|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
4-1164 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1983.03 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 4 SFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREED-----G 78
Cdd:PRK05673 1 RFVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKDdvsggG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 79 PLSRLSLLAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWM 158
Cdd:PRK05673 81 AYTHLTLLAKNETGYRNLFKLSSRAYLEGQYGYKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAAEYQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 159 EVFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQY 238
Cdd:PRK05673 161 EIFGDRFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFRFYSPEQY 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 239 LKSPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEVLLPkdtpdyEAK 318
Cdd:PRK05673 241 LKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLFP------DEE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 319 RQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERI 398
Cdd:PRK05673 315 RPEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERV 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 399 SMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDKAYEQ 478
Cdd:PRK05673 395 SMPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPGITLAKAYEE 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 479 EEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVKFDFL 558
Cdd:PRK05673 475 EPELRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPVTQFDMKDVEAAGLVKFDFL 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 559 GLRTLTIIKWAMEIINReqakKGLEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVAL 638
Cdd:PRK05673 555 GLRTLTIIDDALKLIKK----RRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIALVAL 630
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 639 FRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKP 718
Cdd:PRK05673 631 YRPGPMESGMIPNFIDRKHGREEIEYPHPE-----LEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKP 705
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 719 EEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKV 798
Cdd:PRK05673 706 EEMAKQREIFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMDNTDKV 785
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 799 VTLIEECRHMKLRIVAPDVNNSEFRFTVdDDGRIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKRINKR 878
Cdd:PRK05673 786 AVYLDECRRMGIKVLPPDVNESLYDFTV-VDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKKVNKR 864
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 879 TLEALIRAGALDRLGPhyhdelkayqatvdlNRAVLLAAMEEAIQAAEQTARSHDSGHMDLFGGvFAEPEADVYANHRKV 958
Cdd:PRK05673 865 VLESLIKAGAFDSLGP---------------NRAALLASLEDAVDAADQHKKAEASGQFDLFGG-LGEEPEDVEVSVPDV 928
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 959 KELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPARDTQ--TVAGLIVNLRVMKNKKGDKMGFVTLDDR 1036
Cdd:PRK05673 929 EEWDKKEKLAGERETLGLYLSGHPLDGYEDELRRLRDTRLADLEPTEGGSvvTVAGLVVSVRRRVTKRGNKMAIVTLEDL 1008
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1037 SGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDfsGGLRLRAKRVMSLEEARTGLAESLRMKLHADLLKGDRLRWLG 1116
Cdd:PRK05673 1009 SGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD--GGLRLTAREVMDLEEARAKYARPLRISLPDRQLTPQLLERLK 1086
|
1130 1140 1150 1160
....*....|....*....|....*....|....*....|....*...
gi 15598836 1117 ELFNRHRGSCPITLDYTSADAKALLQFGESWRVDPADDLIQALRDQFG 1164
Cdd:PRK05673 1087 QVLEPHRGTSPVHLYLQDPDAEAELRLGDRWRVTPSDALLGDLKALLG 1134
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1085 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1686.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1 MTVSFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPL 80
Cdd:COG0587 1 MSPSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 81 SRLSLLAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWMEV 160
Cdd:COG0587 81 YHLVLLAKNREGYRNLCRLLSRAYLEGFYKGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLKDI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 161 FPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQYLK 240
Cdd:COG0587 161 FGDRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 241 SPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEVLLPKDtpdyeakrq 320
Cdd:COG0587 241 SPEEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEE--------- 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 321 vYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERISM 400
Cdd:COG0587 312 -YRERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSM 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 401 PDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDKAYEQEE 480
Cdd:COG0587 391 PDIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEP 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 481 MLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVKFDFLGL 560
Cdd:COG0587 471 ELRELYDSDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGL 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 561 RTLTIIKWAMEIINREQAkkglEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFR 640
Cdd:COG0587 551 RTLTVIRDALDLIKENRG----IDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYR 626
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 641 PGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPEE 720
Cdd:COG0587 627 PGPMQGGMVPPYIRRKHGREPVEYPHPE-----LEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEE 701
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 721 MAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKVVT 800
Cdd:COG0587 702 MAKQREKFVEGAVANGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQ 781
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 801 LIEECRHMKLRIVAPDVNNSEFRFTVDDDGRIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKRINKRTL 880
Cdd:COG0587 782 YVQEARRHGIEVLPPDVNESDWDFTVEPGGAIRLGLGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRVDLRKLNKRVL 861
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 881 EALIRAGALDRLGPHyhdelkayqatvdlnRAVLLAAMEEAIQAAEQTARSHDSGHMDLFGGVFAEPEADVyaNHRKVKE 960
Cdd:COG0587 862 EALIKAGAFDSLGPN---------------RRQLLWALEAALDAAQQAQKDKASGQLSLFGGAGDEEVAEP--ALPELPE 924
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 961 LTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPARD--TQTVAGLIVNLRVMKNKKGDKMGFVTLDDRSG 1038
Cdd:COG0587 925 WSEKEKLAAEKEALGLYLSGHPLDLYREELRRLGVTPAADLAELRDgrRVRVAGLVTSRQRPGTKKGKRMAFVTLEDETG 1004
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*..
gi 15598836 1039 RIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDfsGGLRLRAKRVM 1085
Cdd:COG0587 1005 SIEVVVFPEVYERYRRLLLEDRLLLVRGKVQRRD--GVVHLIAERIE 1049
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
5-1045 |
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: 1375.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 5 FVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLA------SREEDG 78
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVApgsrfdKKRISK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 79 PLSR--LSLLAMNAKGYRNLTELISRGWSEGQRNGEIIiERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLRE 156
Cdd:TIGR00594 81 GKEAyhLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRI-DKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 157 WMEVFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQ 236
Cdd:TIGR00594 160 YQEIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 237 QYLKSPAEMAELFSDLPEALENTVEIAKRCN-IEVQLGKYFLPD-FPTPNGMGIDDYLRHASFEGLEERLEVLLPKdtpd 314
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSyQIPPDFTSQEDYLRHLADEGLRERLAAGPPG---- 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 315 yEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLN 394
Cdd:TIGR00594 316 -YKRRAQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLN 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 395 PERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDK 474
Cdd:TIGR00594 395 PERISMPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKE 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 475 AYEQEEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVK 554
Cdd:TIGR00594 475 ALEASPQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLK 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 555 FDFLGLRTLTIIKWAMEIINreqaKKGLEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIA 634
Cdd:TIGR00594 555 MDFLGLKTLTLIQDATELIR----KRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIA 630
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 635 LVALFRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMG 714
Cdd:TIGR00594 631 VNALYRPGPMESGMIPDFIDRKHGREPIEYPHPL-----LEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMG 705
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 715 KKKPEEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQN 794
Cdd:TIGR00594 706 KKKAEEMAKEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEIND 785
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 795 TDKVVTLIEECRHMKLRIVAPDVNNSEFRFTVDDDGrIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKR 874
Cdd:TIGR00594 786 IEKVAVYIAEAKKMGIEVLPPDINESGQDFAVEDKG-IRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDFKK 864
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 875 INKRTLEALIRAGALDRLGPhyhdelkayqatvdlNRAVLLAAMEEAIQAAEQTARSHDSGHMDLFgGVFAEPEADVYAN 954
Cdd:TIGR00594 865 LNKKVLEALIKAGAFDSLGP---------------NRKTLLASLDDALDAVSRKKKAEALGQNSLF-GALSEGTKPEYVF 928
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 955 HRKVKELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFAR-QRIVELKPARDTQ--TVAGLIVNLRVMKNKKGDKMGFV 1031
Cdd:TIGR00594 929 FPPDEEWPDKKLLALEKETLGLYVSGHPLDAYEKALKNTATpAAIEDLEAPNDSQvrTLGGLNSVKKKITTKNGKPMAFL 1008
|
1050
....*....|....
gi 15598836 1032 TLDDRSGRIEASLF 1045
Cdd:TIGR00594 1009 QLEDETGSIEVVVF 1022
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-280 |
1.67e-163 |
|
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: 485.44 E-value: 1.67e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 4 SFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPLSRL 83
Cdd:cd07433 1 SFVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVANPDDADEPFRL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 84 SLLAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWMEVFPE 163
Cdd:cd07433 81 TLLAQNEQGYKNLTELISRAYLEGQRNGGPHIKLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQFLKKIFPD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 164 RFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQYLKSPA 243
Cdd:cd07433 161 RFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRYSPQQYFKSAE 240
|
250 260 270
....*....|....*....|....*....|....*..
gi 15598836 244 EMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDF 280
Cdd:cd07433 241 EMAELFADLPEAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
290-559 |
1.23e-136 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 414.59 E-value: 1.23e-136
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 290 DYLRHASFEGLEERLevllpkdtpdYEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGS 369
Cdd:pfam07733 1 EYLRKLVEEGLKERY----------GEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGS 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 370 LVAYVLKITDLDPLAYDLLFERFLNPERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARV 449
Cdd:pfam07733 71 LVAYLLGITEVDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 450 QGKSYGLADRLSKMIPFEVGMtLDKAYEQEEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPI 529
Cdd:pfam07733 151 LGLPYDEIDRLAKLIPFELGI-LEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPL 229
|
250 260 270
....*....|....*....|....*....|
gi 15598836 530 ACDEEGGGLVTQFDKDDVEAAGLVKFDFLG 559
Cdd:pfam07733 230 YKADDDDRPVTQFDKDDLEDLGLLKMDFLG 259
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
7-73 |
1.93e-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: 86.17 E-value: 1.93e-20
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15598836 7 HLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLAS 73
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
4-1164 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1983.03 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 4 SFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREED-----G 78
Cdd:PRK05673 1 RFVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPEKKDdvsggG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 79 PLSRLSLLAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWM 158
Cdd:PRK05673 81 AYTHLTLLAKNETGYRNLFKLSSRAYLEGQYGYKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAAEYQ 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 159 EVFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQY 238
Cdd:PRK05673 161 EIFGDRFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFRFYSPEQY 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 239 LKSPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEVLLPkdtpdyEAK 318
Cdd:PRK05673 241 LKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETEEDYLRKEAKEGLEERLAFLFP------DEE 314
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 319 RQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERI 398
Cdd:PRK05673 315 RPEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERV 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 399 SMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDKAYEQ 478
Cdd:PRK05673 395 SMPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDPGITLAKAYEE 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 479 EEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVKFDFL 558
Cdd:PRK05673 475 EPELRELYESDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPVTQFDMKDVEAAGLVKFDFL 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 559 GLRTLTIIKWAMEIINReqakKGLEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVAL 638
Cdd:PRK05673 555 GLRTLTIIDDALKLIKK----RRGIDVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIALVAL 630
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 639 FRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKP 718
Cdd:PRK05673 631 YRPGPMESGMIPNFIDRKHGREEIEYPHPE-----LEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKP 705
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 719 EEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKV 798
Cdd:PRK05673 706 EEMAKQREIFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMDNTDKV 785
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 799 VTLIEECRHMKLRIVAPDVNNSEFRFTVdDDGRIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKRINKR 878
Cdd:PRK05673 786 AVYLDECRRMGIKVLPPDVNESLYDFTV-VDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKKVNKR 864
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 879 TLEALIRAGALDRLGPhyhdelkayqatvdlNRAVLLAAMEEAIQAAEQTARSHDSGHMDLFGGvFAEPEADVYANHRKV 958
Cdd:PRK05673 865 VLESLIKAGAFDSLGP---------------NRAALLASLEDAVDAADQHKKAEASGQFDLFGG-LGEEPEDVEVSVPDV 928
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 959 KELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPARDTQ--TVAGLIVNLRVMKNKKGDKMGFVTLDDR 1036
Cdd:PRK05673 929 EEWDKKEKLAGERETLGLYLSGHPLDGYEDELRRLRDTRLADLEPTEGGSvvTVAGLVVSVRRRVTKRGNKMAIVTLEDL 1008
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1037 SGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDfsGGLRLRAKRVMSLEEARTGLAESLRMKLHADLLKGDRLRWLG 1116
Cdd:PRK05673 1009 SGRIEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD--GGLRLTAREVMDLEEARAKYARPLRISLPDRQLTPQLLERLK 1086
|
1130 1140 1150 1160
....*....|....*....|....*....|....*....|....*...
gi 15598836 1117 ELFNRHRGSCPITLDYTSADAKALLQFGESWRVDPADDLIQALRDQFG 1164
Cdd:PRK05673 1087 QVLEPHRGTSPVHLYLQDPDAEAELRLGDRWRVTPSDALLGDLKALLG 1134
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1085 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1686.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1 MTVSFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPL 80
Cdd:COG0587 1 MSPSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSRDDAG 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 81 SRLSLLAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWMEV 160
Cdd:COG0587 81 YHLVLLAKNREGYRNLCRLLSRAYLEGFYKGKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEAALARLKDI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 161 FPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQYLK 240
Cdd:COG0587 161 FGDRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRRFANAERYLK 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 241 SPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEVLLPKDtpdyeakrq 320
Cdd:COG0587 241 SPEEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETEEEYLRKLAEEGLERRYPEGIPEE--------- 311
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 321 vYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERISM 400
Cdd:COG0587 312 -YRERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSM 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 401 PDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDKAYEQEE 480
Cdd:COG0587 391 PDIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDPGITLEKALEEEP 470
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 481 MLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVKFDFLGL 560
Cdd:COG0587 471 ELRELYDSDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLKFDFLGL 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 561 RTLTIIKWAMEIINREQAkkglEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFR 640
Cdd:COG0587 551 RTLTVIRDALDLIKENRG----IDIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALVALYR 626
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 641 PGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPEE 720
Cdd:COG0587 627 PGPMQGGMVPPYIRRKHGREPVEYPHPE-----LEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEE 701
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 721 MAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKVVT 800
Cdd:COG0587 702 MAKQREKFVEGAVANGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQ 781
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 801 LIEECRHMKLRIVAPDVNNSEFRFTVDDDGRIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKRINKRTL 880
Cdd:COG0587 782 YVQEARRHGIEVLPPDVNESDWDFTVEPGGAIRLGLGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRVDLRKLNKRVL 861
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 881 EALIRAGALDRLGPHyhdelkayqatvdlnRAVLLAAMEEAIQAAEQTARSHDSGHMDLFGGVFAEPEADVyaNHRKVKE 960
Cdd:COG0587 862 EALIKAGAFDSLGPN---------------RRQLLWALEAALDAAQQAQKDKASGQLSLFGGAGDEEVAEP--ALPELPE 924
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 961 LTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPARD--TQTVAGLIVNLRVMKNKKGDKMGFVTLDDRSG 1038
Cdd:COG0587 925 WSEKEKLAAEKEALGLYLSGHPLDLYREELRRLGVTPAADLAELRDgrRVRVAGLVTSRQRPGTKKGKRMAFVTLEDETG 1004
|
1050 1060 1070 1080
....*....|....*....|....*....|....*....|....*..
gi 15598836 1039 RIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDfsGGLRLRAKRVM 1085
Cdd:COG0587 1005 SIEVVVFPEVYERYRRLLLEDRLLLVRGKVQRRD--GVVHLIAERIE 1049
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
5-1045 |
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: 1375.16 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 5 FVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLA------SREEDG 78
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVApgsrfdKKRISK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 79 PLSR--LSLLAMNAKGYRNLTELISRGWSEGQRNGEIIiERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLRE 156
Cdd:TIGR00594 81 GKEAyhLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRI-DKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALK 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 157 WMEVFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQ 236
Cdd:TIGR00594 160 YQEIFGDDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 237 QYLKSPAEMAELFSDLPEALENTVEIAKRCN-IEVQLGKYFLPD-FPTPNGMGIDDYLRHASFEGLEERLEVLLPKdtpd 314
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNlVDVKLGPPRLPSyQIPPDFTSQEDYLRHLADEGLRERLAAGPPG---- 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 315 yEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLN 394
Cdd:TIGR00594 316 -YKRRAQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLN 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 395 PERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDK 474
Cdd:TIGR00594 395 PERISMPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRPGKTLKE 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 475 AYEQEEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVK 554
Cdd:TIGR00594 475 ALEASPQLRQLYEEDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLLK 554
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 555 FDFLGLRTLTIIKWAMEIINreqaKKGLEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIA 634
Cdd:TIGR00594 555 MDFLGLKTLTLIQDATELIR----KRRGIDLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIA 630
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 635 LVALFRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMG 714
Cdd:TIGR00594 631 VNALYRPGPMESGMIPDFIDRKHGREPIEYPHPL-----LEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMG 705
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 715 KKKPEEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQN 794
Cdd:TIGR00594 706 KKKAEEMAKEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEIND 785
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 795 TDKVVTLIEECRHMKLRIVAPDVNNSEFRFTVDDDGrIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKR 874
Cdd:TIGR00594 786 IEKVAVYIAEAKKMGIEVLPPDINESGQDFAVEDKG-IRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDFKK 864
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 875 INKRTLEALIRAGALDRLGPhyhdelkayqatvdlNRAVLLAAMEEAIQAAEQTARSHDSGHMDLFgGVFAEPEADVYAN 954
Cdd:TIGR00594 865 LNKKVLEALIKAGAFDSLGP---------------NRKTLLASLDDALDAVSRKKKAEALGQNSLF-GALSEGTKPEYVF 928
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 955 HRKVKELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFAR-QRIVELKPARDTQ--TVAGLIVNLRVMKNKKGDKMGFV 1031
Cdd:TIGR00594 929 FPPDEEWPDKKLLALEKETLGLYVSGHPLDAYEKALKNTATpAAIEDLEAPNDSQvrTLGGLNSVKKKITTKNGKPMAFL 1008
|
1050
....*....|....
gi 15598836 1032 TLDDRSGRIEASLF 1045
Cdd:TIGR00594 1009 QLEDETGSIEVVVF 1022
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-1168 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 1269.43 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1 MTVSFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASR------ 74
Cdd:PRK06826 1 MKMSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVYVAPRsrfdke 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 75 -EEDGPLSRLSLLAMNAKGYRNLTELISRGWSEG----QRngeiiIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAK 149
Cdd:PRK06826 81 pDIDNETYHLVLLAKNETGYKNLMKIVSKAFTEGfyykPR-----VDHELLKEHSEGLIALSACLAGEVPRYILKGNYEK 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 150 AEALLREWMEVF-PERFYVEVQ-----RTSRVNDEehlhaAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRT 223
Cdd:PRK06826 156 AKEAALFYKDIFgKENFYLELQdhgipEQRKVNEE-----LIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKT 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 224 LDDPRRPRTYSDQQYLKSPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEER 303
Cdd:PRK06826 231 VDDENRMRFPSDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDPYEYLRELCYEGLKKR 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 304 levllpkdtpdYEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPL 383
Cdd:PRK06826 311 -----------YPNPSEELIERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPI 379
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 384 AYDLLFERFLNPERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKM 463
Cdd:PRK06826 380 KYNLLFERFLNPERVSMPDIDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKM 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 464 IPFEVGMTLDKAYEQEEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEegGGLVTQFD 543
Cdd:PRK06826 460 IPTELGITIDKALELNPELKEAYENDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPLQKND--GSIVTQFT 537
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 544 KDDVEAAGLVKFDFLGLRTLTIIKWAMEIINReqaKKGLEpVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKK 623
Cdd:PRK06826 538 MTTLEELGLLKMDFLGLRTLTVIRDAVDLIKK---NRGIE-IDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKE 613
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 624 LKPDCLEDLIALVALFRPGPLQSgmVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTL 703
Cdd:PRK06826 614 LKPDSLEDIIAGISLYRPGPMDS--IPRYIKNKNNPEKIEYLHPK-----LEPILKVTYGCIVYQEQVMQIVRDLAGYSM 686
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 704 GGADMLRRAMGKKKPEEMAKQRGGFIEG--------CKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWL 775
Cdd:PRK06826 687 GRSDLVRRAMSKKKHDVMEEERKNFIYGivdeggpgCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYL 766
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 776 KTHFPAPFMAAVLTADMQNTDKVVTLIEECRHMKLRIVAPDVNNSEFRFTVDDDgRIVYGLGAIKGVGEGPVEAITECRA 855
Cdd:PRK06826 767 KRYYPVEFMAALLNSVMGNSDKVAFYIEECRRLGIEVLPPDINESYSKFTVEGD-KIRFGLAAVKNVGENAIDSIVEERE 845
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 856 EGGPFNTLFDFCDRVDLKRINKRTLEALIRAGALDRLGphyhdelkayqatvdLNRAVLLAAMEEAIQAAEQTARSHDSG 935
Cdd:PRK06826 846 KKGKFKSLVDFCERVDTSQINKRAVESLIKAGAFDSLG---------------VYRSQLLAVYEKILDSISKQRKKNIEG 910
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 936 HMDLFGGVFAEPEADVYANHRKVKELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPAR---------- 1005
Cdd:PRK06826 911 QISLFDLIGEEEESSLEIKYPDIKEFDKKELLAMEKEMLGLYISGHPLEEYEETLKKQTSATISDIISDEeedgesklkd 990
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1006 -DTQTVAGLIVNLRVMKNKKGDKMGFVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVS-QDDfsGGLRLRAKR 1083
Cdd:PRK06826 991 gDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPKVYEKYRSLLNEDNIVLIKGRVSlRED--EEPKLICEE 1068
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1084 VMSLEEArTGLAESLRMKLHADL-LKGDRLRwlgELFNRHRGSCPITLdYTsADAKALLQFGESWRVDPADDLIQALRDQ 1162
Cdd:PRK06826 1069 IEPLVIN-SEKKLYLRVEDKKDIkLKLKELK---EILKQYPGNTPVYL-YT-EKERKKFKLDRELWVNLSPELINELKEL 1142
|
....*.
gi 15598836 1163 FGRDNV 1168
Cdd:PRK06826 1143 LGEENV 1148
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
4-1162 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 963.03 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 4 SFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPLSR- 82
Cdd:PRK07374 2 AFVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMYVINGSIDDPQPKk 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 83 -----LSLLAMNAKGYRNLTELISRGWSEGQRNGEII----IERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEAL 153
Cdd:PRK07374 82 ekryhLVVLAKNATGYKNLVKLTTISHLNGMRGRGIFsrpcIDKELLKQYSEGLIVSTACLGGEIPQAILRGRPDVARDV 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 154 LREWMEVFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRtY 233
Cdd:PRK07374 162 AAWYKEVFGDDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLISDEKRLR-Y 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 234 SDQQYLKSPAEMAELFSD------LPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEVL 307
Cdd:PRK07374 241 TGTEYIKSEEEMLRLFRDhldpevIQEAIANTVEVAEKVEEYDILGTYRMPRFPIPEGHTAVSYLTEVTEQGLLKRLKLN 320
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 308 LPKDTPDyeakrqVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDL 387
Cdd:PRK07374 321 SLDEIDE------NYKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIPVGPGRGSAAGSLVAYALGITNIDPVKNGL 394
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 388 LFERFLNPERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFE 467
Cdd:PRK07374 395 LFERFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRLAKLIPVV 474
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 468 VGmtldKAYEQEEML---------RDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEgGGL 538
Cdd:PRK07374 475 RG----KPAKLKAMIgkespspefREKYEKDPRVKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPLQRNND-GQV 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 539 VTQFDKDDVEAAGLVKFDFLGLRTLTIIKWAMEIINREQAKKglepVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMK 618
Cdd:PRK07374 550 ITQYFMEDIESLGLLKMDFLGLKNLTMIEKTLELVEQSTGER----IDPDNLPLDDEKTFELLARGDLEGIFQLESSGMR 625
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 619 ELIKKLKPDCLEDLIALVALFRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVM 698
Cdd:PRK07374 626 QVVRDLKPSSLEDISSILALYRPGPLDAGLIPKFINRKHGREAIDFAHPL-----LEPILTETYGIMVYQEQIMKIAQDL 700
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 699 AGYTLGGADMLRRAMGKKKPEEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTH 778
Cdd:PRK07374 701 AGYSLGQADLLRRAMGKKKVSEMQKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLKAH 780
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 779 FPAPFMAAVLTADMQNTDKVVTLIEECRHMKLRIVAPDVNNSEFRFTVDDDgRIVYGLGAIKGVGEGPVEAITECRAEGG 858
Cdd:PRK07374 781 YPVAYMAALLTVNAGSSDKVQRYISNCNSMGIEVMPPDINRSGIDFTPKGN-RILFGLSAVKNLGDGAIRNIIAARDSDG 859
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 859 PFNTLFDFCDRVDLKRINKRTLEALIRAGALDRLGPhyhdelkayqatvDLNRAVLLAAMEEAIQAAEQTARSHDSGHMD 938
Cdd:PRK07374 860 PFKSLADLCDRLPSNVLNRRSLESLIHCGALDAFSP-------------NANRAQLIADLDLVLDWASSRARDRASGQGN 926
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 939 LF---GGVFAEPEADVYANHR--KVKELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPARDTQTVA-- 1011
Cdd:PRK07374 927 LFdllAGSEEEASNDLSSAPKaaPVPDYPPTEKLKLEKELLGFYLSDHPLKQLTEPAKLLAPISLSSLEEQPDKAKVSai 1006
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1012 GLIVNLRVMKNKKGDKMGFVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDFSGGLRLRAKRvmSLEEAR 1091
Cdd:PRK07374 1007 AMIPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRDDRVQLIIDDCR--EIDDLR 1084
|
1130 1140 1150 1160 1170 1180 1190
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15598836 1092 TGLAEsLRMKLHADLLKGDRLRwlgELFNRHRGS-------CPITLDYTSADAKALLQFGESWRVDPADDLIQALRDQ 1162
Cdd:PRK07374 1085 LLLVE-LDPDQASDIRVQHKLR---ECLQKHRPErdelgvkIPVVAAVRNGNSVRYVRLGHQFCVKDAQAAVKALQQK 1158
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
3-1170 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 946.92 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 3 VSFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICG--ADIWLASREEDGPL 80
Cdd:PRK06920 1 MKFVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGltASIFSEEEEKSYPL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 81 SrlsLLAMNAKGYRNLTElISRGWSEGQRNGeiiIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWMEV 160
Cdd:PRK06920 81 V---LLAENEIGYQNLLK-ISSSIMTKSKEG---IPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAYQNM 153
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 161 FPE-RFYVEVQRtsrVNDEEHLHAAV-ALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQY 238
Cdd:PRK06920 154 FGNfYMSLQHHA---IQDELLLQEKLpEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQYY 230
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 239 LKSPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERlevllpkdtpdYEAK 318
Cdd:PRK06920 231 LKSSDEMEALFSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVPSNETADMYLRRVCEEGLQKR-----------YGTP 299
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 319 RQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERI 398
Cdd:PRK06920 300 KEVHINRLNHELNVISRMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERV 379
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 399 SMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDKAYEQ 478
Cdd:PRK06920 380 TLPDIDIDFPDTRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKLGITLKDAYEE 459
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 479 EEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIAcDEEGGGLVTQFDKDDVEAAGLVKFDFL 558
Cdd:PRK06920 460 SQSLREFIQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAIQ-EGHNDVYVTQYPADALEELGLLKMDFL 538
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 559 GLRTLTIIKWAMEIINREQAKKglepVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVAL 638
Cdd:PRK06920 539 GLRNLTLLENIIKFIEQKTGKE----IDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSL 614
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 639 FRPGPLQSgmVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKP 718
Cdd:PRK06920 615 YRPGPMEQ--IPTFIESKHGKRKIEYLHPD-----LKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNR 687
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 719 EEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKV 798
Cdd:PRK06920 688 DILDQERKHFVQGCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKI 767
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 799 VTLIEECRHMKLRIVAPDVNNSEFRFTVdDDGRIVYGLGAIKGVGEGPVEAITECRAEgGPFNTLFDFCDRVDLKRINKR 878
Cdd:PRK06920 768 VQYIRETKRKGFHVLPPSLQRSGYNFQI-EGNAIRYSLLSIRNIGMATVTALYEEREK-KMFEDLFEFCLRMPSKFVTER 845
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 879 TLEALIRAGALDRLGPhyhdelkayqatvdlNRAVLLAAMEEAIQaaeqtarshdsgHMDLFGGVFAEPEADVYAnhrKV 958
Cdd:PRK06920 846 NLEAFVWSGCFDDFGV---------------SRTNLWKSLKGALE------------YANLARDLGDAVPKSKYV---QG 895
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 959 KELTLKERLKGEKDTLGLYLTGHPIDEYEGEVRRFARQRIVELKPA-RDTQTVAGLIVNLRVMKNKKGDKMGFVTLDDRS 1037
Cdd:PRK06920 896 EELSFIEQLNKEKEVLGFYLSSYPTAQYVKLAKELEIPSLAQAMRHkKKVQRAIVYITSVKVIRTKKGQKMAFITFCDQN 975
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1038 GRIEASLFSEAFAAAQSLLQTDALVVVEG--EVSQDDfsggLRLRAKRVMSLEEARTGL---AESLRMKLHADLLKgDRL 1112
Cdd:PRK06920 976 DEMEAVVFPETYIHFSDKLQEGAIVLVDGtiELRNHK----LQWIVNGLYPLEEMDAYEekkDASVYVKLPSQYEK-KLL 1050
|
1130 1140 1150 1160 1170
....*....|....*....|....*....|....*....|....*....|....*...
gi 15598836 1113 RWLGELFNRHRGSCPITLDYTSadAKALLQFGESWRVDPADDLIQALRDQFGRDNVFL 1170
Cdd:PRK06920 1051 NQVTKILFDYSGFAKVLIYYEK--EHKMVQLSRSLSIHPSEECLGALREIVGEENVVV 1106
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
3-755 |
0e+00 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 632.93 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 3 VSFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPLSR 82
Cdd:PRK09532 1 MSFVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVINGDIEKQKRR 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 83 LS----LLAMNAKGYRNLTELISRGWSEGQRNGEII----IERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALL 154
Cdd:PRK09532 81 RKyhqvVLAKNTQGYKNLVKLTTISHLQGVQGKGIFarpcINKELLEQYHEGLIVTSACLGGEIPQAILSGRPDAARKVA 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 155 REWMEVFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRtYS 234
Cdd:PRK09532 161 KWYKKLFGDDFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLR-YS 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 235 DQQYLKSPAEMAELFSD-LP-----EALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEVll 308
Cdd:PRK09532 240 GTEYLKSAEEMRLLFRDhLPddviaEAIANTLEVADKIEPYNILGEPRIPNYPVPSGHTPDTYVEEVAWQGLLERLNC-- 317
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 309 pkdtPDYEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLL 388
Cdd:PRK09532 318 ----KSRSEVEPVYKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIPVGPGRGSAAGSLVAYCLKITNIDPVHHGLL 393
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 389 FERFLNPERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEV 468
Cdd:PRK09532 394 FERFLNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIPVSR 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 469 G-------MTLDKAYEQEemLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEgGGLVTQ 541
Cdd:PRK09532 474 GkptklkvMISDETPEPE--FKEKYDNDPRVRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNND-GAVITQ 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 542 FDKDDVEAAGLVKFDFLGLRTLTIIKWAMEIInreQAKKGLEpVNIDFIPLDDKP-------------------TYSLLQ 602
Cdd:PRK09532 551 YFMEDLESLGLLKMDFLGLRNLTTIQKTADLI---KENRGVE-IDLDQLPLDERKalkilakgeakklpkdvqkTHKLLE 626
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 603 KAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTY 682
Cdd:PRK09532 627 RGDLEGIFQLESSGMKQIVRDLKPSNIEDISSILALYRPGPLDAGLIPKFINRKHGREPIDYEHQL-----LEPILNETY 701
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 15598836 683 GIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPEEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGY 755
Cdd:PRK09532 702 GVLVYQEQIMKMAQDLAGYSLGEADLLRRAMGKKKISEMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
1-1099 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 600.69 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1 MTVSFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPL 80
Cdd:PRK05672 1 MLPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGPDPDPGGP 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 81 sRLSLLAMNAKGYRNLTELISRGWSEGQRnGEIIIERDWVKEAAEG-LIALSAAKEGEIGHALLDGEEAKAEALLREWME 159
Cdd:PRK05672 81 -HLLVLARDREGYGRLSRLITRARLRAGK-GEYRLDLDDLAEPAGGhWAILTGCRKGFVILALPYGGDAAALAALAALLD 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 160 -VFPERFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQY 238
Cdd:PRK05672 159 aFFADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAIRARRSLAEAGGWLAPNGERH 238
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 239 LKSPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLevllPKDTPDyEAK 318
Cdd:PRK05672 239 LRSGAEMARLFPDYPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTPASWLRQLTEAGAARRY----GPGIPP-KAR 313
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 319 RQvyvdrLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVpVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERI 398
Cdd:PRK05672 314 AQ-----IEHELALIAELGYEGYFLTVHDIVRFARSQGI-LCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPERD 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 399 SMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKmipfEVGMTLDKAYEQ 478
Cdd:PRK05672 388 EPPDIDVDFEHDRREEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAK----QVSRWSGSADDL 463
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 479 EEMLRDFLKSDEEAAEIW-EMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGGGLVTQFDKDDVEAAGLVKFDF 557
Cdd:PRK05672 464 QRLRQAGLDPESPIPRRVvELAAQLIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCAAVGLVKVDV 543
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 558 LGLRTLTIIKWAMEIInreQAKKGlEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVA 637
Cdd:PRK05672 544 LALGMLSALHRAFDLI---AEHRG-RRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFYDLVVEVA 619
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 638 LFRPGPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMG-KK 716
Cdd:PRK05672 620 IVRPGPIQGGMVHPYLRRRNGQEPVTYPHPE-----LEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAaWR 694
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 717 KPEEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTAD-M--- 792
Cdd:PRK05672 695 RKGRLERLRERLYDGMLARGYTGEFADRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAALLNSQpMgfy 774
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 793 --QntdkvvTLIEECRHMKLRIVAPDVNNSEFRFTVDDDG----RIVYGLGAIKGVGEGPVEAITECRAEgGPFNTLFDF 866
Cdd:PRK05672 775 spQ------QLVQDARRHGVEVLPVDVNASGWDATLEPLPdggpAVRLGLRLVRGLGEEAAERIVAARAR-GPFTSVEDL 847
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 867 CDRVDLkriNKRTLEALIRAGALDRLGPHYHdelkayqatvdlnravllAAMEEAIQAAEQtarshdsgHMDLFGGVFAE 946
Cdd:PRK05672 848 ARRAGL---DRRQLEALADAGALRSLGGDRR------------------QALWAAGAAATE--------RLDLLPGAPAS 898
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 947 PEAdvyanhRKVKELTLKERLKGEKDTLGLYLTGHPIdEYegeVR-RFARQRIVelkPARDTQT--------VAGLIvnl 1017
Cdd:PRK05672 899 EAA------PALPGMSEGELVAADYWTTGLSLDSHPL-AL---LRpRLDARGVV---SAAELLDvedgrrvrVAGVV--- 962
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1018 rVMKNKKGDKMG--FVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQddfSGGLR-LRAKRVMSLEEARTGL 1094
Cdd:PRK05672 963 -THRQRPGTASGvtFLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQN---AEGVRhLVADRLEDLSPLLGGL 1038
|
....*
gi 15598836 1095 AESLR 1099
Cdd:PRK05672 1039 RTRSR 1043
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
5-1045 |
0e+00 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 590.89 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 5 FVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASreedgplSRLS 84
Cdd:PRK07135 3 LINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDLEVEN-------FRFI 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 85 LLAMNAKGYRNLTELISRGwsegQRNGEIIIErdwvKEAAEGLIAlsaakegeIGHALLdGEEAKAEALLRewmevFPER 164
Cdd:PRK07135 76 LLAKNYSGYKLLNELSSKK----SKNKEIELN----DLDSDNIII--------IDHPKN-GFYAKNKEQLE-----LKNY 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 165 FYVEvqrtsrvNDEEHlhaavalasrCNAPLVATNDVrfIKQEDFEAHETRVCIGEGRTLDdprrpRTYSDQqylkspaE 244
Cdd:PRK07135 134 YINS-------NDPKI----------ENAVYVQERKL--LFAEDNEYLKILNKIGNNKEEN-----SNFKFF-------D 182
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 245 MAELFSDLPEA-LENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHAsFEGLEERLEVLLPKDtpdyeakrQVYV 323
Cdd:PRK07135 183 FEKWFEDIDEKiLKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKI-LKESVINKKAELKYY--------PNVK 253
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 324 DRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERISMPDF 403
Cdd:PRK07135 254 ERINYEYSVIKKLKFSNYFLIIWDFIKWARKNKISIGPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITMPDI 333
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 404 DVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFevGMTLDKAYEQEEMLR 483
Cdd:PRK07135 334 DIDIQDDRRDEVIDYIFEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIPN--NQSLEEAYDKNKSFF 411
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 484 DFL--KSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEgGGLVTQFDKDDVEAAGLVKFDFLGLR 561
Cdd:PRK07135 412 RELisKGDPIYKKLYKIAKKLEGLPRQSGTHAAGIIISNKPITNYVPTFESKD-NYNQVQYSMEFLEDFGLLKIDLLGLK 490
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 562 TLTIIKWAMEIINreQAKKGLEPVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFRP 641
Cdd:PRK07135 491 NLTIIKNIEEKIN--KELLFDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAIISLYRP 568
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 642 GPLQsgMVDDFINRKHGRAELSYPHPDYqyaglEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPEEM 721
Cdd:PRK07135 569 GPIQ--YIPIYAKNKKNPKNIEKIHPEY-----DEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISKKDETKL 641
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 722 AKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKVVTL 801
Cdd:PRK07135 642 DKIKDKFIEGGIKNGYSKKVLEKIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISNSNGSQENIKKY 721
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 802 IEECRHMKLRIVAPDVNNSEFRfTVDDDGRIVYGLGAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKRINKRTLE 881
Cdd:PRK07135 722 VKEAKNNGIKVYSPDINFSTEN-AVFDNGKIFLPLIMIKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGISKSIIE 800
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 882 ALIRAGALDRLGphyhdelkayqatvdlNRAVLLAAMEEAIQAAEQTARSHDSGHMDLFGG-VFAEPeadvyaNHRKVKE 960
Cdd:PRK07135 801 KLIKANTLRSFG----------------NQDTLLNNLELAKNYAETILSKVAKNLYDDYKNfGLDLE------FILEEIE 858
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 961 LTLKERLKGEKDTLGLYLTGHPIDEYEGEvrrfaRQRIVELKParDTQTVAGLIVNLRVMKNKKGDKMGFVTLDDRSGRI 1040
Cdd:PRK07135 859 RDLEEESKNEIEYLGMSFNAFDTNKLEKN-----QIRLKDLRI--NTEYRLAIEVKNVKRLRKANKEYKKVILSDDSVEI 931
|
....*
gi 15598836 1041 EASLF 1045
Cdd:PRK07135 932 TIFVN 936
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
5-1161 |
1.06e-176 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 547.32 E-value: 1.06e-176
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 5 FVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPLSrls 84
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIFVEEQEVTLR--- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 85 LLAMNAKGYRNLTElISRGWSEGQRNGEIIierdwvKEAAEGlIALSAAkegeighalldgeeakaealLREWME--VFP 162
Cdd:PRK07279 79 LIAKNTQGYKNLLK-ISTAKMSGKKQFSDL------SQYLEG-IAVIVP--------------------YFDWSEtlELP 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 163 ERFYVEVQRTSRVNDEEHlhaavalasrcnaPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDD-PRRPRtysdQQYLKS 241
Cdd:PRK07279 131 FDYYIGVDQETPGSDFKR-------------PILPLRTVRYFESADRETLQMLHAIRDNLSLREvPLVSS----DQELIS 193
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 242 PAEMAELFSD-LPEALEN----TVEIAKRCNIEVQLGKyFLPDFPTPngmgidDYLRHASFEGLEERLevlLPKDtpdye 316
Cdd:PRK07279 194 CQSLETLFQErFPQALDNleklVSGISYDFDTDLKLPR-FNRDRPAV------EELRELAELGLKEKG---LWSS----- 258
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 317 akrqVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPE 396
Cdd:PRK07279 259 ----PYQERLDKELSVIHDMGFDDYFLIVWDLLRFGRSQGYYMGMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKE 334
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 397 RISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVarvqGKSYGLAD----RLSKMIPFevGMTL 472
Cdd:PRK07279 335 RYSMPDIDIDLPDIYRSEFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDV----FKRFGVPEyelsNLTKKISF--RDSL 408
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 473 DKAYEQEEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEGggLVTQFDKDDVEAAGL 552
Cdd:PRK07279 409 ASVYEKNISFRQIINSKLEYQKAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPLKYGDDM--MITQYDAHAVEANGL 486
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 553 VKFDFLGLRTLTIIKWAMEIINREQaKKGLEPVNIDfipLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDL 632
Cdd:PRK07279 487 LKMDFLGLRNLTFVQKMQEKVAKDY-GIHIDIEAID---LEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDI 562
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 633 IALVALFRPGPlqSGMVDDFINRKHGRAELSYPHPdyqyaGLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRA 712
Cdd:PRK07279 563 VATTSLNRPGA--SDYTDNFVKRRHGQEKVDLIDP-----VIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRA 635
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 713 MGKKKPEEMAKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVL---T 789
Cdd:PRK07279 636 MSKKNASEMQKMEEDFLQGALELGHSEEKARELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFYDIMLnysS 715
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 790 ADMqntdkvvtlIEECRHMKLRIVAPDVNNSEFRFTVdDDGRIVYGLGAIKGVGEGPVEAITECRaeggPFNTLFDFCDR 869
Cdd:PRK07279 716 SDY---------ITDALEFGFEVAKLSINTIPYHDKI-ENKKIYLGLKNIKGLPRDLAYWIIENR----PFSSIEDFLTR 781
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 870 VDLKRINKRTLEALIRAGALDRLgphyhdelkayqatvDLNRAVLLAAMEEAIQAAEQtarshdsghmdlFGGVFAEpea 949
Cdd:PRK07279 782 LPENYQKKEFLEPLIKIGLFDSF---------------EKNRQKIINNLDNLFVFVNE------------LGSLFAD--- 831
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 950 DVYANHrKVKELTLKERLKGEKDTLGLYLTGHPIDEyegevrrFARQRIVELKPARDTQ-----TVAGLIVNLRVMKNK- 1023
Cdd:PRK07279 832 SSYSWV-EAEDYSETEKYSLEQELLGVGVSKHPLQA-------IAEKSSRPFTPISQLVknseaTILVQIQSIRVIRTKt 903
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1024 KGDKMGFVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDFsgglRLRakrvMSLEEARTGLAESLRMKLH 1103
Cdd:PRK07279 904 KGQQMAFLSVTDTKKKLDVTLFPETYRQYKDELKEGKFYYLKGKIQERDG----RLQ----MVLQQIQEASSERFWILLE 975
|
1130 1140 1150 1160 1170
....*....|....*....|....*....|....*....|....*....|....*...
gi 15598836 1104 ADllkgDRLRWLGELFNRHRGSCPITLDYTsaDAKALLQfGESWRVDPADDLIQALRD 1161
Cdd:PRK07279 976 NH----EHDQEISEILGAFPGSIPVIIHYQ--EEKETIQ-STHIFVAKSEELEEKLSE 1026
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
5-1035 |
8.75e-169 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 524.79 E-value: 8.75e-169
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 5 FVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIwlasrEEDGPLSRLS 84
Cdd:PRK05898 2 FINLNTHSHYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGLEI-----EYQSTNATLV 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 85 LLAMNAKGYRNLTELISRGWSegqrNGEIIIERDWvkeaaEGLIALsaAKEGEIghalldgeeakaeallrewmeVFPER 164
Cdd:PRK05898 77 LYAKNYNGYLNLIKISSFIMT----NKEFEIQDYL-----DDLFIV--CKKGTF---------------------VFKSP 124
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 165 FYVEVQRTSRVNdeehlhaAVALasrcnaplvatNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQYLkSPAE 244
Cdd:PRK05898 125 NFYQTHNQNAPN-------AIAF-----------NSVFYANKNDKIVFNAMLAIKNDLKIDELKNCQDFDNNHFL-NDNE 185
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 245 MAELFSDLpeALENTVEIAKRCNIEVQLGKYFLPDFPTPNGMGIDDYLRHASFEGLEERLEvllpkdtpdyEAKRQV--- 321
Cdd:PRK05898 186 AQSLFSPI--QLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSEILKQLCISGLNKRLN----------ANDGQVkki 253
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 322 YVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGSLVAYVLKITDLDPLAYDLLFERFLNPERISMP 401
Cdd:PRK05898 254 YVKRLKYELDIINEKQFDDYFLIVYDFINFAKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMP 333
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 402 DFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARVQGKSYGLADRLSKMIPFEVGMTLDKAYEQEEM 481
Cdd:PRK05898 334 DIDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDKICKNIKPDYEEDLDLAIKKNTI 413
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 482 LRDFLKSDEeaaEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPIACDEEgGGLVTQFDKDDVEAAGLVKFDFLGLR 561
Cdd:PRK05898 414 LKEMYVLHK---ELFDLAKKIINAPRQIGTHAAGVVLSNSLLTNIIPIQLGIN-DRPLSQYSMEYLERFGLIKMDLLGLK 489
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 562 TLTIIKWAMEIINREQAKKglepVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFRP 641
Cdd:PRK05898 490 NLTIIDNVLKLIKENQNKK----IDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALFRP 565
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 642 GPLQSgmVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPEEM 721
Cdd:PRK05898 566 GPQQN--IKTFVERRFKREEFSYWNEA-----TKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFRRAISKKDEKIL 638
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 722 AKQRGGFIEGCKNNGIDADLAGNIFDLVEKFAGYGFNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKVVTL 801
Cdd:PRK05898 639 IQLKKDFIEGALKNNYKQPLVNQIFEYIFSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLSHTSASKDKLLSY 718
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 802 IEECRHMKLRIVAPDVNNSEFRFTVDDDGR-IVYGLGAIKGVGEGPVEAITECRAEggpfNTLFDFCDRVD-LKR--INK 877
Cdd:PRK05898 719 LNEAKEFNISIKKPDINYSSNSFVLDTQKQiIRFGFNTIKGFGDELLKKIKSALQN----KTFSDFISYIDaLKKnnVSL 794
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 878 RTLEALIRAGALDRLGphyhdelkayqatvdLNRAVLLAAMEEAIQAAEQtarshdsghmdlfGGVFAEPE-ADV-YANH 955
Cdd:PRK05898 795 SNIEILINVGTFDSFK---------------LSRLFLLNNLPEIFEKTSL-------------NGHFFELNlVGLeYAKD 846
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 956 RKVKELTLKErlkgEKDTLGLYLTGHPIDEYEGEV-RRFARQRIVELKPARDTQTVAGLIV---NLRVMKNKKGDKMGFV 1031
Cdd:PRK05898 847 MSVKERFLKK----EIQYLGIDLNSLNYANYKNEIdYNELKYTIKDIKEIELKNTNYETNIfaqVYEIKQSKTKNGNLSF 922
|
....
gi 15598836 1032 TLDD 1035
Cdd:PRK05898 923 YLET 926
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-280 |
1.67e-163 |
|
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: 485.44 E-value: 1.67e-163
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 4 SFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASREEDGPLSRL 83
Cdd:cd07433 1 SFVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVANPDDADEPFRL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 84 SLLAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLREWMEVFPE 163
Cdd:cd07433 81 TLLAQNEQGYKNLTELISRAYLEGQRNGGPHIKLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQFLKKIFPD 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 164 RFYVEVQRTSRVNDEEHLHAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQYLKSPA 243
Cdd:cd07433 161 RFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRYSPQQYFKSAE 240
|
250 260 270
....*....|....*....|....*....|....*..
gi 15598836 244 EMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLPDF 280
Cdd:cd07433 241 EMAELFADLPEAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
290-559 |
1.23e-136 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 414.59 E-value: 1.23e-136
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 290 DYLRHASFEGLEERLevllpkdtpdYEAKRQVYVDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPGRGSGAGS 369
Cdd:pfam07733 1 EYLRKLVEEGLKERY----------GEGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGS 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 370 LVAYVLKITDLDPLAYDLLFERFLNPERISMPDFDVDFCMEGRDRVIDYVADAYGRNAVSQIITFGTMAAKAVVRDVARV 449
Cdd:pfam07733 71 LVAYLLGITEVDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRA 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 450 QGKSYGLADRLSKMIPFEVGMtLDKAYEQEEMLRDFLKSDEEAAEIWEMALKLEGITRGTGKHAGGVVIAPTKLTDFSPI 529
Cdd:pfam07733 151 LGLPYDEIDRLAKLIPFELGI-LEKALEEEPELKELIESDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPL 229
|
250 260 270
....*....|....*....|....*....|
gi 15598836 530 ACDEEGGGLVTQFDKDDVEAAGLVKFDFLG 559
Cdd:pfam07733 230 YKADDDDRPVTQFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-278 |
4.92e-102 |
|
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: 324.01 E-value: 4.92e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 4 SFVHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLA--SREEDGPLS 81
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVApgSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 82 R------LSLLAMNAKGYRNLTELISRGWSEGQ----RngeiiIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAE 151
Cdd:cd12113 81 GdkryyhLVLLAKNEEGYRNLMKLVSLAYLEGFyykpR-----IDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAR 155
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 152 ALLREWMEVF-PERFYVEVQRTS-----RVNDeehlhAAVALASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLD 225
Cdd:cd12113 156 EAALEYRDIFgKDNFYLELQDHGlpeqkKVNE-----GLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLD 230
|
250 260 270 280 290
....*....|....*....|....*....|....*....|....*....|...
gi 15598836 226 DPRRPRTYSDQQYLKSPAEMAELFSDLPEALENTVEIAKRCNIEVQLGKYFLP 278
Cdd:cd12113 231 DPNRMRFDTDEFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
562-736 |
5.63e-86 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 275.57 E-value: 5.63e-86
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 562 TLTIIKWAMEIINREQAKKglepVNIDFIPLDDKPTYSLLQKAETTAVFQLESRGMKELIKKLKPDCLEDLIALVALFRP 641
Cdd:pfam17657 1 TLTIIRDALDLIKENRGIG----IDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRP 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 642 GPLQSGMVDDFINRKHGRAELSYPHPDyqyagLEPVLKPTYGIILYQEQVMQIAQVMAGYTLGGADMLRRAMGKKKPEEM 721
Cdd:pfam17657 77 GPMQGGNVDDYIKRKHGKEKIEYPHPD-----LEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGKKKPEEM 151
|
170
....*....|....*
gi 15598836 722 AKQRGGFIEGCKNNG 736
Cdd:pfam17657 152 EKLREKFIEGAKENG 166
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
757-1160 |
2.08e-75 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 256.91 E-value: 2.08e-75
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 757 FNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLTADMQNTDKVVTLIEECRHMKLRIVAPDVNNSEFRFTvDDDGRIVYGL 836
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTANSGNQDKVQKYRENCQKMGIEVEPPDINRSGKDFT-PVGEKILFGL 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 837 GAIKGVGEGPVEAITECRAEGGPFNTLFDFCDRVDLKRINKRTLEALIRAGALDRLGPhyhdelkayqatvdlNRAVLLA 916
Cdd:PRK07373 117 SAVRNLGEGAIESILKAREEGGEFKSLADFCDRVDLRVVNRRALETLIYCGAFDKIEP---------------NRQQLIN 181
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 917 AMEEAIQAAEQTARSHDSGHMDLF---GGVFAEPEADVYA-----NHRKVKELTLKERLKGEKDTLGLYLTGHPIDEYEG 988
Cdd:PRK07373 182 DLELVIDWAQKRAKEKASGQGNLFdllGGNTSNSSAANNAfeqapSAPPVADFSLQEKLKLEKELLGFYVSEHPLKSIRR 261
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 989 EVRRFARQRIVELKPARDTQTVAG--LIVNLRVMKNKKGDKMGFVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEG 1066
Cdd:PRK07373 262 PARLLSPINLSELEEQKEKTKVSAvvMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWG 341
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1067 EVSQDDfsgglrlrAKRVMSLEEARTglAESLRMKL-------HADLLKGDRLRwlgELFNRH-----RGSCPITLDYTS 1134
Cdd:PRK07373 342 KVDRRD--------DQVQLIVEDAEP--IEEVRMVMvelspqqAGNIVSQHRLK---EILQEQagdknKAKVPVIAIIQS 408
|
410 420
....*....|....*....|....*.
gi 15598836 1135 ADAKALLQFGESWRVDPADDLIQALR 1160
Cdd:PRK07373 409 GGNRQLVRLGQQYWVQDEHSAVQALQ 434
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
7-172 |
3.01e-51 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 178.12 E-value: 3.01e-51
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 7 HLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLA--SREEDGPLSR-- 82
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVYVApgSREETEKLLAky 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 83 --LSLLAMNAKGYRNLTELISRGWSEGQRNGeiiIERDWVKEAAEGLIALSAAKEGEIGHALL-DGEEAKAEALLREWME 159
Cdd:pfam02811 81 fdLVLLAVHEVGYKNLIKLSSRAYLEGFKPR---IDKELLEEYFEGLIALSGCVLGHLDLILLaPGDYEEAEELAEEYLE 157
|
170
....*....|....
gi 15598836 160 VFPE-RFYVEVQRT 172
Cdd:pfam02811 158 IFGEdGFYLEINTH 171
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
31-267 |
9.76e-38 |
|
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: 142.60 E-value: 9.76e-38
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 31 AGLGMPAVAVTDQsnmCSL---VKFYKTAMGAGIKPICGADIWLasreEDGPlsRLSLLAMNAKGYRNLTELISRGWSEG 107
Cdd:cd07434 27 AELGYRALAITDE---CSLagvVRAHAAAKELGLKLIVGSELVL----ADGT--RLVLLARDRAGYGRLCRLITLGRRRA 97
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 108 QRnGEIIIERDWVKEAAEGLIALsaakegeIGHALLDGEEAKAEALLREWMEVFPERFYVEVQRTSRVNDEEHLHAAVAL 187
Cdd:cd07434 98 EK-GEYRLTLADLLAHAEGLLLI-------LLPPDRLPAAAALLAQLRWLARAFPGRLWLALELHLGGDDARRLARLAAL 169
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 188 ASRCNAPLVATNDVRFIKQEDFEAHETRVCIGEGRTLDDPRRPRTYSDQQYLKSPAEMAELFSDLPEALENTVEIAKRCN 267
Cdd:cd07434 170 AAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLAANAERHLRSPAELARLFLYPPEALAETLEIAARCT 249
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
6-270 |
2.11e-35 |
|
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: 133.10 E-value: 2.11e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 6 VHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLasrEEDGPLSRLSL 85
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTV---EGDGEPYPLLL 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 86 LAMNAKGYRNLTELISRGWSEGQRNGEIIIERDWVKEAAEGLIalsaakegeighALLDGEEAKaeallrewmevfperf 165
Cdd:cd07431 78 LAKNNEGYQNLLRLSTAAMLGEEKDGVPYLDLEELAEAASGLL------------VVLLGPLLL---------------- 129
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 166 yvevqrtsrvndeehlhaavALASRCNAPLVATNDVRFIKQEDFEAHETRVCigegrtlddprrprtysdqqylkspaem 245
Cdd:cd07431 130 --------------------LLAAEQGLPLVATNDVHYLNPEDAFAADVLTA---------------------------- 161
|
250 260
....*....|....*....|....*
gi 15598836 246 aelfsdlPEALENTVEIAKRCNIEV 270
Cdd:cd07431 162 -------FLAVANTVRIAKECAVEL 179
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
84-892 |
6.18e-35 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 145.37 E-value: 6.18e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 84 SLLAMNAKGYRNLTELISRGWSE----GQRngeiiIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEAKAEALLR--EW 157
Cdd:PRK00448 614 TILVKNQVGLKNLFKLVSLSNTKyfyrVPR-----IPRSLLDKYREGLLIGSACEEGEVFDAVLQKGDEELEEIAKfyDY 688
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 158 MEVFPERFYVEVQRTSRVNDEEHLHAA----VALASRCNAPLVATNDVRFIKQEDFEAHETRVCigeGRTLDDPRRPRTY 233
Cdd:PRK00448 689 IEIQPPANYQHLIERELVKDEEELKEIiknlIELGKKLNKPVVATGDVHYLDPEDKIYRKILVA---SQGGGNPLNRHPL 765
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 234 SDqQYLKSPAEMAELFSDLPEAL------ENTVEIAKRC-NIEVQLGKYFLPdfptpngmgiddylrhaSFEGLEERLEV 306
Cdd:PRK00448 766 PE-LHFRTTDEMLDEFAFLGEELakeivvENTNKIADLIeEIEPIKDKLYTP-----------------KIEGAEEEIRE 827
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 307 LLpkdtpdYEAKRQVY--------VDRLNFELDIIIQMGFPGYFLIVMDFIKWAKNNGVPVGPgRGSGAGSLVAYVLKIT 378
Cdd:PRK00448 828 LT------YKKAHEIYgeplpeivEKRIEKELNSIIGNGFAVIYLISQKLVKKSLEDGYLVGS-RGSVGSSFVATMIGIT 900
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 379 DLDPLA----------------------YDLL-------------------FERFLNPERISMPDFDVDFCMEGRDRVID 417
Cdd:PRK00448 901 EVNPLPphyvcpnckysefftdgsvgsgFDLPdkdcpkcgtklkkdghdipFETFLGFKGDKVPDIDLNFSGEYQPVAHN 980
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 418 YVADAYGRNAVSQIITFGTMAAKavvrdvarvqgKSYGLAdrlskmipfevgmtldKAYEQE--EMLRDflksdeeaAEI 495
Cdd:PRK00448 981 YTKVLFGEDHVFRAGTIGTVAEK-----------TAYGYV----------------KKYEEDtgKFYRN--------AEI 1025
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 496 WEMALKLEGITRGTGKHAGGVVIAPTKLT--DFSPI---ACDEEGGGLVTQFD----KDDveaagLVKFDFLGLRTLTII 566
Cdd:PRK00448 1026 DRLAQGCTGVKRTTGQHPGGIIVVPKYMDiyDFTPIqypADDVNSEWKTTHFDfhsiHDN-----LLKLDILGHDDPTMI 1100
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 567 KwaMeiinreqakkgLEP---VNIDFIPLDDKPTYSLLQKAETTAVF--QLES---------------RGMkelIKKLKP 626
Cdd:PRK00448 1101 R--M-----------LQDltgIDPKTIPMDDPKVMKLFSSTEALGVTpeQIGCetgtlgipefgtkfvRQM---LEETKP 1164
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 627 DCLEDLIALvalfrpgplqSGM----------VDDFInrKHGRAELS-----------YphpdYQYAGLEP--------- 676
Cdd:PRK00448 1165 KTFAELVQI----------SGLshgtdvwlgnAQELI--KEGIATLSdvigcrddimvY----LIHKGLEPklafkimes 1228
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 677 VLKptyGIILYQEQVmqiaqvmagytlggadmlrRAMGKKKPEEMakqrggFIEGCKNngIdadlagnifdlvekfaGYG 756
Cdd:PRK00448 1229 VRK---GKGLTEEEE-------------------ELMKENNVPDW------YIESCKK--I----------------KYM 1262
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 757 FNKSHSAAYGLVSYQTAWLKTHFPAPFMAAVLT--AD-------------------------MQNTDK---VVTLIEECR 806
Cdd:PRK00448 1263 FPKAHAAAYVLMAWRIAYFKVHYPLAYYAAYFSvrADdfdletmskgkeaikakmkeikskgNDASNKekdLLTVLEIAL 1342
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 807 HMKLR---IVAPDVNNSE-FRFTVDDDGRIVyGLGAIKGVGEGPVEAITECRAEgGPFNTLFDFCDRvdlKRINKRTLEA 882
Cdd:PRK00448 1343 EMLERgfkFQKVDLYKSDaTEFIIEGDSLIP-PFNALPGLGENVAKSIVEAREE-GEFLSKEDLRKR---TKVSKTLIEK 1417
|
970
....*....|
gi 15598836 883 LIRAGALDRL 892
Cdd:PRK00448 1418 LDELGVLDDL 1427
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
809-895 |
9.48e-30 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 113.34 E-value: 9.48e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 809 KLRIVAPDVNNSEFRFTVDDdGRIVYGLGAIKGVGEGPVEAITECRaEGGPFNTLFDFCDRVDLKrINKRTLEALIRAGA 888
Cdd:pfam14579 1 GIEVLPPDINRSDWDFTVEG-GGIRLGLGAIKGLGEAAAERIVEER-ENGPFKSLEDFARRVDLK-LNKRVLEALIKAGA 77
|
....*..
gi 15598836 889 LDRLGPH 895
Cdd:pfam14579 78 FDSLGGN 84
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
1009-1091 |
8.88e-27 |
|
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: 104.90 E-value: 8.88e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 1009 TVAGLIVNLRVMKNKKGDKMGFVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDfsGGLRLRAKRVMSLE 1088
Cdd:cd04485 1 TVAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRD--GGLRLIAERIEDLE 78
|
...
gi 15598836 1089 EAR 1091
Cdd:cd04485 79 DAR 81
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
6-263 |
9.17e-23 |
|
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: 99.47 E-value: 9.17e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 6 VHLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLASReedgplSRLSL 85
Cdd:cd07435 2 VELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYLVDP------YHITI 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 86 LAMNAKGYRNLTELISRGWSEGqRNGEIIIERDWVKEAAEGLIALSAAKEGEIGHALLDGEEakaEALLREWMevfpeRF 165
Cdd:cd07435 76 LVKNQTGLKNLYKLVSLSHTKY-FYRVPRIPKSELEKYREGLLIGSACENGELFEAALNKKS---DEELEEIA-----SF 146
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 15598836 166 Y--VEVQ---------RTSRVNDEEHLHAA----VALASRCNAPLVATNDVRFIKQEDfeaHETRVCIGEGRTLDDPRrp 230
Cdd:cd07435 147 YdyIEIQpldnyqfliEKGLIKSEEELKEInkriIKLGKKLNKPVVATGDVHYLDPED---KIYREILLAGQGGGDGR-- 221
|
250 260 270
....*....|....*....|....*....|....*....
gi 15598836 231 RTYSDQQYLKSPAEMAELFSDLPEAL------ENTVEIA 263
Cdd:cd07435 222 ADEQPDLYFRTTDEMLDEFSYLGEEKayevvvTNTNKIA 260
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
7-73 |
1.93e-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: 86.17 E-value: 1.93e-20
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 15598836 7 HLRLHTEFSLVDGLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKFYKTAMGAGIKPICGADIWLAS 73
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
|
|
| tRNA_anti-codon |
pfam01336 |
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ... |
1009-1087 |
2.66e-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: 60.33 E-value: 2.66e-11
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 15598836 1009 TVAGLIVNLRvmknKKGDKMGFVTLDDRSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSQDDFsGGLRLRAKRVMSL 1087
Cdd:pfam01336 2 TVAGRVTSIR----RSGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKG-GELELVVEEIELL 75
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
6-69 |
4.91e-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: 4.91e-09
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 15598836 6 VHLRLHTEFSLVDgLVRVKPLAKAVAGLGMPAVAVTDQSNMCSLVKF--------YKTAMGAGIKPICGADI 69
Cdd:cd07309 1 VDLHTHTVFSDGD-HAKLTELVDKAKELGPDALAITDHGNLRGLAEFntagk*nhIKAAEAAGIKIIIGSEV 71
|
|
| RPA2_OBF_family |
cd03524 |
RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold ... |
1009-1085 |
1.68e-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: 38.11 E-value: 1.68e-03
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 15598836 1009 TVAGLIVNLRvmKNKKGDKMGFVTLDD-RSGRIEASLFSEAFAAAQSLLQTDALVVVEGEVSqdDFSGGLRLRAKRVM 1085
Cdd:cd03524 1 TIVGIVVAVE--EIRTEGKVLIFTLTDgTGGTIRVTLFGELAEELENLLKEGQVVYIKGKVK--KFRGRLQLIVESIE 74
|
|
| |
