|
Name |
Accession |
Description |
Interval |
E-value |
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
6-1026 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 928.32 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKtekHY 85
Cdd:COG0587 5 FVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDA---GY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 HQLLLAKNEVGFRNLMKLSSIGFIDGFH-GRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF-DAL 163
Cdd:COG0587 82 HLVLLAKNREGYRNLCRLLSRAYLEGFYkGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLkDIF 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 164 KD-FYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP--PMYPSEEsYWLK 240
Cdd:COG0587 162 GDrFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPgrRRFANAE-RYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 241 GS---KQVFIDfisqgYPkeqviEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPK-VTT 316
Cdd:COG0587 241 SPeemAELFAD-----LP-----EALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEgIPE 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 317 TYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKM 396
Cdd:COG0587 311 EYRERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSM 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 397 PDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPN--KMLIEEVYQVVP 474
Cdd:COG0587 391 PDIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNdpGITLEKALEEEP 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 475 KLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLH--GTKEETAVQWNKDDVEEMGG 552
Cdd:COG0587 471 ELRELYDSDPEVRR--------LLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLEraAMGGRPVTQFDKDDVEALGL 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 553 VKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIARraDDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVA 632
Cdd:COG0587 543 LKFDFLGLRTLTVIRDALDLIKENRGIDIDLADIPL--DDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVA 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 633 INALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLRK-MS---AE 708
Cdd:COG0587 621 LVALYRPGPMQGGMVPPYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRaMGkkkKE 700
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 709 QLEELRMEFINDAEHHmkltSYDPKFksqMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKM 788
Cdd:COG0587 701 EMAKQREKFVEGAVAN----GYDEEF---AEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQP 773
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 789 SDQDVLAKVFQDIKRENFEVVAPDINKSELSF-VASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLDDLFDKVNK 863
Cdd:COG0587 774 MGFYKPAQYVQEARRHGIEVLPPDVNESDWDFtVEPGGAIRLGLGAIKGVGEAAAEAIVAAReengPFTSLFDFCRRVDL 853
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 864 QIVSKRAMKPLVFAGAFDNLHPelTRKEIY--IKYLQLKKEKKAEIEEAQQM--------------------EWNESIMA 921
Cdd:COG0587 854 RKLNKRVLEALIKAGAFDSLGP--NRRQLLwaLEAALDAAQQAQKDKASGQLslfggagdeevaepalpelpEWSEKEKL 931
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 922 EKEKELLGVYVTYNPMDKY--HLK-----PWSSFVDGGTGAF--TAGQINKVKAFNDKNGNRMAFASLDTQEGVRELVIF 992
Cdd:COG0587 932 AAEKEALGLYLSGHPLDLYreELRrlgvtPAADLAELRDGRRvrVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVF 1011
|
1050 1060 1070
....*....|....*....|....*....|....*...
gi 1631914333 993 SHIYASNSDLIKKNKKVMAEGK--RDGE--KLIVNTIK 1026
Cdd:COG0587 1012 PEVYERYRRLLLEDRLLLVRGKvqRRDGvvHLIAERIE 1049
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
6-1029 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 884.06 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRAD--KTEK 83
Cdd:PRK05673 2 FVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKDDvsGGGA 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 84 HYHQLLLAKNEVGFRNLMKLSSIGFIDGFHG-RPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF-D 161
Cdd:PRK05673 82 YTHLTLLAKNETGYRNLFKLSSRAYLEGQYGyKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAAEYqE 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 162 ALKD-FYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP--PMYPSEEsYW 238
Cdd:PRK05673 162 IFGDrFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPdrFRFYSPE-QY 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 239 LKGSKQ---VFIDfisqgYPkeqviEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPKVT 315
Cdd:PRK05673 241 LKSAEEmreLFAD-----LP-----EALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLF 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 316 T-----TYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLD 390
Cdd:PRK05673 311 PdeerpEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLN 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 391 ITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPN--KMLIEE 468
Cdd:PRK05673 391 PERVSMPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPdpGITLAK 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 469 VYQVVPKLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAV--QWNKDD 546
Cdd:PRK05673 471 AYEEEPELRELYESDPEVKR--------LIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPvtQFDMKD 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 547 VEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTE 626
Cdd:PRK05673 543 VEAAGLVKFDFLGLRTLTIIDDALKLIKKRRGIDVDLEAIP--LDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDC 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 627 FKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLRK-M 705
Cdd:PRK05673 621 FEDIIALVALYRPGPMESGMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRaM 700
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 706 S---AEQLEELRMEFINDAEHHmkltSYDpkfKSQMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSA 782
Cdd:PRK05673 701 GkkkPEEMAKQREIFVEGAKKN----GID---EEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAA 773
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 783 ILTSKMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLDDLF 858
Cdd:PRK05673 774 LLTSDMDNTDKVAVYLDECRRMGIKVLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAReeggPFKDLFDFC 853
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 859 DKVNKQIVSKRAMKPLVFAGAFDNLHPelTRK------EIYIKYLQ------------LKKEKKAEIEEAQQM-----EW 915
Cdd:PRK05673 854 ARVDLKKVNKRVLESLIKAGAFDSLGP--NRAallaslEDAVDAADqhkkaeasgqfdLFGGLGEEPEDVEVSvpdveEW 931
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 916 NESIMAEKEKELLGVYVTYNPMDKY--HLK-----PWSSF--VDGGTGAFTAGQINKVKAFNDKNGNRMAFASLDTQEGV 986
Cdd:PRK05673 932 DKKEKLAGERETLGLYLSGHPLDGYedELRrlrdtRLADLepTEGGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGR 1011
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*..
gi 1631914333 987 RELVIFSHIYASNSDLIKKNKKVMAEG---KRDGE-KLIVNTIKELD 1029
Cdd:PRK05673 1012 IEVMLFSEALEKYRDLLEEDRIVVVKGqvsFDDGGlRLTAREVMDLE 1058
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
6-992 |
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: 843.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKTEKH- 84
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDKKRISk 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 85 ----YHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF 160
Cdd:TIGR00594 81 gkeaYHLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 161 DAL--KDFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDPP---MYPSEe 235
Cdd:TIGR00594 161 QEIfgDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKrlkFYSDE- 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 236 sYWLKGSKQVFIDFisQGYPkeqviEAMNNTGKVADEV-DFELKKDKDLLPVFPLEGDTTSLKQ-IQAMIKDGLKRKIPK 313
Cdd:TIGR00594 240 -FYLKSPEEMAELF--ADIP-----EALANTVEIAERCnLVDVKLGPPRLPSYQIPPDFTSQEDyLRHLADEGLRERLAA 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 314 V------TTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFER 387
Cdd:TIGR00594 312 GppgykrRAQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFER 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 388 FLDITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPN--KML 465
Cdd:TIGR00594 392 FLNPERISMPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPrpGKT 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 466 IEEVYQVVPKLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAV--QWN 543
Cdd:TIGR00594 472 LKEALEASPQLRQLYEEDPEVKQ--------LIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAIstQYD 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 544 KDDVEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVK 623
Cdd:TIGR00594 544 MDDLEAVGLLKMDFLGLKTLTLIQDATELIRKRRGIDLDIASIP--LDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLK 621
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 624 PTEFKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR 703
Cdd:TIGR00594 622 PDGFEDIIAVNALYRPGPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLR 701
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 704 ----KMSAEQLEELRMEFINDAEHHmkltSYDPKfksQMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHY 779
Cdd:TIGR00594 702 ramgKKKAEEMAKEREKFVEGAEKN----GYDPE---IAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEF 774
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 780 MSAILTSKMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLD 855
Cdd:TIGR00594 775 MAALLTSEINDIEKVAVYIAEAKKMGIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERnkngPFKSLF 854
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 856 DLFDKVNKQIVSKRAMKPLVFAGAFDNLHP----------------ELTRKEIYIKYLQLKKEKKAEIEEAQQ-----ME 914
Cdd:TIGR00594 855 DFINRVDFKKLNKKVLEALIKAGAFDSLGPnrktllaslddaldavSRKKKAEALGQNSLFGALSEGTKPEYVffppdEE 934
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 915 WNESIMAEKEKELLGVYVTYNPMDKYhLKPWSSFVDG----------GTGAFTAGQINKV-KAFNDKNGNRMAFASLDTQ 983
Cdd:TIGR00594 935 WPDKKLLALEKETLGLYVSGHPLDAY-EKALKNTATPaaiedleapnDSQVRTLGGLNSVkKKITTKNGKPMAFLQLEDE 1013
|
....*....
gi 1631914333 984 EGVRELVIF 992
Cdd:TIGR00594 1014 TGSIEVVVF 1022
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
6-285 |
1.77e-97 |
|
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: 309.37 E-value: 1.77e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKT---- 81
Cdd:cd12113 2 FVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVAPGSRFDKKdkkg 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 82 -EKHYHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF 160
Cdd:cd12113 82 dKRYYHLVLLAKNEEGYRNLMKLVSLAYLEGFYYKPRIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAALEY 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 161 DAL---KDFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP-PMYPSEES 236
Cdd:cd12113 162 RDIfgkDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPnRMRFDTDE 241
|
250 260 270 280
....*....|....*....|....*....|....*....|....*....
gi 1631914333 237 YWLKGSKQVFIDFisQGYPkeqviEAMNNTGKVADEVDFELKKDKDLLP 285
Cdd:cd12113 242 FYLKSPEEMRELF--PDVP-----EALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
302-559 |
6.82e-92 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 293.25 E-value: 6.82e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 302 MIKDGLKRKIPK-VTTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIK 380
Cdd:pfam07733 6 LVEEGLKERYGEgLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITEVDPLK 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 381 HGLFFERFLDITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLI 460
Cdd:pfam07733 86 HDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDRLAKLI 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 461 PNKM-LIEEVYQVVPKLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLH--GTKEE 537
Cdd:pfam07733 166 PFELgILEKALEEEPELKELIESDPEVKR--------LIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYkaDDDDR 237
|
250 260
....*....|....*....|..
gi 1631914333 538 TAVQWNKDDVEEMGGVKFDFLG 559
Cdd:pfam07733 238 PVTQFDKDDLEDLGLLKMDFLG 259
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
9-71 |
6.24e-16 |
|
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: 73.07 E-value: 6.24e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1631914333 9 LHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGY 71
Cdd:smart00481 2 LHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEAN 64
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
6-1026 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 928.32 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKtekHY 85
Cdd:COG0587 5 FVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDA---GY 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 HQLLLAKNEVGFRNLMKLSSIGFIDGFH-GRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF-DAL 163
Cdd:COG0587 82 HLVLLAKNREGYRNLCRLLSRAYLEGFYkGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLkDIF 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 164 KD-FYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP--PMYPSEEsYWLK 240
Cdd:COG0587 162 GDrFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPgrRRFANAE-RYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 241 GS---KQVFIDfisqgYPkeqviEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPK-VTT 316
Cdd:COG0587 241 SPeemAELFAD-----LP-----EALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEgIPE 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 317 TYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKM 396
Cdd:COG0587 311 EYRERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSM 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 397 PDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPN--KMLIEEVYQVVP 474
Cdd:COG0587 391 PDIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNdpGITLEKALEEEP 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 475 KLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLH--GTKEETAVQWNKDDVEEMGG 552
Cdd:COG0587 471 ELRELYDSDPEVRR--------LLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLEraAMGGRPVTQFDKDDVEALGL 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 553 VKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIARraDDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVA 632
Cdd:COG0587 543 LKFDFLGLRTLTVIRDALDLIKENRGIDIDLADIPL--DDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVA 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 633 INALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLRK-MS---AE 708
Cdd:COG0587 621 LVALYRPGPMQGGMVPPYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRaMGkkkKE 700
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 709 QLEELRMEFINDAEHHmkltSYDPKFksqMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKM 788
Cdd:COG0587 701 EMAKQREKFVEGAVAN----GYDEEF---AEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQP 773
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 789 SDQDVLAKVFQDIKRENFEVVAPDINKSELSF-VASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLDDLFDKVNK 863
Cdd:COG0587 774 MGFYKPAQYVQEARRHGIEVLPPDVNESDWDFtVEPGGAIRLGLGAIKGVGEAAAEAIVAAReengPFTSLFDFCRRVDL 853
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 864 QIVSKRAMKPLVFAGAFDNLHPelTRKEIY--IKYLQLKKEKKAEIEEAQQM--------------------EWNESIMA 921
Cdd:COG0587 854 RKLNKRVLEALIKAGAFDSLGP--NRRQLLwaLEAALDAAQQAQKDKASGQLslfggagdeevaepalpelpEWSEKEKL 931
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 922 EKEKELLGVYVTYNPMDKY--HLK-----PWSSFVDGGTGAF--TAGQINKVKAFNDKNGNRMAFASLDTQEGVRELVIF 992
Cdd:COG0587 932 AAEKEALGLYLSGHPLDLYreELRrlgvtPAADLAELRDGRRvrVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVF 1011
|
1050 1060 1070
....*....|....*....|....*....|....*...
gi 1631914333 993 SHIYASNSDLIKKNKKVMAEGK--RDGE--KLIVNTIK 1026
Cdd:COG0587 1012 PEVYERYRRLLLEDRLLLVRGKvqRRDGvvHLIAERIE 1049
|
|
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
6-1029 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 884.06 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRAD--KTEK 83
Cdd:PRK05673 2 FVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKDDvsGGGA 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 84 HYHQLLLAKNEVGFRNLMKLSSIGFIDGFHG-RPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF-D 161
Cdd:PRK05673 82 YTHLTLLAKNETGYRNLFKLSSRAYLEGQYGyKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAAEYqE 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 162 ALKD-FYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP--PMYPSEEsYW 238
Cdd:PRK05673 162 IFGDrFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPdrFRFYSPE-QY 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 239 LKGSKQ---VFIDfisqgYPkeqviEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPKVT 315
Cdd:PRK05673 241 LKSAEEmreLFAD-----LP-----EALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLF 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 316 T-----TYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLD 390
Cdd:PRK05673 311 PdeerpEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLN 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 391 ITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPN--KMLIEE 468
Cdd:PRK05673 391 PERVSMPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPdpGITLAK 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 469 VYQVVPKLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAV--QWNKDD 546
Cdd:PRK05673 471 AYEEEPELRELYESDPEVKR--------LIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPvtQFDMKD 542
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 547 VEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTE 626
Cdd:PRK05673 543 VEAAGLVKFDFLGLRTLTIIDDALKLIKKRRGIDVDLEAIP--LDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDC 620
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 627 FKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLRK-M 705
Cdd:PRK05673 621 FEDIIALVALYRPGPMESGMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRaM 700
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 706 S---AEQLEELRMEFINDAEHHmkltSYDpkfKSQMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSA 782
Cdd:PRK05673 701 GkkkPEEMAKQREIFVEGAKKN----GID---EEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAA 773
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 783 ILTSKMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLDDLF 858
Cdd:PRK05673 774 LLTSDMDNTDKVAVYLDECRRMGIKVLPPDVNESLYDFTVVDGDIRYGLGAIKGVGEGAVEAIVEAReeggPFKDLFDFC 853
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 859 DKVNKQIVSKRAMKPLVFAGAFDNLHPelTRK------EIYIKYLQ------------LKKEKKAEIEEAQQM-----EW 915
Cdd:PRK05673 854 ARVDLKKVNKRVLESLIKAGAFDSLGP--NRAallaslEDAVDAADqhkkaeasgqfdLFGGLGEEPEDVEVSvpdveEW 931
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 916 NESIMAEKEKELLGVYVTYNPMDKY--HLK-----PWSSF--VDGGTGAFTAGQINKVKAFNDKNGNRMAFASLDTQEGV 986
Cdd:PRK05673 932 DKKEKLAGERETLGLYLSGHPLDGYedELRrlrdtRLADLepTEGGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGR 1011
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*..
gi 1631914333 987 RELVIFSHIYASNSDLIKKNKKVMAEG---KRDGE-KLIVNTIKELD 1029
Cdd:PRK05673 1012 IEVMLFSEALEKYRDLLEEDRIVVVKGqvsFDDGGlRLTAREVMDLE 1058
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
6-992 |
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: 843.58 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKTEKH- 84
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDKKRISk 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 85 ----YHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF 160
Cdd:TIGR00594 81 gkeaYHLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 161 DAL--KDFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDPP---MYPSEe 235
Cdd:TIGR00594 161 QEIfgDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKrlkFYSDE- 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 236 sYWLKGSKQVFIDFisQGYPkeqviEAMNNTGKVADEV-DFELKKDKDLLPVFPLEGDTTSLKQ-IQAMIKDGLKRKIPK 313
Cdd:TIGR00594 240 -FYLKSPEEMAELF--ADIP-----EALANTVEIAERCnLVDVKLGPPRLPSYQIPPDFTSQEDyLRHLADEGLRERLAA 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 314 V------TTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFER 387
Cdd:TIGR00594 312 GppgykrRAQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFER 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 388 FLDITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPN--KML 465
Cdd:TIGR00594 392 FLNPERISMPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPrpGKT 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 466 IEEVYQVVPKLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAV--QWN 543
Cdd:TIGR00594 472 LKEALEASPQLRQLYEEDPEVKQ--------LIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAIstQYD 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 544 KDDVEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVK 623
Cdd:TIGR00594 544 MDDLEAVGLLKMDFLGLKTLTLIQDATELIRKRRGIDLDIASIP--LDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLK 621
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 624 PTEFKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR 703
Cdd:TIGR00594 622 PDGFEDIIAVNALYRPGPMESGMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLR 701
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 704 ----KMSAEQLEELRMEFINDAEHHmkltSYDPKfksQMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHY 779
Cdd:TIGR00594 702 ramgKKKAEEMAKEREKFVEGAEKN----GYDPE---IAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEF 774
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 780 MSAILTSKMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLD 855
Cdd:TIGR00594 775 MAALLTSEINDIEKVAVYIAEAKKMGIEVLPPDINESGQDFAVEDKGIRYGLGAIKGVGESVVKSIIEERnkngPFKSLF 854
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 856 DLFDKVNKQIVSKRAMKPLVFAGAFDNLHP----------------ELTRKEIYIKYLQLKKEKKAEIEEAQQ-----ME 914
Cdd:TIGR00594 855 DFINRVDFKKLNKKVLEALIKAGAFDSLGPnrktllaslddaldavSRKKKAEALGQNSLFGALSEGTKPEYVffppdEE 934
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 915 WNESIMAEKEKELLGVYVTYNPMDKYhLKPWSSFVDG----------GTGAFTAGQINKV-KAFNDKNGNRMAFASLDTQ 983
Cdd:TIGR00594 935 WPDKKLLALEKETLGLYVSGHPLDAY-EKALKNTATPaaiedleapnDSQVRTLGGLNSVkKKITTKNGKPMAFLQLEDE 1013
|
....*....
gi 1631914333 984 EGVRELVIF 992
Cdd:TIGR00594 1014 TGSIEVVVF 1022
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
6-1029 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 786.39 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKT---- 81
Cdd:PRK06826 5 FVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVYVAPRSRFDKEpdid 84
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 82 EKHYHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKFD 161
Cdd:PRK06826 85 NETYHLVLLAKNETGYKNLMKIVSKAFTEGFYYKPRVDHELLKEHSEGLIALSACLAGEVPRYILKGNYEKAKEAALFYK 164
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 162 AL--KD-FYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDPP-M-YPSEES 236
Cdd:PRK06826 165 DIfgKEnFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENrMrFPSDEF 244
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 237 YwLKGSKQVFIDFisqGYpkeqVIEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPKVTT 316
Cdd:PRK06826 245 Y-LKSPEEMYELF---SY----VPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKRYPNPSE 316
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 317 TYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKM 396
Cdd:PRK06826 317 ELIERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSM 396
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 397 PDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPNK--MLIEEVYQVVP 474
Cdd:PRK06826 397 PDIDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKMIPTElgITIDKALELNP 476
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 475 KLAKMRKETVETKQgkripLEDvfkMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAVQWNKDDVEEMGGVK 554
Cdd:PRK06826 477 ELKEAYENDERVRE-----LID---TARALEGLPRHASTHAAGVVISSEPLVEYVPLQKNDGSIVTQFTMTTLEELGLLK 548
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 555 FDFLGLKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVAIN 634
Cdd:PRK06826 549 MDFLGLRTLTVIRDAVDLIKKNRGIEIDLDKID--YDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGI 626
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 635 ALYRPPALASGDtwRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLRK-MS---AEQL 710
Cdd:PRK06826 627 SLYRPGPMDSIP--RYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRaMSkkkHDVM 704
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 711 EELRMEFINDAEHHMKLTS----YDPKFKsqmNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTS 786
Cdd:PRK06826 705 EEERKNFIYGIVDEGGPGCirngIDEETA---NKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNS 781
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 787 KMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR----PYTSLDDLFDKVN 862
Cdd:PRK06826 782 VMGNSDKVAFYIEECRRLGIEVLPPDINESYSKFTVEGDKIRFGLAAVKNVGENAIDSIVEERekkgKFKSLVDFCERVD 861
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 863 KQIVSKRAMKPLVFAGAFDNLhpELTRK---EIYIKYL-------------QLKKEKKAEIEEAQQM--------EWNES 918
Cdd:PRK06826 862 TSQINKRAVESLIKAGAFDSL--GVYRSqllAVYEKILdsiskqrkkniegQISLFDLIGEEEESSLeikypdikEFDKK 939
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 919 IMAEKEKELLGVYVTYNPMDKY------------------HLKPWSSFVDGGTGAFTAGQINKVKAFNDKNGNRMAFASL 980
Cdd:PRK06826 940 ELLAMEKEMLGLYISGHPLEEYeetlkkqtsatisdiisdEEEDGESKLKDGDKVIIGGIITEVKRKTTRNNEMMAFLTL 1019
|
1050 1060 1070 1080 1090
....*....|....*....|....*....|....*....|....*....|....
gi 1631914333 981 DTQEGVRELVIFSHIYASNSDLIKKNKKVMAEGK---RDGE--KLIVNTIKELD 1029
Cdd:PRK06826 1020 EDLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRvslREDEepKLICEEIEPLV 1073
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
6-1029 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 656.80 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRAD---KTE 82
Cdd:PRK07374 3 FVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMYVINGSIDDpqpKKE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 83 KHYHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSF-----DDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLI 157
Cdd:PRK07374 83 KRYHLVVLAKNATGYKNLVKLTTISHLNGMRGRGIFSRpcidkELLKQYSEGLIVSTACLGGEIPQAILRGRPDVARDVA 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 158 RKFDAL--KDFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLC-LARKATMDDPPM-YPS 233
Cdd:PRK07374 163 AWYKEVfgDDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCvLTGKLISDEKRLrYTG 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 234 EEsyWLKGSKQ---VFIDFIsqgyPKEQVIEAMNNTGKVADEVDfelkkDKDLL-----PVFPLEGDTTSLKQIQAMIKD 305
Cdd:PRK07374 243 TE--YIKSEEEmlrLFRDHL----DPEVIQEAIANTVEVAEKVE-----EYDILgtyrmPRFPIPEGHTAVSYLTEVTEQ 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 306 GLKRKIPK-----VTTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIK 380
Cdd:PRK07374 312 GLLKRLKLnsldeIDENYKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIPVGPGRGSAAGSLVAYALGITNIDPVK 391
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 381 HGLFFERFLDITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLI 460
Cdd:PRK07374 392 NGLLFERFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLI 471
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 461 PnkmlieeVYQVVP-KLAKMRKETVETKQGKRIPLED--VFK---MAEAFEGVISNTSIHAGGILITPDELTNHFPLHGT 534
Cdd:PRK07374 472 P-------VVRGKPaKLKAMIGKESPSPEFREKYEKDprVKKwvdMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRN 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 535 KE-ETAVQWNKDDVEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSS 613
Cdd:PRK07374 545 NDgQVITQYFMEDIESLGLLKMDFLGLKNLTMIEKTLELVEQSTGERIDPDNLP--LDDEKTFELLARGDLEGIFQLESS 622
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 614 GMRDLCKKVKPTEFKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAG 693
Cdd:PRK07374 623 GMRQVVRDLKPSSLEDISSILALYRPGPLDAGLIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQDLAG 702
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 694 WDYGRGDKLRK-MSAEQLEEL---RMEFINDAehhmKLTSYDPKFKsqmNELWDRIVQYMGYGFNKSHGVAYSMLTYLTV 769
Cdd:PRK07374 703 YSLGQADLLRRaMGKKKVSEMqkhRGIFVEGA----SKRGVDEKVA---DELFDQMVLFAEYCFNKSHSTAYGAVTYQTA 775
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 770 YLEHYYPEHYMSAILTSKMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR 849
Cdd:PRK07374 776 YLKAHYPVAYMAALLTVNAGSSDKVQRYISNCNSMGIEVMPPDINRSGIDFTPKGNRILFGLSAVKNLGDGAIRNIIAAR 855
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 850 ----PYTSLDDLFDKVNKQIVSKRAMKPLVFAGAFDNLHPELTRKEIyIKYLQLKkekkaeieeaqqMEWNES------- 918
Cdd:PRK07374 856 dsdgPFKSLADLCDRLPSNVLNRRSLESLIHCGALDAFSPNANRAQL-IADLDLV------------LDWASSrardras 922
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 919 -------IMA-------------------------EK---EKELLGVYVTYNPMDkyHLKPWSSFVDGGTGAFTAGQ--- 960
Cdd:PRK07374 923 gqgnlfdLLAgseeeasndlssapkaapvpdypptEKlklEKELLGFYLSDHPLK--QLTEPAKLLAPISLSSLEEQpdk 1000
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 961 --------INKVKAFNDKNGNRMAFASLDTQEGVRELVIFSHIYASNSDLIKKNKKVMAEGK---RDGE-KLIVNTIKEL 1028
Cdd:PRK07374 1001 akvsaiamIPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKvdrRDDRvQLIIDDCREI 1080
|
.
gi 1631914333 1029 D 1029
Cdd:PRK07374 1081 D 1081
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
6-1023 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 574.82 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGfegyMTIGDRADKTEKHY 85
Cdd:PRK06920 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIG----LTASIFSEEEEKSY 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 HQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRfsfDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKFDAL-K 164
Cdd:PRK06920 79 PLVLLAENEIGYQNLLKISSSIMTKSKEGIPK---KWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNMfG 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 165 DFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDPPMyPSEES--YWLKGS 242
Cdd:PRK06920 156 NFYMSLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDR-PRLKTdqYYLKSS 234
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 243 KQVFIDFisqgypkEQVIEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPKVTTTYVERV 322
Cdd:PRK06920 235 DEMEALF-------SHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKRYGTPKEVHINRL 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 323 KFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKMPDIDTD 402
Cdd:PRK06920 308 NHELNVISRMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDID 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 403 IQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPNK--MLIEEVYQVVPKLAKMR 480
Cdd:PRK06920 388 FPDTRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKlgITLKDAYEESQSLREFI 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 481 KETVEtkqgkripLEDVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAV-QWNKDDVEEMGGVKFDFLG 559
Cdd:PRK06920 468 QGNLL--------HERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQEGHNDVYVtQYPADALEELGLLKMDFLG 539
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 560 LKTLSIVGSCLESIKKETGKELDIYEIArrADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVAINALYRP 639
Cdd:PRK06920 540 LRNLTLLENIIKFIEQKTGKEIDIRNLP--LQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRP 617
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 640 PALASGDTwrYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR----KMSAEQLEELRM 715
Cdd:PRK06920 618 GPMEQIPT--FIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRravsKKNRDILDQERK 695
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 716 EFIndaEHHMKlTSYDpkfKSQMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKMSDQDVLA 795
Cdd:PRK06920 696 HFV---QGCLQ-NGYD---ETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIV 768
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 796 KVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHRPYTSLDDLFD---KVNKQIVSKRAMK 872
Cdd:PRK06920 769 QYIRETKRKGFHVLPPSLQRSGYNFQIEGNAIRYSLLSIRNIGMATVTALYEEREKKMFEDLFEfclRMPSKFVTERNLE 848
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 873 PLVFAGAFDNLHPE----LTRKEIYIKYLQLKKEKKAEIEEAQQMEWNESIMAE---KEKELLGVYVTYNPMDKYHLK-- 943
Cdd:PRK06920 849 AFVWSGCFDDFGVSrtnlWKSLKGALEYANLARDLGDAVPKSKYVQGEELSFIEqlnKEKEVLGFYLSSYPTAQYVKLak 928
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 944 -----PWSSFVDGGTGAFTAGQ-INKVKAFNDKNGNRMAFASLDTQEGVRELVIFSHIYASNSDLIKKNKKVMAEGK--- 1014
Cdd:PRK06920 929 eleipSLAQAMRHKKKVQRAIVyITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPETYIHFSDKLQEGAIVLVDGTiel 1008
|
1050
....*....|
gi 1631914333 1015 -RDGEKLIVN 1023
Cdd:PRK06920 1009 rNHKLQWIVN 1018
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
6-721 |
7.02e-148 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 462.67 E-value: 7.02e-148
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKTE-KH 84
Cdd:PRK09532 3 FVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVINGDIEKQKRrRK 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 85 YHQLLLAKNEVGFRNLMKLSSIGFIDGFHG-----RPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRK 159
Cdd:PRK09532 83 YHQVVLAKNTQGYKNLVKLTTISHLQGVQGkgifaRPCINKELLEQYHEGLIVTSACLGGEIPQAILSGRPDAARKVAKW 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 160 FDAL--KDFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCL-ARKATMDDPPMYPSEES 236
Cdd:PRK09532 163 YKKLfgDDFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIqTGKLITEDKRLRYSGTE 242
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 237 YwLKGS---KQVFIDFIsqgyPKEQVIEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGL-----K 308
Cdd:PRK09532 243 Y-LKSAeemRLLFRDHL----PDDVIAEAIANTLEVADKIEPYNILGEPRIPNYPVPSGHTPDTYVEEVAWQGLlerlnC 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 309 RKIPKVTTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERF 388
Cdd:PRK09532 318 KSRSEVEPVYKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIPVGPGRGSAAGSLVAYCLKITNIDPVHHGLLFERF 397
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 389 LDITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPnkmliee 468
Cdd:PRK09532 398 LNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIP------- 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 469 VYQVVP-KLAKM-RKETVETKQGKRIPLEDVFK----MAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAV-Q 541
Cdd:PRK09532 471 VSRGKPtKLKVMiSDETPEPEFKEKYDNDPRVRrwldMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNNDGAVItQ 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 542 WNKDDVEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIA---RRA--------------DDPEVYERISKGLT 604
Cdd:PRK09532 551 YFMEDLESLGLLKMDFLGLRNLTTIQKTADLIKENRGVEIDLDQLPldeRKAlkilakgeakklpkDVQKTHKLLERGDL 630
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 605 SNSFQLNSSGMRDLCKKVKPTEFKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHV 684
Cdd:PRK09532 631 EGIFQLESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAGLIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQEQI 710
|
730 740 750 760
....*....|....*....|....*....|....*....|.
gi 1631914333 685 MQLVHHFAGWDYGRGDKLR----KMSAEQLEELRMEFINDA 721
Cdd:PRK09532 711 MKMAQDLAGYSLGEADLLRramgKKKISEMQKHREKFIDGA 751
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
6-880 |
6.98e-147 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 463.01 E-value: 6.98e-147
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFegymtigdraDKTEKHY 85
Cdd:PRK07135 3 LINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGL----------DLEVENF 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 HQLLLAKNEVGFRNLMKLSSigfidgfhgrprfsfddlvKHSEGLVITSSCLAG---VIPQAILNGDYKYAKKLIRkfda 162
Cdd:PRK07135 73 RFILLAKNYSGYKLLNELSS-------------------KKSKNKEIELNDLDSdniIIIDHPKNGFYAKNKEQLE---- 129
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 163 LKDFYLeVQPTPMAEQKI---VNDFLFKasleEDVPLLATcdVHYVDKEDmtahmgmlclarkatmddppmypsEESYWL 239
Cdd:PRK07135 130 LKNYYI-NSNDPKIENAVyvqERKLLFA----EDNEYLKI--LNKIGNNK------------------------EENSNF 178
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 240 KgskqvFIDFISQGYPKEQVIeaMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPKVT--TT 317
Cdd:PRK07135 179 K-----FFDFEKWFEDIDEKI--LKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKILKESVINKKAELKyyPN 251
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 318 YVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKMP 397
Cdd:PRK07135 252 VKERINYEYSVIKKLKFSNYFLIIWDFIKWARKNKISIGPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMP 331
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 398 DIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPNKMLIEEVYQvvpKLA 477
Cdd:PRK07135 332 DIDIDIQDDRRDEVIDYIFEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIPNNQSLEEAYD---KNK 408
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 478 KMRKETVETKQGKripLEDVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEE-TAVQWNKDDVEEMGGVKFD 556
Cdd:PRK07135 409 SFFRELISKGDPI---YKKLYKIAKKLEGLPRQSGTHAAGIIISNKPITNYVPTFESKDNyNQVQYSMEFLEDFGLLKID 485
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 557 FLGLKTLSIVGSCLESIKKETGKELDIYEIARRADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVAINAL 636
Cdd:PRK07135 486 LLGLKNLTIIKNIEEKINKELLFDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISL 565
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 637 YRPPALASGDTwrYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR----KMSAEQLEE 712
Cdd:PRK07135 566 YRPGPIQYIPI--YAKNKKNPKNIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRraisKKDETKLDK 643
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 713 LRMEFINDAEHHmkltSYDPKFksqMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKMSDQD 792
Cdd:PRK07135 644 IKDKFIEGGIKN----GYSKKV---LEKIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISNSNGSQE 716
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 793 VLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHRP----YTSLDDLFDKVNKQIVSK 868
Cdd:PRK07135 717 NIKKYVKEAKNNGIKVYSPDINFSTENAVFDNGKIFLPLIMIKGLGSVAIKKIIDERNkngkYKNFFDFILRLKFIGISK 796
|
890
....*....|..
gi 1631914333 869 RAMKPLVFAGAF 880
Cdd:PRK07135 797 SIIEKLIKANTL 808
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
6-1027 |
1.35e-129 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 418.67 E-value: 1.35e-129
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKTEkhy 85
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIFVEEQEVTLR--- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 hqlLLAKNEVGFRNLMKLSSigfidgFHGRPRFSFDDLVKHSEGLVItssclagVIPqailngdykyAKKLIRKFDALKD 165
Cdd:PRK07279 79 ---LIAKNTQGYKNLLKIST------AKMSGKKQFSDLSQYLEGIAV-------IVP----------YFDWSETLELPFD 132
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 166 FYLEVQP-TPMAEQKIvndflfkasleedvPLLATCDVHYVDKEDM-TAHMgMLCLARKATMDDPPMYPSEESywLKGSK 243
Cdd:PRK07279 133 YYIGVDQeTPGSDFKR--------------PILPLRTVRYFESADReTLQM-LHAIRDNLSLREVPLVSSDQE--LISCQ 195
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 244 QVfidfisQGYPKEQVIEAMNN----TGKVADEVDFELKkdkdlLPVFplEGDTTSLKQIQAMIKDGLKRKipKVTTT-Y 318
Cdd:PRK07279 196 SL------ETLFQERFPQALDNleklVSGISYDFDTDLK-----LPRF--NRDRPAVEELRELAELGLKEK--GLWSSpY 260
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 319 VERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKMPD 398
Cdd:PRK07279 261 QERLDKELSVIHDMGFDDYFLIVWDLLRFGRSQGYYMGMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYSMPD 340
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 399 IDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIPNKMLIEEVYQvvpKLAK 478
Cdd:PRK07279 341 IDIDLPDIYRSEFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKISFRDSLASVYE---KNIS 417
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 479 MRKETvetkqGKRIPLEDVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLHGTKEETAVQWNKDDVEEMGGVKFDFL 558
Cdd:PRK07279 418 FRQII-----NSKLEYQKAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYGDDMMITQYDAHAVEANGLLKMDFL 492
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 559 GLKTLSIVGSCLESIKKETGKELDIYEIarRADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVAINALYR 638
Cdd:PRK07279 493 GLRNLTFVQKMQEKVAKDYGIHIDIEAI--DLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVATTSLNR 570
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 639 PPalASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLRK-MS---AEQLEELR 714
Cdd:PRK07279 571 PG--ASDYTDNFVKRRHGQEKVDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRaMSkknASEMQKME 648
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 715 MEFINDAEH--HMKLTSydpkfksqmNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKMSDqd 792
Cdd:PRK07279 649 EDFLQGALElgHSEEKA---------RELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFYDIMLNYSSSD-- 717
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 793 vlakVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHRPYTSLDDLFDKVNKQIVSKRAMK 872
Cdd:PRK07279 718 ----YITDALEFGFEVAKLSINTIPYHDKIENKKIYLGLKNIKGLPRDLAYWIIENRPFSSIEDFLTRLPENYQKKEFLE 793
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 873 PLVFAGAFDNLHPelTRKEIYIKYLQLKKEKKA--EIEEAQQMEWNES---IMAEK---EKELLGVYVTYNP------MD 938
Cdd:PRK07279 794 PLIKIGLFDSFEK--NRQKIINNLDNLFVFVNElgSLFADSSYSWVEAedySETEKyslEQELLGVGVSKHPlqaiaeKS 871
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 939 KYHLKPWSSFVDgGTGAFTAGQINKVKAFNDK-NGNRMAFASL-DTQEGVrELVIFSHIYASNSDLIKKNKKVMAEGK-- 1014
Cdd:PRK07279 872 SRPFTPISQLVK-NSEATILVQIQSIRVIRTKtKGQQMAFLSVtDTKKKL-DVTLFPETYRQYKDELKEGKFYYLKGKiq 949
|
1050
....*....|....*
gi 1631914333 1015 -RDGE-KLIVNTIKE 1027
Cdd:PRK07279 950 eRDGRlQMVLQQIQE 964
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
6-881 |
3.96e-128 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 413.47 E-value: 3.96e-128
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEgymtIGDRADKTEkhy 85
Cdd:PRK05898 2 FINLNTHSHYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGLE----IEYQSTNAT--- 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 hQLLLAKNEVGFRNLMKLSSIgfidgfhgrprfsfddlvkhseglvitssclagvipqAILNGDYKYakklirkFDALKD 165
Cdd:PRK05898 75 -LVLYAKNYNGYLNLIKISSF-------------------------------------IMTNKEFEI-------QDYLDD 109
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 166 FYLEVQPTPMaeqKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDppMYPSEE---SYWLKGS 242
Cdd:PRK05898 110 LFIVCKKGTF---VFKSPNFYQTHNQNAPNAIAFNSVFYANKNDKIVFNAMLAIKNDLKIDE--LKNCQDfdnNHFLNDN 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 243 KQVfiDFISQgypkeqviEAMNNTGKVADEVDFELKKDKDLLPVFPLEGDTTSLKQIQAMIKDGLKRKIPK----VTTTY 318
Cdd:PRK05898 185 EAQ--SLFSP--------IQLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEILKQLCISGLNKRLNAndgqVKKIY 254
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 319 VERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITRQKMPD 398
Cdd:PRK05898 255 VKRLKYELDIINEKQFDDYFLIVYDFINFAKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMPD 334
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 399 IDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLIpNKMLIEEVYQVVPKLAK 478
Cdd:PRK05898 335 IDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDKICKNI-KPDYEEDLDLAIKKNTI 413
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 479 MRKETVETKqgkripleDVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLH-GTKEETAVQWNKDDVEEMGGVKFDF 557
Cdd:PRK05898 414 LKEMYVLHK--------ELFDLAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIQlGINDRPLSQYSMEYLERFGLIKMDL 485
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 558 LGLKTLSIVGSCLESIKKETGKELDIYEIarRADDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVAINALY 637
Cdd:PRK05898 486 LGLKNLTIIDNVLKLIKENQNKKIDLFNI--NLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALF 563
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 638 RPPALASGDTwrYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR----KMSAEQLEEL 713
Cdd:PRK05898 564 RPGPQQNIKT--FVERRFKREEFSYWNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFRraisKKDEKILIQL 641
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 714 RMEFINDAehhMKLTSYDPKfksqMNELWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKMSDQDV 793
Cdd:PRK05898 642 KKDFIEGA---LKNNYKQPL----VNQIFEYIFSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLSHTSASKDK 714
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 794 LAKVFQDIKRENFEVVAPDINKSELSFV--ASQGKIVFPMGMVSGVGE---KAVVELLKHRPYTSLDDLFDKVNKQIVSK 868
Cdd:PRK05898 715 LLSYLNEAKEFNISIKKPDINYSSNSFVldTQKQIIRFGFNTIKGFGDellKKIKSALQNKTFSDFISYIDALKKNNVSL 794
|
890
....*....|...
gi 1631914333 869 RAMKPLVFAGAFD 881
Cdd:PRK05898 795 SNIEILINVGTFD 807
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
4-883 |
1.31e-107 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 359.56 E-value: 1.31e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 4 VCFVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEgyMTIGDRADKTEK 83
Cdd:PRK05672 3 PPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAE--LSLGPDPDPGGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 84 HYhqLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEG-LVITSSCLAGVIPQAIL-NGDYKYAKKLIRKFD 161
Cdd:PRK05672 81 HL--LVLARDREGYGRLSRLITRARLRAGKGEYRLDLDDLAEPAGGhWAILTGCRKGFVILALPyGGDAAALAALAALLD 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 162 ALK--DFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMD--DPPMYPSEESy 237
Cdd:PRK05672 159 AFFadRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAeaGGWLAPNGER- 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 238 WLKGSKQvfidfISQGYPKEQviEAMNNTGKVADEVDFELKKDKDLLPVFPL-EGDTTS--LKQIqamIKDGLKRKIPK- 313
Cdd:PRK05672 238 HLRSGAE-----MARLFPDYP--EALAETVELAERCAFDLDLLAYEYPDEPVpAGHTPAswLRQL---TEAGAARRYGPg 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 314 VTTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINfGRGSGAGSLVAYLLDITEVDPIKHGLFFERFLDITR 393
Cdd:PRK05672 308 IPPKARAQIEHELALIAELGYEGYFLTVHDIVRFARSQGILCQ-GRGSAANSAVCYALGITEVDPVQSGLLFERFLSPER 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 394 QKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAfknalmIYDVpfGKAQEITNlipnkMLIEEVYQVV 473
Cdd:PRK05672 387 DEPPDIDVDFEHDRREEVIQYVYRRYGRDRAAQVANVITYRPRSA------VRDV--AKALGLSP-----GQVDAWAKQV 453
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 474 -----PKLAKMRKETVETKQGKRIPlEDVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPL-HGTKEE-TAVQWNKDD 546
Cdd:PRK05672 454 srwsgSADDLQRLRQAGLDPESPIP-RRVVELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVeNAAMEGrSVIQWDKDD 532
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 547 VEEMGGVKFDFLGLKTLSIVGSCLESIKKETGKELDIYEIARraDDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTE 626
Cdd:PRK05672 533 CAAVGLVKVDVLALGMLSALHRAFDLIAEHRGRRLTLASIPL--DDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRT 610
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 627 FKHIVAINALYRPPALASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR--- 703
Cdd:PRK05672 611 FYDLVVEVAIVRPGPIQGGMVHPYLRRRNGQEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRram 690
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 704 --KMSAEQLEELRMEFINDaehhMKLTSYDPKFKSQmneLWDRIVQYMGYGFNKSHGVAYSMLTYLTVYLEHYYPEHYMS 781
Cdd:PRK05672 691 aaWRRKGRLERLRERLYDG----MLARGYTGEFADR---IFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCA 763
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 782 AILTSK-M---SDQDVLakvfQDIKRENFEVVAPDINKSEL-----SFVASQGKIVFPMGMVSGVGEKA---VVELLKHR 849
Cdd:PRK05672 764 ALLNSQpMgfySPQQLV----QDARRHGVEVLPVDVNASGWdatlePLPDGGPAVRLGLRLVRGLGEEAaerIVAARARG 839
|
890 900 910
....*....|....*....|....*....|....
gi 1631914333 850 PYTSLDDLFDKVNkqiVSKRAMKPLVFAGAFDNL 883
Cdd:PRK05672 840 PFTSVEDLARRAG---LDRRQLEALADAGALRSL 870
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
6-285 |
1.77e-97 |
|
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: 309.37 E-value: 1.77e-97
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKT---- 81
Cdd:cd12113 2 FVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVAPGSRFDKKdkkg 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 82 -EKHYHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF 160
Cdd:cd12113 82 dKRYYHLVLLAKNEEGYRNLMKLVSLAYLEGFYYKPRIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAALEY 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 161 DAL---KDFYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP-PMYPSEES 236
Cdd:cd12113 162 RDIfgkDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPnRMRFDTDE 241
|
250 260 270 280
....*....|....*....|....*....|....*....|....*....
gi 1631914333 237 YWLKGSKQVFIDFisQGYPkeqviEAMNNTGKVADEVDFELKKDKDLLP 285
Cdd:cd12113 242 FYLKSPEEMRELF--PDVP-----EALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
302-559 |
6.82e-92 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 293.25 E-value: 6.82e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 302 MIKDGLKRKIPK-VTTTYVERVKFELGVISQKGYIDYFLIVADAIKWCKEQGILINFGRGSGAGSLVAYLLDITEVDPIK 380
Cdd:pfam07733 6 LVEEGLKERYGEgLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITEVDPLK 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 381 HGLFFERFLDITRQKMPDIDTDIQSERRHELFTYLKEKYGYDRVAQVTNYTRMSAKSAFKNALMIYDVPFGKAQEITNLI 460
Cdd:pfam07733 86 HDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDRLAKLI 165
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 461 PNKM-LIEEVYQVVPKLAKMRKETVETKQgkripledVFKMAEAFEGVISNTSIHAGGILITPDELTNHFPLH--GTKEE 537
Cdd:pfam07733 166 PFELgILEKALEEEPELKELIESDPEVKR--------LIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYkaDDDDR 237
|
250 260
....*....|....*....|..
gi 1631914333 538 TAVQWNKDDVEEMGGVKFDFLG 559
Cdd:pfam07733 238 PVTQFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
6-287 |
3.10e-49 |
|
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: 176.13 E-value: 3.10e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 6 FVQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEgyMTIGDRADKtEKHY 85
Cdd:cd07433 2 FVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGAD--LNVANPDDA-DEPF 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 HQLLLAKNEVGFRNLMKLSSIGFIDG-FHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKYAKKLIRKF-DAL 163
Cdd:cd07433 79 RLTLLAQNEQGYKNLTELISRAYLEGqRNGGPHIKLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQFLkKIF 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 164 KD-FYLEVQPTPMAEQKIVNDFLFKASLEEDVPLLATCDVHYVDKEDMTAHMGMLCLARKATMDDP--PMYPSEESYwLK 240
Cdd:cd07433 159 PDrFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPrrPRRYSPQQY-FK 237
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 1631914333 241 GSKQ---VFIDFisqgyPkeqviEAMNNTGKVADEVDFELKKDKDLLPVF 287
Cdd:cd07433 238 SAEEmaeLFADL-----P-----EAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
9-173 |
9.48e-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: 161.94 E-value: 9.48e-46
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 9 LHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMTIGDRADKTE---KHY 85
Cdd:pfam02811 2 LHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVYVAPGSREETEKllaKYF 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 86 HQLLLAKNEVGFRNLMKLSSIGFIDGFhgRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILN-GDYKYAKKLIRKFDAL- 163
Cdd:pfam02811 82 DLVLLAVHEVGYKNLIKLSSRAYLEGF--KPRIDKELLEEYFEGLIALSGCVLGHLDLILLApGDYEEAEELAEEYLEIf 159
|
170
....*....|..
gi 1631914333 164 --KDFYLEVQPT 173
Cdd:pfam02811 160 geDGFYLEINTH 171
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
7-274 |
1.16e-41 |
|
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: 153.78 E-value: 1.16e-41
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 7 VQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGYMtigdrADKtekhYH 86
Cdd:cd07435 2 VELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYL-----VDP----YH 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 87 QLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVITSSCLAGVIPQAILNGDYKY-AKKLIRKFDalkd 165
Cdd:cd07435 73 ITILVKNQTGLKNLYKLVSLSHTKYFYRVPRIPKSELEKYREGLLIGSACENGELFEAALNKKSDEeLEEIASFYD---- 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 166 fYLEVQP----TPMAEQKIVNDF---------LFKASLEEDVPLLATCDVHYVDKED------MTAHMGMLCLARKatmD 226
Cdd:cd07435 149 -YIEIQPldnyQFLIEKGLIKSEeelkeinkrIIKLGKKLNKPVVATGDVHYLDPEDkiyreiLLAGQGGGDGRAD---E 224
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|
gi 1631914333 227 DPPMYpseesywLKGSKQVFIDF--ISQGYPKEQVIEamnNTGKVADEVD 274
Cdd:cd07435 225 QPDLY-------FRTTDEMLDEFsyLGEEKAYEVVVT---NTNKIADMIE 264
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
562-724 |
1.16e-38 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 141.52 E-value: 1.16e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 562 TLSIVGSCLESIKKETGKELDIYEIARraDDPEVYERISKGLTSNSFQLNSSGMRDLCKKVKPTEFKHIVAINALYRPPA 641
Cdd:pfam17657 1 TLTIIRDALDLIKENRGIGIDLATIPL--DDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGP 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 642 LASGDTWRYANIKNGQEEERYSHPEERQITGETYGVITYQEHVMQLVHHFAGWDYGRGDKLR----KMSAEQLEELRMEF 717
Cdd:pfam17657 79 MQGGNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRramgKKKPEEMEKLREKF 158
|
....*..
gi 1631914333 718 INDAEHH 724
Cdd:pfam17657 159 IEGAKEN 165
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
753-1016 |
2.40e-35 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 140.58 E-value: 2.40e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 753 FNKSHGVAYSMLTYLTVYLEHYYPEHYMSAILTSKMSDQDVLAKVFQDIKRENFEVVAPDINKSELSFVASQGKIVFPMG 832
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTANSGNQDKVQKYRENCQKMGIEVEPPDINRSGKDFTPVGEKILFGLS 117
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 833 MVSGVGEKAVVELLKHR----PYTSLDDLFDKVNKQIVSKRAMKPLVFAGAFDNLHPelTRKEIyIKYLQLKkekkaeie 908
Cdd:PRK07373 118 AVRNLGEGAIESILKAReeggEFKSLADFCDRVDLRVVNRRALETLIYCGAFDKIEP--NRQQL-INDLELV-------- 186
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 909 eaqqMEWNESIMAEK---------------------------------------------EKELLGVYVTYNPMDKYH-- 941
Cdd:PRK07373 187 ----IDWAQKRAKEKasgqgnlfdllggntsnssaannafeqapsappvadfslqeklklEKELLGFYVSEHPLKSIRrp 262
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 942 ---LKPwSSFVDGGT----GAFTA-GQINKVKAFNDKNGNRMAFASLDTQEGVRELVIFSHIYASNSDLIKKNKKVMAEG 1013
Cdd:PRK07373 263 arlLSP-INLSELEEqkekTKVSAvVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWG 341
|
...
gi 1631914333 1014 KRD 1016
Cdd:PRK07373 342 KVD 344
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
7-209 |
7.24e-29 |
|
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: 113.84 E-value: 7.24e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 7 VQLHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEgyMTIGDradkTEKHYH 86
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLE--LTVEG----DGEPYP 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 87 QLLLAKNEVGFRNLMKLSSIG-FIDGFHGRPRFSFDDLVKHSEGLVItssclagvipqaILNGDYkyakklirkfdalkd 165
Cdd:cd07431 75 LLLLAKNNEGYQNLLRLSTAAmLGEEKDGVPYLDLEELAEAASGLLV------------VLLGPL--------------- 127
|
170 180 190 200
....*....|....*....|....*....|....*....|....
gi 1631914333 166 fylevqptpmaeqkivndfLFKASLEEDVPLLATCDVHYVDKED 209
Cdd:cd07431 128 -------------------LLLLAAEQGLPLVATNDVHYLNPED 152
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
53-378 |
8.36e-29 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 125.34 E-value: 8.36e-29
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 53 FMNLAKQKGIKGIAGFEGYMTIGDrADKTEKHYHQLLLAKNEVGFRNLMKLSSIGFIDGFHGRPRFSFDDLVKHSEGLVI 132
Cdd:PRK00448 580 FLKDLKEKGITNLDELNKKLGSED-AYKKARPKHATILVKNQVGLKNLFKLVSLSNTKYFYRVPRIPRSLLDKYREGLLI 658
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 133 TSSCLAGVIPQAILNGDYKYAKKLIRKFDalkdfYLEVQP----TPMAEQKIVNDflfKASLEE------------DVPL 196
Cdd:PRK00448 659 GSACEEGEVFDAVLQKGDEELEEIAKFYD-----YIEIQPpanyQHLIERELVKD---EEELKEiiknlielgkklNKPV 730
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 197 LATCDVHYVDKEDMTAHMGMLCLARKATMDDPPMYPS----------EESYWLKGSKqvfidfisqgyPKEQVIEamnNT 266
Cdd:PRK00448 731 VATGDVHYLDPEDKIYRKILVASQGGGNPLNRHPLPElhfrttdemlDEFAFLGEEL-----------AKEIVVE---NT 796
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 267 GKVADEVDfELK--KDKDLLPVFplEGdttSLKQIQAMIKDGLKRK----IPKVtttyVE-RVKFELGVISQKGYIDYFL 339
Cdd:PRK00448 797 NKIADLIE-EIEpiKDKLYTPKI--EG---AEEEIRELTYKKAHEIygepLPEI----VEkRIEKELNSIIGNGFAVIYL 866
|
330 340 350 360
....*....|....*....|....*....|....*....|
gi 1631914333 340 IVADAIKWCKEQGILInfG-RGSGAGSLVAYLLDITEVDP 378
Cdd:PRK00448 867 ISQKLVKKSLEDGYLV--GsRGSVGSSFVATMIGITEVNP 904
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
807-891 |
9.00e-21 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 87.53 E-value: 9.00e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1631914333 807 EVVAPDINKSELSFVASQGKIVFPMGMVSGVGEKAVVELLKHR---PYTSLDDLFDKVnKQIVSKRAMKPLVFAGAFDNL 883
Cdd:pfam14579 3 EVLPPDINRSDWDFTVEGGGIRLGLGAIKGLGEAAAERIVEERengPFKSLEDFARRV-DLKLNKRVLEALIKAGAFDSL 81
|
....*...
gi 1631914333 884 HPelTRKE 891
Cdd:pfam14579 82 GG--NRRQ 87
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
9-71 |
6.24e-16 |
|
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: 73.07 E-value: 6.24e-16
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1631914333 9 LHNHSCYSERDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFEGY 71
Cdd:smart00481 2 LHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEAN 64
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
958-1029 |
1.21e-11 |
|
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: 61.37 E-value: 1.21e-11
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1631914333 958 AGQINKVKAFNDKNGNRMAFASLDTQEGVRELVIFSHIYASNSDLIKKNKKVMAEGK---RDGE-KLIVNTIKELD 1029
Cdd:cd04485 3 AGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKverRDGGlRLIAERIEDLE 78
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
9-69 |
6.00e-10 |
|
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: 58.02 E-value: 6.00e-10
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1631914333 9 LHNHSCYSeRDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFE 69
Cdd:cd07432 3 LHIHSVFS-PDSDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGVE 62
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
9-69 |
3.27e-08 |
|
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: 53.94 E-value: 3.27e-08
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1631914333 9 LHNHSCYSerDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQKGIKGIAGFE 69
Cdd:cd07438 3 LHTHSTAS--DGTLSPEELVELAKEAGLKVLAITDHDTVAGLEEALAAAKELGIELIPGVE 61
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
7-74 |
1.45e-05 |
|
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: 44.34 E-value: 1.45e-05
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1631914333 7 VQLHNHSCYSERDaHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMNLAKQK--------GIKGIAGFEGYMTI 74
Cdd:cd07309 1 VDLHTHTVFSDGD-HAKLTELVDKAKELGPDALAITDHGNLRGLAEFNTAGK*NhikaaeaaGIKIIIGSEVNLTV 75
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| HIS2 |
COG1387 |
Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and ... |
9-55 |
8.56e-04 |
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Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and metabolism, General function prediction only]; Histidinol phosphatase or related hydrolase of the PHP family is part of the Pathway/BioSystem: Histidine biosynthesis
Pssm-ID: 440997 [Multi-domain] Cd Length: 232 Bit Score: 42.06 E-value: 8.56e-04
10 20 30 40
....*....|....*....|....*....|....*....|....*..
gi 1631914333 9 LHNHSCYSerDAHSRIDKLIDRAIENKQKAIGLTDHGAMHGIPEFMN 55
Cdd:COG1387 5 LHTHTTYS--DGEGTIEEMVEAAIELGLEYIAITDHSPSLFVANGLS 49
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