909 LLQFEKEALGLYLSNHPVQAYRDRLRENGAVEIIRLSSYI-KRKISMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGV 987
Cdd:PRK07374 959 KLKLEKELLGFYLSDHPLKQLTEPAKLLAPISLSSLEEQPdKAKVSAIAMIPEMKQVTTRKGDRMAILQLEDLTGSCEAV 1038
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*.
gi 736148167 988 VFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIVQEAALLEEMD 1033
Cdd:PRK07374 1039 VFPKSYERLSDHLMTDTRLLVWAKVDRRDDRVQLIIDDCREIDDLR 1084
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
12-1084 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 743.39 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 12 YSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQETeayPLVLLAKNNEGY 91
Cdd:PRK07279 11 YSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIFVEEQEV---TLRLIAKNTQGY 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 92 QNLIKISSvLKSKSKAGLKEkwLKSYHRGLIAITPgasgYIETLlqhDQLEEAREAakqlkhifgeghvYIALQPfqqde 171
Cdd:PRK07279 88 KNLLKIST-AKMSGKKQFSD--LSQYLEGIAVIVP----YFDWS---ETLELPFDY-------------YIGVDQ----- 139
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 172 slAGKLRDVSQSTdIPLVAtgdVHYINREDKMAYTCLKAIKAGKQLSEIEEDRGEKHFKSFDEMLEWYR-------DDRE 244
Cdd:PRK07279 140 --ETPGSDFKRPI-LPLRT---VRYFESADRETLQMLHAIRDNLSLREVPLVSSDQELISCQSLETLFQerfpqalDNLE 213
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 245 LLTRTVEIadrcEVDLNLgqtKLPSYpTPDQSTADQfLRRVCAEGMKQRKIASnDMYVKRLEYELSIIQKMNFSDYFLIV 324
Cdd:PRK07279 214 KLVSGISY----DFDTDL---KLPRF-NRDRPAVEE-LRELAELGLKEKGLWS-SPYQERLDKELSVIHDMGFDDYFLIV 283
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 325 WDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIISYVKDKYGD 404
Cdd:PRK07279 284 WDLLRFGRSQGYYMGMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPDIDIDLPDIYRSEFLRYVRNRYGS 363
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 405 MHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKpgTTLKEAVTASSELKTMLQQSEELRKVFQTALKVEGL 484
Cdd:PRK07279 364 DHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKISFR--DSLASVYEKNISFRQIINSKLEYQKAFEIAKRIEGN 441
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 485 PRHTSTHAAGVVLSEEPLTEVVPIQDGhEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQIERQENVHINFSDI 564
Cdd:PRK07279 442 PRQTSIHAAGVVMSDDDLTNHIPLKYG-DDMMITQYDAHAVEANGLLKMDFLGLRNLTFVQKMQEKVAKDYGIHIDIEAI 520
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 565 SYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMENIPLFIDRKHGRVKVSYPHPDLYDI 644
Cdd:PRK07279 521 DLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNRPGASDYTDNFVKRRHGQEKVDLIDPVIAPI 600
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 645 LKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNIANDVYDLIVKFANYGF 724
Cdd:PRK07279 601 LEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSKKNASEMQKMEEDFLQGALELGHSEEKARELFDRMEKFAGYGF 680
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 725 NRSHAVAYSMIGFQLAYLKAHYPLYFMcglltSVIGNEDKvAQYFYEAKEKGISVLKPSINKSEFPFTVEKGEIRYSLRA 804
Cdd:PRK07279 681 NRSHAFAYSALAFQLAYFKAHYPAVFY-----DIMLNYSS-SDYITDALEFGFEVAKLSINTIPYHDKIENKKIYLGLKN 754
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 805 IKnvGVSavKDI-YRARQEKPFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLASIDIALDHVsflnpEDQ 883
Cdd:PRK07279 755 IK--GLP--RDLaYWIIENRPFSSIEDFLTRLPENYQKKEFLEPLIKIGLFDSFEKNRQKIINNLDNLFVFV-----NEL 825
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 884 LDFLGDTTFSikpkYAEIEEMPLVDLLQFEKEALGLYLSNHPVQAyrdrLRENGAVEIIRLSSYIK-RKISMGGLLTKVK 962
Cdd:PRK07279 826 GSLFADSSYS----WVEAEDYSETEKYSLEQELLGVGVSKHPLQA----IAEKSSRPFTPISQLVKnSEATILVQIQSIR 897
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 963 SIRTK-NGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIVQEaalLEEMDAKRkesVY 1041
Cdd:PRK07279 898 VIRTKtKGQQMAFLSVTDTKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERDGRLQMVLQQ---IQEASSER---FW 971
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|...
gi 736148167 1042 IRVKEENHTQElleqVKRVLSMHSGEADVYLYYEKQKKTMRLP 1084
Cdd:PRK07279 972 ILLENHEHDQE----ISEILGAFPGSIPVIIHYQEEKETIQST 1010
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
1-981 |
0e+00 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 724.17 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1 MSYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLtasvfidEQETEAYP 80
Cdd:PRK07135 1 MKLINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGL-------DLEVENFR 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 81 LVLLAKNNEGYQNLIKISSVLKSKSKAGLKEkwLKSyhRGLIAITPGASGYIETLLQHDQLEeareaakqlkhifgegHV 160
Cdd:PRK07135 74 FILLAKNYSGYKLLNELSSKKSKNKEIELND--LDS--DNIIIIDHPKNGFYAKNKEQLELK----------------NY 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 161 YIALQPFQQDESLAGKLRDVsqstdiplvatgdvhyINREDKMAYTCLKAIKAGKQLseieedrgEKHFKSFDEMLEWYR 240
Cdd:PRK07135 134 YINSNDPKIENAVYVQERKL----------------LFAEDNEYLKILNKIGNNKEE--------NSNFKFFDFEKWFED 189
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 241 DDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQRKIA-SNDMYVK-RLEYELSIIQKMNFS 318
Cdd:PRK07135 190 IDEKILKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKILKESVINKKAElKYYPNVKeRINYEYSVIKKLKFS 269
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 319 DYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIISYV 398
Cdd:PRK07135 270 NYFLIIWDFIKWARKNKISIGPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDIDIDIQDDRRDEVIDYI 349
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 399 KDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPskPGTTLKEAVTASSELKTML--QQSEELRKVFQ 476
Cdd:PRK07135 350 FEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIP--NNQSLEEAYDKNKSFFRELisKGDPIYKKLYK 427
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 477 TALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQI--ERQ 554
Cdd:PRK07135 428 IAKKLEGLPRQSGTHAAGIIISNKPITNYVPTFESKDNYNQVQYSMEFLEDFGLLKIDLLGLKNLTIIKNIEEKInkELL 507
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 555 ENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMENIPLFIDRKHGRVKV 634
Cdd:PRK07135 508 FDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRPGPIQYIPIYAKNKKNPKNI 587
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 635 SYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNIANDVYD 714
Cdd:PRK07135 588 EKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISKKDETKLDKIKDKFIEGGIKNGYSKKVLEKIYS 667
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 715 LIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSEFPFTVE 794
Cdd:PRK07135 668 LIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISNSNGSQENIKKYVKEAKNNGIKVYSPDINFSTENAVFD 747
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 795 KGEIRYSLRAIKNVGVSAVKDIYRARQEK-PFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFyPNRASLLASIDIALD 873
Cdd:PRK07135 748 NGKIFLPLIMIKGLGSVAIKKIIDERNKNgKYKNFFDFILRLKFIGISKSIIEKLIKANTLRSF-GNQDTLLNNLELAKN 826
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 874 HVSFLNPEDQLDFLGDTTFSIKPKYAEIEEMP--LVDLLQFEKEALGLYLSNHPVQAYrdrlrENgavEIIRLSSY-IKR 950
Cdd:PRK07135 827 YAETILSKVAKNLYDDYKNFGLDLEFILEEIErdLEEESKNEIEYLGMSFNAFDTNKL-----EK---NQIRLKDLrINT 898
|
970 980 990
....*....|....*....|....*....|.
gi 736148167 951 KISMGGLLTKVKSIRtKNGQSMAFVTFGDET 981
Cdd:PRK07135 899 EYRLAIEVKNVKRLR-KANKEYKKVILSDDS 928
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
3-902 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 695.05 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 3 YVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTasvfIDEQETEaYPLV 82
Cdd:PRK05898 2 FINLNTHSHYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGLE----IEYQSTN-ATLV 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 83 LLAKNNEGYQNLIKISSVLKSKskaglKEKWLKSYHRGLIAITpgASGYIEtlLQHDQLeeareaakqlkhifgeghvyi 162
Cdd:PRK05898 77 LYAKNYNGYLNLIKISSFIMTN-----KEFEIQDYLDDLFIVC--KKGTFV--FKSPNF--------------------- 126
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 163 aLQPFQQDESLAgklrdvsqstdiplVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEE--DRGEKHFKSFDEMLEWYR 240
Cdd:PRK05898 127 -YQTHNQNAPNA--------------IAFNSVFYANKNDKIVFNAMLAIKNDLKIDELKNcqDFDNNHFLNDNEAQSLFS 191
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 241 DDRelLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQRKIA----SNDMYVKRLEYELSIIQKMN 316
Cdd:PRK05898 192 PIQ--LDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEILKQLCISGLNKRLNAndgqVKKIYVKRLKYELDIINEKQ 269
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 317 FSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIIS 396
Cdd:PRK05898 270 FDDYFLIVYDFINFAKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMPDIDTDIMDERRDEVVE 349
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 397 YVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSELKTMLQQSEELrkvFQ 476
Cdd:PRK05898 350 YLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDKICKNIKPDYEEDLDLAIKKNTILKEMYVLHKEL---FD 426
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 477 TALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHEGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIKNQIERQEN 556
Cdd:PRK05898 427 LAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIQLGINDRPLSQYSMEYLERFGLIKMDLLGLKNLTIIDNVLKLIKENQN 506
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 557 VHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPMENIPLFIDRKHGRVKVSY 636
Cdd:PRK05898 507 KKIDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALFRPGPQQNIKTFVERRFKREEFSY 586
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 637 PHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNIANDVYDLI 716
Cdd:PRK05898 587 WNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFRRAISKKDEKILIQLKKDFIEGALKNNYKQPLVNQIFEYI 666
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 717 VKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSEFPFTV--E 794
Cdd:PRK05898 667 FSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLSHTSASKDKLLSYLNEAKEFNISIKKPDINYSSNSFVLdtQ 746
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 795 KGEIRYSLRAIKNVGVSAVKDIYRARQEKPFEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLASIDIALDH 874
Cdd:PRK05898 747 KQIIRFGFNTIKGFGDELLKKIKSALQNKTFSDFISYIDALKKNNVSLSNIEILINVGTFDSFKLSRLFLLNNLPEIFEK 826
|
890 900 910
....*....|....*....|....*....|.
gi 736148167 875 VS---FLNPEDQLDFLGDTTFSIKPKYAEIE 902
Cdd:PRK05898 827 TSlngHFFELNLVGLEYAKDMSVKERFLKKE 857
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
1-722 |
0e+00 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 662.59 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1 MSYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVF---IDEQET- 76
Cdd:PRK09532 1 MSFVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVIngdIEKQKRr 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 77 EAYPLVLLAKNNEGYQNLIKISSVLKSKSKAG--------LKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAA 148
Cdd:PRK09532 81 RKYHQVVLAKNTQGYKNLVKLTTISHLQGVQGkgifarpcINKELLEQYHEGLIVTSACLGGEIPQAILSGRPDAARKVA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 149 KQLKHIFGEGHvYIALQPF--QQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDR-- 224
Cdd:PRK09532 161 KWYKKLFGDDF-YLEIQDHgsQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLRys 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 225 GEKHFKSFDEMLEWYRDD------RELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQR----- 293
Cdd:PRK09532 240 GTEYLKSAEEMRLLFRDHlpddviAEAIANTLEVADKIEPYNILGEPRIPNYPVPSGHTPDTYVEEVAWQGLLERlncks 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 294 KIASNDMYVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLN 373
Cdd:PRK09532 320 RSEVEPVYKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIPVGPGRGSAAGSLVAYCLKITNIDPVHHGLLFERFLN 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 374 PERISMPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKE 453
Cdd:PRK09532 400 PERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIPVSRGKPTKL 479
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 454 AV-----TASSELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGHEGVYLTQYAMNYLEDL 528
Cdd:PRK09532 480 KVmisdeTPEPEFKEKYDNDPRVRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNNDGAVITQYFMEDLESL 559
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 529 GLLKMDFLGLRNLTLIESIKNQIERQENVHINFSDISYED-------------------QKTFELLSAGDTTGIFQLESQ 589
Cdd:PRK09532 560 GLLKMDFLGLRNLTTIQKTADLIKENRGVEIDLDQLPLDErkalkilakgeakklpkdvQKTHKLLERGDLEGIFQLESS 639
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 590 GMRQVLRRLKPSSLEDIVAVNALYRPGPMEN--IPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAG 667
Cdd:PRK09532 640 GMKQIVRDLKPSNIEDISSILALYRPGPLDAglIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQEQIMKMAQDLAG 719
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|....*
gi 736148167 668 FQLGEADLLRRAVSKKDKKVLDEERSHFVEGCLKKEYPVNIANDVYDLIVKFANY 722
Cdd:PRK09532 720 YSLGEADLLRRAMGKKKISEMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
3-1034 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 598.38 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 3 YVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQEtEAYPLV 82
Cdd:PRK05672 5 YAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGPDPDP-GGPHLL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 83 LLAKNNEGYQNLIKISSVLKSKSKAG---LKEKWLKSYHRGLIAITPGASG--YIETLLQHDQLEEAREAAKQLKHIFGE 157
Cdd:PRK05672 84 VLARDREGYGRLSRLITRARLRAGKGeyrLDLDDLAEPAGGHWAILTGCRKgfVILALPYGGDAAALAALAALLDAFFAD 163
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 158 GhVYIALQPFQQ---DESLAgKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIE---EDRGEKHFKS 231
Cdd:PRK05672 164 R-VWLELTLHGRpddDRRNA-RLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGgwlAPNGERHLRS 241
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 232 FDEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLPSYPTPDQSTADQFLRRVCAEGMKQR--KIASNDMYvKRLEYEL 309
Cdd:PRK05672 242 GAEMARLFPDYPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRygPGIPPKAR-AQIEHEL 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 310 SIIQKMNFSDYFLIVWDFMKYAHDKGIVTgPGRGSAAGSLVAYVLFITDVDPIRHGLLFERFLNPERISMPDIDIDFPDT 389
Cdd:PRK05672 321 ALIAELGYEGYFLTVHDIVRFARSQGILC-QGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERDEPPDIDVDFEHD 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 390 RRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADRLAKLIPSKPGTTLKEAVTASSELKTmlqQSE 469
Cdd:PRK05672 400 RREEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVSRWSGSADDLQRLRQAGLDP---ESP 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 470 ELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQDGH-EGVYLTQYAMNYLEDLGLLKMDFLGLRNLTLIESIK 548
Cdd:PRK05672 477 IPRRVVELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAmEGRSVIQWDKDDCAAVGLVKVDVLALGMLSALHRAF 556
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 549 NQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPmenI------P 622
Cdd:PRK05672 557 DLIAEHRGRRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVAIVRPGP---IqggmvhP 633
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 623 lFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAV-SKKDKKVLDEERSHFVEGCLK 701
Cdd:PRK05672 634 -YLRRRNGQEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMaAWRRKGRLERLRERLYDGMLA 712
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 702 KEYPVNIANDVYDLIVKFANYGFNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSV-IGnedkvaqyFY-------EAK 773
Cdd:PRK05672 713 RGYTGEFADRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQpMG--------FYspqqlvqDAR 784
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 774 EKGISVLKPSINKSEFPFTVEKG-----EIRYSLRAIKNVGVSAVKDIYRARQEKPFEDLFDFCARVspkSVNRKTIEAL 848
Cdd:PRK05672 785 RHGVEVLPVDVNASGWDATLEPLpdggpAVRLGLRLVRGLGEEAAERIVAARARGPFTSVEDLARRA---GLDRRQLEAL 861
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 849 IFSGAMDEFYPNRASllasidiALDHVSFLnPEDQLDFLGDTTFSIKPkyAEIEEMPLVDLLQFEKEALGLYLSNHPVQA 928
Cdd:PRK05672 862 ADAGALRSLGGDRRQ-------ALWAAGAA-ATERLDLLPGAPASEAA--PALPGMSEGELVAADYWTTGLSLDSHPLAL 931
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 929 YRDRLRENGAVEIIRLSSYI-KRKISMGGLLTKVKSIRTKNGqsMAFVTFGDETGEMEGVVFP---EQFRKL---SPLLE 1001
Cdd:PRK05672 932 LRPRLDARGVVSAAELLDVEdGRRVRVAGVVTHRQRPGTASG--VTFLTLEDETGMVNVVVWPglwERQRREalgARLLL 1009
|
1050 1060 1070
....*....|....*....|....*....|...
gi 736148167 1002 egtmlyVEGRVEVRNDSSQIIVQEaalLEEMDA 1034
Cdd:PRK05672 1010 ------VRGRVQNAEGVRHLVADR---LEDLSP 1033
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
280-537 |
1.67e-134 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 407.66 E-value: 1.67e-134
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 280 QFLRRVCAEGMKQR-KIASNDMYVKRLEYELSIIQKMNFSDYFLIVWDFMKYAHDKGIVTGPGRGSAAGSLVAYVLFITD 358
Cdd:pfam07733 1 EYLRKLVEEGLKERyGEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 359 VDPIRHGLLFERFLNPERISMPDIDIDFPDTRRDEIISYVKDKYGDMHVAQIVTFGTLAAKAALRDVGRVMGIDSKAADR 438
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 439 LAKLIPSKPGtTLKEAVTASSELKTMLQQSEELRKVFQTALKVEGLPRHTSTHAAGVVLSEEPLTEVVPIQ-DGHEGVYL 517
Cdd:pfam07733 161 LAKLIPFELG-ILEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYkADDDDRPV 239
|
250 260
....*....|....*....|
gi 736148167 518 TQYAMNYLEDLGLLKMDFLG 537
Cdd:pfam07733 240 TQFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
2-268 |
1.98e-82 |
|
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: 269.69 E-value: 1.98e-82
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 2 SYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTA-----SVFIDEQET 76
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVyvapgSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 77 E---AYPLVLLAKNNEGYQNLIKISsvlkskSKAGLK---------EKWLKSYHRGLIAITPGASGYIETLLQHDQLEEA 144
Cdd:cd12113 81 GdkrYYHLVLLAKNEEGYRNLMKLV------SLAYLEgfyykpridKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEA 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 145 REAAKQLKHIFGEGHVYIALQ---PFQQDESLAGkLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSeiE 221
Cdd:cd12113 155 REAALEYRDIFGKDNFYLELQdhgLPEQKKVNEG-LIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLD--D 231
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|..
gi 736148167 222 EDR-----GEKHFKSFDEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLP 268
Cdd:cd12113 232 PNRmrfdtDEFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
724-1101 |
3.13e-81 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 272.71 E-value: 3.13e-81
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 724 FNRSHAVAYSMIGFQLAYLKAHYPLYFMCGLLTSVIGNEDKVAQYFYEAKEKGISVLKPSINKSEFPFTVEKGEIRYSLR 803
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTANSGNQDKVQKYRENCQKMGIEVEPPDINRSGKDFTPVGEKILFGLS 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 804 AIKNVGVSAVKDIYRARQEKP-FEDLFDFCARVSPKSVNRKTIEALIFSGAMDEFYPNRASLLASIDIALDHVSFLNPED 882
Cdd:PRK07373 118 AVRNLGEGAIESILKAREEGGeFKSLADFCDRVDLRVVNRRALETLIYCGAFDKIEPNRQQLINDLELVIDWAQKRAKEK 197
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 883 ---QL---DFLGDTT---------FSIKPKYAEIEEMPLVDLLQFEKEALGLYLSNHPVQAYRDRLRENGAVEIIRLSSY 947
Cdd:PRK07373 198 asgQGnlfDLLGGNTsnssaannaFEQAPSAPPVADFSLQEKLKLEKELLGFYVSEHPLKSIRRPARLLSPINLSELEEQ 277
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 948 I-KRKISMGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIVQEA 1026
Cdd:PRK07373 278 KeKTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRDDQVQLIVEDA 357
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 1027 ALLEEMdakrkESVYIRVK-EENHTQELLEQVKRVLSMHSGEAD-------VYLYYEKQKKTMRLPDAYKVHANHAVIFQ 1098
Cdd:PRK07373 358 EPIEEV-----RMVMVELSpQQAGNIVSQHRLKEILQEQAGDKNkakvpviAIIQSGGNRQLVRLGQQYWVQDEHSAVQA 432
|
...
gi 736148167 1099 LKE 1101
Cdd:PRK07373 433 LQN 435
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
540-702 |
6.45e-77 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 250.14 E-value: 6.45e-77
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 540 NLTLIESIKNQIERQENVHINFSDISYEDQKTFELLSAGDTTGIFQLESQGMRQVLRRLKPSSLEDIVAVNALYRPGPME 619
Cdd:pfam17657 1 TLTIIRDALDLIKENRGIGIDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGPMQ 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 620 --NIPLFIDRKHGRVKVSYPHPDLYDILKDTYGVIVYQEQIMLIAAKMAGFQLGEADLLRRAVSKKDKKVLDEERSHFVE 697
Cdd:pfam17657 81 ggNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGKKKPEEMEKLREKFIE 160
|
....*
gi 736148167 698 GCLKK 702
Cdd:pfam17657 161 GAKEN 165
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
2-270 |
8.72e-68 |
|
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: 228.90 E-value: 8.72e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 2 SYVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQETEAYPL 81
Cdd:cd07433 1 SFVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVANPDDADEPFRL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 82 VLLAKNNEGYQNLIKISSvlKS------KSKAGLKEKWLKSYHRGLIAITPGASGYIETLLQHDQLEEAREAAKQLKHIF 155
Cdd:cd07433 81 TLLAQNEQGYKNLTELIS--RAylegqrNGGPHIKLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQFLKKIF 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 156 GeGHVYIALQ--PFQQDESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDRG---EKHFK 230
Cdd:cd07433 159 P-DRFYLELQrhGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRyspQQYFK 237
|
250 260 270 280
....*....|....*....|....*....|....*....|
gi 736148167 231 SFDEMLEWYRDDRELLTRTVEIADRCEVDLNLGQTKLPSY 270
Cdd:cd07433 238 SAEEMAELFADLPEAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
4-260 |
1.54e-51 |
|
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: 178.94 E-value: 1.54e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 4 VHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFIDEQEteaYPLVL 83
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTVEGDGEP---YPLLL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 84 LAKNNEGYQNLIKISSVLKSKSKAG----LKEKWLKSYHRGLIAITPGasgyietllqhdqleeareaakqlkhifgegh 159
Cdd:cd07431 78 LAKNNEGYQNLLRLSTAAMLGEEKDgvpyLDLEELAEAASGLLVVLLG-------------------------------- 125
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 160 vyialqpfqqdeslaGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAikagkqlseieedrgekhfksfdemlewy 239
Cdd:cd07431 126 ---------------PLLLLLAAEQGLPLVATNDVHYLNPEDAFAADVLTA----------------------------- 161
|
250 260
....*....|....*....|.
gi 736148167 240 rddRELLTRTVEIADRCEVDL 260
Cdd:cd07431 162 ---FLAVANTVRIAKECAVEL 179
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
5-165 |
2.26e-46 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 163.87 E-value: 2.26e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 5 HLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFID-EQETEAYP--- 80
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVYVAPGsREETEKLLaky 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 81 --LVLLAKNNEGYQNLIKISSVL-KSKSKAGLKEKWLKSYHRGLIAITPGASGYIET-LLQHDQLEEAREAAKQLKHIFG 156
Cdd:pfam02811 81 fdLVLLAVHEVGYKNLIKLSSRAyLEGFKPRIDKELLEEYFEGLIALSGCVLGHLDLiLLAPGDYEEAEELAEEYLEIFG 160
|
....*....
gi 736148167 157 EGHVYIALQ 165
Cdd:pfam02811 161 EDGFYLEIN 169
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
3-261 |
8.39e-37 |
|
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: 139.90 E-value: 8.39e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 3 YVHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGltaS--VFIDeqeteAYP 80
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVG---SelVLAD-----GTR 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 81 LVLLAKNNEGYQNLIKISSVLKSKSKAG---LKEKWLKSYHRGLIAITPGASgyietllQHDQLEEAREAAKQLKHIFGe 157
Cdd:cd07434 73 LVLLARDRAGYGRLCRLITLGRRRAEKGeyrLTLADLLAHAEGLLLILLPPD-------RLPAAAALLAQLRWLARAFP- 144
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 158 GHVYIALQPFQQ--DESLAGKLRDVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGKQLSEIEEDR---GEKHFKSF 232
Cdd:cd07434 145 GRLWLALELHLGgdDARRLARLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLaanAERHLRSP 224
|
250 260
....*....|....*....|....*....
gi 736148167 233 DEMLEWYRDDRELLTRTVEIADRCEVDLN 261
Cdd:cd07434 225 AELARLFLYPPEALAETLEIAARCTFSLD 253
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
776-864 |
7.61e-34 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 124.89 E-value: 7.61e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 776 GISVLKPSINKSEFPFTVEKGEIRYSLRAIKNVGVSAVKDIYRARQEKPFEDLFDFCARVSPKsVNRKTIEALIFSGAMD 855
Cdd:pfam14579 1 GIEVLPPDINRSDWDFTVEGGGIRLGLGAIKGLGEAAAERIVEERENGPFKSLEDFARRVDLK-LNKRVLEALIKAGAFD 79
|
....*....
gi 736148167 856 EFYPNRASL 864
Cdd:pfam14579 80 SLGGNRRQL 88
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
83-848 |
6.17e-31 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 132.27 E-value: 6.17e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 83 LLAKNNEGYQNLIKISS------------VLKSKskaglkekwLKSYHRGLIAITPGASGY-IETLLQHDQlEEAREAAK 149
Cdd:PRK00448 615 ILVKNQVGLKNLFKLVSlsntkyfyrvprIPRSL---------LDKYREGLLIGSACEEGEvFDAVLQKGD-EELEEIAK 684
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 150 QLKhifgeghvYIALQPFQQDESL--AGKLRD-------------VSQSTDIPLVATGDVHYINREDKMAYtclKAIKAG 214
Cdd:PRK00448 685 FYD--------YIEIQPPANYQHLieRELVKDeeelkeiiknlieLGKKLNKPVVATGDVHYLDPEDKIYR---KILVAS 753
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 215 KQLSEIEED--RGEKHFKSFDEMLE--WYRDD---REL-LTRTVEIADRCEvDLNLGQTKLpsYPtPDQSTADQFLRRVC 286
Cdd:PRK00448 754 QGGGNPLNRhpLPELHFRTTDEMLDefAFLGEelaKEIvVENTNKIADLIE-EIEPIKDKL--YT-PKIEGAEEEIRELT 829
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 287 AEgmKQRKIASN---DMYVKRLEYEL-SIIqKMNFSDYFLIVWDFMKYAHDKGIVTGPgRGSAAGSLVAYVLFITDVDPI 362
Cdd:PRK00448 830 YK--KAHEIYGEplpEIVEKRIEKELnSII-GNGFAVIYLISQKLVKKSLEDGYLVGS-RGSVGSSFVATMIGITEVNPL 905
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 363 R-----------------------------------------HGLLFERFLNPERISMPDIDIDFPDTRRDEIISYVKDK 401
Cdd:PRK00448 906 PphyvcpnckysefftdgsvgsgfdlpdkdcpkcgtklkkdgHDIPFETFLGFKGDKVPDIDLNFSGEYQPVAHNYTKVL 985
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 402 YGDMHVAQIVTFGTLAAKAA-------LRDVGRVMgidSKA-ADRLAKlipskpgttlkeavtasselktmlqqseelrk 473
Cdd:PRK00448 986 FGEDHVFRAGTIGTVAEKTAygyvkkyEEDTGKFY---RNAeIDRLAQ-------------------------------- 1030
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 474 vfqtalKVEGLPRHTSTHAAG--VVLSEEPLTEVVPIQ----DGHEGVYLTQYAMNYLEDlGLLKMDFLGLRNLTLIesi 547
Cdd:PRK00448 1031 ------GCTGVKRTTGQHPGGiiVVPKYMDIYDFTPIQypadDVNSEWKTTHFDFHSIHD-NLLKLDILGHDDPTMI--- 1100
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 548 knqieR--QENVHINFSDISYEDQKTFELLSAGDTTGIF--QLESQ-GM-----------RQVLRRLKPSSLEDIVAV-- 609
Cdd:PRK00448 1101 -----RmlQDLTGIDPKTIPMDDPKVMKLFSSTEALGVTpeQIGCEtGTlgipefgtkfvRQMLEETKPKTFAELVQIsg 1175
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 610 ----------NALYrpgpmeniplFIdrKHGRVKvsyphpdlydiLKDtygVIVYQEQIM--LIAA----KMAgFQLGEa 673
Cdd:PRK00448 1176 lshgtdvwlgNAQE----------LI--KEGIAT-----------LSD---VIGCRDDIMvyLIHKglepKLA-FKIME- 1227
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 674 dllrrAVsKKDKKVLDEE----RSH-----FVEGCLKkeypvnIandvydlivkfaNYGFNRSHAVAYSMIGFQLAYLKA 744
Cdd:PRK00448 1228 -----SV-RKGKGLTEEEeelmKENnvpdwYIESCKK------I------------KYMFPKAHAAAYVLMAWRIAYFKV 1283
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 745 HYPLYFMCGLLT---------SVIGNEDKVAQYFYE---------AKEK---------------GISVLKPSINKSE-FP 790
Cdd:PRK00448 1284 HYPLAYYAAYFSvraddfdleTMSKGKEAIKAKMKEikskgndasNKEKdlltvleialemlerGFKFQKVDLYKSDaTE 1363
|
890 900 910 920 930
....*....|....*....|....*....|....*....|....*....|....*...
gi 736148167 791 FTVEKGEIRYSLRAIKNVGVSAVKDIYRARQEKPFEDLFDFCARvspKSVNRKTIEAL 848
Cdd:PRK00448 1364 FIIEGDSLIPPFNALPGLGENVAKSIVEAREEGEFLSKEDLRKR---TKVSKTLIEKL 1418
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
4-257 |
2.51e-27 |
|
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: 112.57 E-value: 2.51e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 4 VHLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFideqetEAYPLVL 83
Cdd:cd07435 2 VELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYLV------DPYHITI 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 84 LAKNNEGYQNLIKISS------------VLKSKskaglkekwLKSYHRGLIAITPGASGYI-ETLLQHDQLEEAREAAKq 150
Cdd:cd07435 76 LVKNQTGLKNLYKLVSlshtkyfyrvprIPKSE---------LEKYREGLLIGSACENGELfEAALNKKSDEELEEIAS- 145
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 151 lkhiFgegHVYIALQPFQQDESLAGKLR---------------DVSQSTDIPLVATGDVHYINREDKMAYTCLKAIKAGK 215
Cdd:cd07435 146 ----F---YDYIEIQPLDNYQFLIEKGLikseeelkeinkriiKLGKKLNKPVVATGDVHYLDPEDKIYREILLAGQGGG 218
|
250 260 270 280
....*....|....*....|....*....|....*....|....*...
gi 736148167 216 QLSeiEEDRGEKHFKSFDEMLE---WYRDD--REL-LTRTVEIADRCE 257
Cdd:cd07435 219 DGR--ADEQPDLYFRTTDEMLDefsYLGEEkaYEVvVTNTNKIADMIE 264
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
954-1031 |
5.25e-24 |
|
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: 96.81 E-value: 5.25e-24
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 736148167 954 MGGLLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIVQEAALLEE 1031
Cdd:cd04485 2 VAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLRLIAERIEDLED 79
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
5-69 |
1.34e-20 |
|
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: 86.55 E-value: 1.34e-20
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 736148167 5 HLQVHSGYSLLSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASV 69
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANI 65
|
|
| tRNA_anti-codon |
pfam01336 |
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ... |
960-1029 |
4.18e-11 |
|
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: 59.56 E-value: 4.18e-11
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 736148167 960 KVKSIRtKNGQSMAFVTFGDETGEMEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSS-QIIVQEAALL 1029
Cdd:pfam01336 6 RVTSIR-RSGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKGGElELVVEEIELL 75
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
4-71 |
5.37e-09 |
|
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: 54.36 E-value: 5.37e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 736148167 4 VHLQVHSGYSLLSsAAKVKELVLKAKELGCKALALTDDHVMYGTVEF--------YKECKKHGIKPVIGLTASVFI 71
Cdd:cd07309 1 VDLHTHTVFSDGD-HAKLTELVDKAKELGPDALAITDHGNLRGLAEFntagk*nhIKAAEAAGIKIIIGSEVNLTV 75
|
|
| YhaM_OBF_like |
cd04492 |
YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and ... |
957-1033 |
4.63e-07 |
|
YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Pssm-ID: 239938 [Multi-domain] Cd Length: 83 Bit Score: 48.36 E-value: 4.63e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 957 LLTKVKSIRT-KNGQSMAFVTFGDETGEMEGVVF---PEQFRKLSPlleeGTMLYVEGRVEVRNDSSQIIVQEAALLEEM 1032
Cdd:cd04492 4 FLIKSKELRTaKNGKPYLALTLQDKTGEIEAKLWdasEEDEEKFKP----GDIVHVKGRVEEYRGRLQLKIQRIRLVTEE 79
|
.
gi 736148167 1033 D 1033
Cdd:cd04492 80 D 80
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
6-60 |
6.90e-06 |
|
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: 47.00 E-value: 6.90e-06
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*..
gi 736148167 6 LQVHSGYS--LLSsaakVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIK 60
Cdd:cd07438 3 LHTHSTASdgTLS----PEELVELAKEAGLKVLAITDHDTVAGLEEALAAAKELGIE 55
|
|
| YhaM |
COG3481 |
3'-5' exoribonuclease YhaM, can participate in 23S rRNA maturation, HD superfamily ... |
957-1033 |
4.11e-05 |
|
3'-5' exoribonuclease YhaM, can participate in 23S rRNA maturation, HD superfamily [Translation, ribosomal structure and biogenesis]; 3'-5' exoribonuclease YhaM, can participate in 23S rRNA maturation, HD superfamily is part of the Pathway/BioSystem: 23S rRNA modification
Pssm-ID: 442704 [Multi-domain] Cd Length: 316 Bit Score: 47.11 E-value: 4.11e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 736148167 957 LLTKVKSIRTKNGQSMAFVTFGDETGEMEGVVF---PEQFRKlsplLEEGTMLYVEGRVEVRNDSSQIIVQEAALLEEMD 1033
Cdd:COG3481 21 LIKSKELRTTKNGKPYLSLTLQDKTGTIEAKIWdasEEDIEE----FQPGDVVKVRGKVQEYQGRLQLKITRIRLADEEE 96
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
6-71 |
1.26e-04 |
|
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase catalyzes the eighth step of histidine biosynthesis, in which L-histidinol phosphate undergoes dephosphorylation to produce histidinol. HisPPase can be classified into two types: the bifunctional HisPPase found in proteobacteria that belongs to the DDDD superfamily and the monofunctional Bacillus subtilis type that is a member of the PHP family. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. The PHP domain of HisPPase is structurally homologous to other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213987 [Multi-domain] Cd Length: 129 Bit Score: 43.00 E-value: 1.26e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 736148167 6 LQVHSGYSLlSSAAKVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIGLTASVFI 71
Cdd:cd07432 3 LHIHSVFSP-DSDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGVEVTLVV 67
|
|
| YciV |
COG0613 |
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and ... |
6-64 |
7.82e-04 |
|
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and metabolism];
Pssm-ID: 440378 [Multi-domain] Cd Length: 188 Bit Score: 41.82 E-value: 7.82e-04
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 736148167 6 LQVHSGYS--LLSsaakVKELVLKAKELGCKALALTDDHVMYGTVEFYKECKKHGIKPVIG 64
Cdd:COG0613 6 LHVHTTASdgSLS----PEELVARAKAAGLDVLAITDHDTVAGYEEAAEAAKELGLLVIPG 62
|
|
| RPA2_OBF_family |
cd03524 |
RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold ... |
956-1023 |
1.02e-03 |
|
RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyrococcus abyssi DNA polymerase II (Pol II) small subunit, Sulfolobus solfataricus SSB, and Bacillus subtilis YhaM (a 3'-to-5'exoribonuclease). It also includes the OB folds of breast cancer susceptibility gene 2 protein (BRCA2), Oxytricha nova telomere end binding protein (TEBP), Saccharomyces cerevisiae telomere-binding protein (Cdc13), and human protection of telomeres 1 protein (POT1).
Pssm-ID: 239601 [Multi-domain] Cd Length: 75 Bit Score: 38.88 E-value: 1.02e-03
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 736148167 956 GLLTKVKSIRTKNGQSMAFVTfgDETGE-MEGVVFPEQFRKLSPLLEEGTMLYVEGRVEVRNDSSQIIV 1023
Cdd:cd03524 4 GIVVAVEEIRTEGKVLIFTLT--DGTGGtIRVTLFGELAEELENLLKEGQVVYIKGKVKKFRGRLQLIV 70
|
|
| |
