|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
4-1143 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1709.93 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 4 DFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPEsrfEKKETP 83
Cdd:PRK05673 1 RFVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPE---KKDDVS 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 84 GGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMY-YKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVR 162
Cdd:PRK05673 78 GGGAYTHLTLLAKNETGYRNLFKLSSRAYLEGQYgYKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAA 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 163 KYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEG 242
Cdd:PRK05673 158 EYQEIFG-DRFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFRFYS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 243 SEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKRYPVITD---- 318
Cdd:PRK05673 237 PEQYLKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETE-EDYLRKEAKEGLEERLAFLFPdeer 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 319 -EIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVS 397
Cdd:PRK05673 316 pEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 398 MPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdGIkevTLK 477
Cdd:PRK05673 396 MPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDP---GI---TLA 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 478 YAVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIENCGLV 556
Cdd:PRK05673 470 KAYEEEPELRELYEsDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPVTQFDMKDVEAAGLV 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 557 KMDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIAL 636
Cdd:PRK05673 550 KFDFLGLRTLTIIDDALKLIKKRRGI--DVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIAL 627
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 637 NALYRPGPMD--YINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEV 714
Cdd:PRK05673 628 VALYRPGPMEsgMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKPEE 707
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 715 MKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPE 794
Cdd:PRK05673 708 MAKQREIFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMDNTDKVAV 787
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 795 YIAEAEKMGLKILPPHVNLSDPYFSVsSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNL 874
Cdd:PRK05673 788 YLDECRRMGIKVLPPDVNESLYDFTV-VDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKKVNKRVL 866
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 875 EVMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLFEGSG-IKEFSDFVFEKIEEFPKKEKLRLEKELMGF 953
Cdd:PRK05673 867 ESLIKAGAFDSLGPNRAALLASLEDAVDAADQHKKAEASGQFDLFGGLGeEPEDVEVSVPDVEEWDKKEKLAGERETLGL 946
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 954 YISGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRA 1033
Cdd:PRK05673 947 YLSGHPLDGYEDELRRLRDTRLADLEPTEGGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSEALEKYRD 1026
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1034 VLLPETVCGFAGSIDNSDGeSHSFLVDEVLEIDKLQQKALSEVHIELDENITSAKELTGLKDFLYERSGNCEVYIHVKDE 1113
Cdd:PRK05673 1027 LLEEDRIVVVKGQVSFDDG-GLRLTAREVMDLEEARAKYARPLRISLPDRQLTPQLLERLKQVLEPHRGTSPVHLYLQDP 1105
|
1130 1140 1150
....*....|....*....|....*....|
gi 41819556 1114 DKAYIIKASPQIRIPSTPEFIEELNMQFGV 1143
Cdd:PRK05673 1106 DAEAELRLGDRWRVTPSDALLGDLKALLGV 1135
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1062 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1571.61 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1 MAVDFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRfekk 80
Cdd:COG0587 1 MSPSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSR---- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 81 etpgGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYY-KPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEA 159
Cdd:COG0587 77 ----DDAGYHLVLLAKNREGYRNLCRLLSRAYLEGFYKgKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEA 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 160 HVRKYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQ 239
Cdd:COG0587 153 ALARLKDIFG-DRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRR 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 240 FEGSEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKRYPV-ITD 318
Cdd:COG0587 232 FANAERYLKSPEEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETE-EEYLRKLAEEGLERRYPEgIPE 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 319 EIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVSM 398
Cdd:COG0587 311 EYRERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSM 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 399 PDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdgikEVTLKY 478
Cdd:COG0587 391 PDIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDP------GITLEK 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 479 AVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIENCGLVK 557
Cdd:COG0587 465 ALEEEPELRELYDsDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLK 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 558 MDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALN 637
Cdd:COG0587 545 FDFLGLRTLTVIRDALDLIKENRGI--DIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALV 622
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 638 ALYRPGPMDY--INQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVM 715
Cdd:COG0587 623 ALYRPGPMQGgmVPPYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEM 702
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 716 KTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPEY 795
Cdd:COG0587 703 AKQREKFVEGAVANGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQY 782
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 796 IAEAEKMGLKILPPHVNLSDPYFSVSSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNLE 875
Cdd:COG0587 783 VQEARRHGIEVLPPDVNESDWDFTVEPGGAIRLGLGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRVDLRKLNKRVLE 862
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 876 VMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLFEGSGIKEFSDFVFEKIEEFPKKEKLRLEKELMGFYI 955
Cdd:COG0587 863 ALIKAGAFDSLGPNRRQLLWALEAALDAAQQAQKDKASGQLSLFGGAGDEEVAEPALPELPEWSEKEKLAAEKEALGLYL 942
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 956 SGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAVL 1035
Cdd:COG0587 943 SGHPLDLYREELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVFPEVYERYRRLL 1022
|
1050 1060
....*....|....*....|....*..
gi 41819556 1036 LPETVCGFAGSIDNSDGESHsFLVDEV 1062
Cdd:COG0587 1023 LEDRLLLVRGKVQRRDGVVH-LIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
5-1024 |
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: 1499.19 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRFEKKETPG 84
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDKKRISK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 GKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRKY 164
Cdd:TIGR00594 81 GKEAYHLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 165 REIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEGSE 244
Cdd:TIGR00594 161 QEIFG-DDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 245 FYFKSGEEMAQLFPEYPEAILNTVRIAEMCNL-EIPQPGPILPIYKIPEDFSSKEDYIRHLAEEGLKKRYPV------IT 317
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNLvDVKLGPPRLPSYQIPPDFTSQEDYLRHLADEGLRERLAAgppgykRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 318 DEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVS 397
Cdd:TIGR00594 320 AQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 398 MPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdgikEVTLK 477
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRP------GKTLK 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 478 YAVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIENCGLV 556
Cdd:TIGR00594 474 EALEASPQLRQLYEeDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLL 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 557 KMDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIAL 636
Cdd:TIGR00594 554 KMDFLGLKTLTLIQDATELIRKRRGI--DLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAV 631
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 637 NALYRPGPMD--YINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEV 714
Cdd:TIGR00594 632 NALYRPGPMEsgMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEE 711
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 715 MKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPE 794
Cdd:TIGR00594 712 MAKEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAV 791
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 795 YIAEAEKMGLKILPPHVNLSDPYFSVsSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNL 874
Cdd:TIGR00594 792 YIAEAKKMGIEVLPPDINESGQDFAV-EDKGIRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDFKKLNKKVL 870
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 875 EVMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLF--EGSGIKEFSDFVFEKiEEFPKKEKLRLEKELMG 952
Cdd:TIGR00594 871 EALIKAGAFDSLGPNRKTLLASLDDALDAVSRKKKAEALGQNSLFgaLSEGTKPEYVFFPPD-EEWPDKKLLALEKETLG 949
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 41819556 953 FYISGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTKK-GAMMGFGTFEDLNGTLDLVFF 1024
Cdd:TIGR00594 950 LYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGLNSVKKKITTKnGKPMAFLQLEDETGSIEVVVF 1022
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-286 |
0e+00 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, the PolIIIA PHP exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such an activity has not been found. It has been shown that the PHP of PolIIIA has a trinuclear metal complex and is capable of proofreading activity. Bacterial genome replication and DNA repair mechanisms is related to the GC content of its genomes. There is a correlation between GC content variations and the dimeric combinations of PolIIIA subunits. Eubacteria can be grouped into different GC variable groups: the full-spectrum or dnaE1 group, the high-GC or dnaE2-dnaE1 group, and the low GC or polC-dnaE3 group.
Pssm-ID: 213997 [Multi-domain] Cd Length: 283 Bit Score: 532.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 4 DFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRFEKKETP 83
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVAPGSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 84 GGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRK 163
Cdd:cd12113 81 GDKRYYHLVLLAKNEEGYRNLMKLVSLAYLEGFYYKPRIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAALE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 164 YREIFGAENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEGS 243
Cdd:cd12113 161 YRDIFGKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFDTD 240
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 41819556 244 EFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILP 286
Cdd:cd12113 241 EFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
299-562 |
2.38e-130 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 397.64 E-value: 2.38e-130
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 299 DYIRHLAEEGLKKRYP-VITDEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITD 377
Cdd:pfam07733 1 EYLRKLVEEGLKERYGeGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 378 IDPLKYNLLFERFLNPERVSMPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNA 457
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 458 ITKLIPPKPltdgikeVTLKYAVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDS 536
Cdd:pfam07733 161 LAKLIPFEL-------GILEKALEEEPELKELIEsDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKAD 233
|
250 260
....*....|....*....|....*.
gi 41819556 537 KTGKVATQFTMDLIENCGLVKMDFLG 562
Cdd:pfam07733 234 DDDRPVTQFDKDDLEDLGLLKMDFLG 259
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
7-73 |
1.88e-27 |
|
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: 106.20 E-value: 1.88e-27
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 41819556 7 HLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAP 73
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| dnaE |
PRK05673 |
DNA polymerase III subunit alpha; Validated |
4-1143 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 235554 [Multi-domain] Cd Length: 1135 Bit Score: 1709.93 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 4 DFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPEsrfEKKETP 83
Cdd:PRK05673 1 RFVHLHVHSEYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVAPE---KKDDVS 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 84 GGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMY-YKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVR 162
Cdd:PRK05673 78 GGGAYTHLTLLAKNETGYRNLFKLSSRAYLEGQYgYKPRIDREWLAEHSEGLIALSGCPSGEVGTALLAGQYDEAEEAAA 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 163 KYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEG 242
Cdd:PRK05673 158 EYQEIFG-DRFYLELMRHGLPIERRVEHALLELAKELGLPLVATNDVHYLTPEDAEAHEALLCIAEGKTLDDPDRFRFYS 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 243 SEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKRYPVITD---- 318
Cdd:PRK05673 237 PEQYLKSAEEMRELFADLPEALDNTVEIAERCNVEVRLGKPFLPRFPTPDGETE-EDYLRKEAKEGLEERLAFLFPdeer 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 319 -EIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVS 397
Cdd:PRK05673 316 pEYVERLEYELDVIIQMGFPGYFLIVADFIQWAKDNGIPVGPGRGSGAGSLVAYALGITDLDPLRFGLLFERFLNPERVS 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 398 MPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdGIkevTLK 477
Cdd:PRK05673 396 MPDFDIDFCQDRRDEVIRYVAEKYGRDAVAQIITFGTMKAKAVIRDVGRVLGMPYGFVDRITKLIPPDP---GI---TLA 469
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 478 YAVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIENCGLV 556
Cdd:PRK05673 470 KAYEEEPELRELYEsDPEVKRLIDMARKLEGLTRNAGVHAAGVVISPTPLTDFVPLYRDPDSGMPVTQFDMKDVEAAGLV 549
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 557 KMDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIAL 636
Cdd:PRK05673 550 KFDFLGLRTLTIIDDALKLIKKRRGI--DVDLEAIPLDDPKTYELLQRGETLGVFQLESRGMRDLLKRLKPDCFEDIIAL 627
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 637 NALYRPGPMD--YINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEV 714
Cdd:PRK05673 628 VALYRPGPMEsgMIPNFIDRKHGREEIEYPHPELEPILKETYGIIVYQEQVMQIAQVLAGYSLGGADLLRRAMGKKKPEE 707
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 715 MKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPE 794
Cdd:PRK05673 708 MAKQREIFVEGAKKNGIDEEAADAIFDLLEKFAGYGFNKSHAAAYALVSYQTAYLKAHYPAEFMAALLTSDMDNTDKVAV 787
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 795 YIAEAEKMGLKILPPHVNLSDPYFSVsSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNL 874
Cdd:PRK05673 788 YLDECRRMGIKVLPPDVNESLYDFTV-VDGDIRYGLGAIKGVGEGAVEAIVEAREEGGPFKDLFDFCARVDLKKVNKRVL 866
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 875 EVMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLFEGSG-IKEFSDFVFEKIEEFPKKEKLRLEKELMGF 953
Cdd:PRK05673 867 ESLIKAGAFDSLGPNRAALLASLEDAVDAADQHKKAEASGQFDLFGGLGeEPEDVEVSVPDVEEWDKKEKLAGERETLGL 946
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 954 YISGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRA 1033
Cdd:PRK05673 947 YLSGHPLDGYEDELRRLRDTRLADLEPTEGGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSEALEKYRD 1026
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1034 VLLPETVCGFAGSIDNSDGeSHSFLVDEVLEIDKLQQKALSEVHIELDENITSAKELTGLKDFLYERSGNCEVYIHVKDE 1113
Cdd:PRK05673 1027 LLEEDRIVVVKGQVSFDDG-GLRLTAREVMDLEEARAKYARPLRISLPDRQLTPQLLERLKQVLEPHRGTSPVHLYLQDP 1105
|
1130 1140 1150
....*....|....*....|....*....|
gi 41819556 1114 DKAYIIKASPQIRIPSTPEFIEELNMQFGV 1143
Cdd:PRK05673 1106 DAEAELRLGDRWRVTPSDALLGDLKALLGV 1135
|
|
| DnaE |
COG0587 |
DNA polymerase III, alpha subunit [Replication, recombination and repair]; |
1-1062 |
0e+00 |
|
DNA polymerase III, alpha subunit [Replication, recombination and repair];
Pssm-ID: 440352 [Multi-domain] Cd Length: 1050 Bit Score: 1571.61 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1 MAVDFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRfekk 80
Cdd:COG0587 1 MSPSFVHLHVHSEYSLLDGASRPEELVARAAELGMPALAITDHGNLFGAVRFYKAAKKAGIKPIIGCELYVAPGSR---- 76
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 81 etpgGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYY-KPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEA 159
Cdd:COG0587 77 ----DDAGYHLVLLAKNREGYRNLCRLLSRAYLEGFYKgKPRIDLEDLAEHSEGLIALSGCLAGEVGQALLAGQYDEAEA 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 160 HVRKYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQ 239
Cdd:COG0587 153 ALARLKDIFG-DRFYLELQRHGLPEDRRVNAALLELARELGLPLVATNDVHYLNPEDAEAHDVLLCIRTGKTLDDPGRRR 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 240 FEGSEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKRYPV-ITD 318
Cdd:COG0587 232 FANAERYLKSPEEMAELFADLPEALANTLEIAERCNFSLDLGKYQLPKFPVPEGETE-EEYLRKLAEEGLERRYPEgIPE 310
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 319 EIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVSM 398
Cdd:COG0587 311 EYRERLEYELDVIEKMGFPGYFLIVWDFIRWARSNGIPVGPGRGSAAGSLVAYALGITDVDPIRYDLLFERFLNPERVSM 390
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 399 PDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdgikEVTLKY 478
Cdd:COG0587 391 PDIDIDFCHERREEVIQYVYEKYGRDRVAQIATFGTMRARAAIRDVGRVLGLPYGEVDRLAKLIPNDP------GITLEK 464
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 479 AVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIENCGLVK 557
Cdd:COG0587 465 ALEEEPELRELYDsDPEVRRLLDLARKLEGLPRHLSTHAGGVVISDDPLTDLVPLERAAMGGRPVTQFDKDDVEALGLLK 544
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 558 MDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALN 637
Cdd:COG0587 545 FDFLGLRTLTVIRDALDLIKENRGI--DIDLADIPLDDPKTYELLQRGDTIGVFQLESRGMRSLLKRLKPDCFEDLVALV 622
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 638 ALYRPGPMDY--INQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVM 715
Cdd:COG0587 623 ALYRPGPMQGgmVPPYIRRKHGREPVEYPHPELEPILKETYGVIVYQEQVMQIAQVLAGFSLGEADLLRRAMGKKKKEEM 702
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 716 KTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPEY 795
Cdd:COG0587 703 AKQREKFVEGAVANGYDEEFAEEIFDQIEKFAGYGFNKSHAAAYALLAYQTAYLKAHYPAEFMAALLNSQPMGFYKPAQY 782
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 796 IAEAEKMGLKILPPHVNLSDPYFSVSSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNLE 875
Cdd:COG0587 783 VQEARRHGIEVLPPDVNESDWDFTVEPGGAIRLGLGAIKGVGEAAAEAIVAAREENGPFTSLFDFCRRVDLRKLNKRVLE 862
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 876 VMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLFEGSGIKEFSDFVFEKIEEFPKKEKLRLEKELMGFYI 955
Cdd:COG0587 863 ALIKAGAFDSLGPNRRQLLWALEAALDAAQQAQKDKASGQLSLFGGAGDEEVAEPALPELPEWSEKEKLAAEKEALGLYL 942
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 956 SGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAVL 1035
Cdd:COG0587 943 SGHPLDLYREELRRLGVTPAADLAELRDGRRVRVAGLVTSRQRPGTKKGKRMAFVTLEDETGSIEVVVFPEVYERYRRLL 1022
|
1050 1060
....*....|....*....|....*..
gi 41819556 1036 LPETVCGFAGSIDNSDGESHsFLVDEV 1062
Cdd:COG0587 1023 LEDRLLLVRGKVQRRDGVVH-LIAERI 1048
|
|
| polc |
TIGR00594 |
DNA-directed DNA polymerase III (polc); All proteins in this family for which functions are ... |
5-1024 |
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: 1499.19 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRFEKKETPG 84
Cdd:TIGR00594 1 FVHLHVHSDYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVAPGSRFDKKRISK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 GKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRKY 164
Cdd:TIGR00594 81 GKEAYHLILLAKNNTGYRNLMKLSSLAYLEGFYYKPRIDKELLEEHSEGLIALSACLSGEVPYLLLLGEERLAEEAALKY 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 165 REIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEGSE 244
Cdd:TIGR00594 161 QEIFG-DDYYLELQDHGIPEQRVVNEALLEISEELGIPLVATNDVHYINPEDAHAHEILLCIQTGKTLSDPKRLKFYSDE 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 245 FYFKSGEEMAQLFPEYPEAILNTVRIAEMCNL-EIPQPGPILPIYKIPEDFSSKEDYIRHLAEEGLKKRYPV------IT 317
Cdd:TIGR00594 240 FYLKSPEEMAELFADIPEALANTVEIAERCNLvDVKLGPPRLPSYQIPPDFTSQEDYLRHLADEGLRERLAAgppgykRR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 318 DEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVS 397
Cdd:TIGR00594 320 AQYKERLEYELDVINSMGFPGYFLIVWDFIKWAKDHGIPVGPGRGSAAGSLVAYALKITDIDPIKHGLLFERFLNPERIS 399
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 398 MPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdgikEVTLK 477
Cdd:TIGR00594 400 MPDIDIDFCDERRDEVIEYVADKYGHDNVAQIITFGTMKAKAALRDVARVLDIPYAEADRIAKLIPPRP------GKTLK 473
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 478 YAVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIENCGLV 556
Cdd:TIGR00594 474 EALEASPQLRQLYEeDPEVKQLIDMARKLEGLNRNAGVHAAGVVISSEPLTDYVPLYKDKEGGAISTQYDMDDLEAVGLL 553
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 557 KMDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIAL 636
Cdd:TIGR00594 554 KMDFLGLKTLTLIQDATELIRKRRGI--DLDIASIPLDDKKTFSLLQEGDTTGVFQLESRGMQDLLKRLKPDGFEDIIAV 631
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 637 NALYRPGPMD--YINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEV 714
Cdd:TIGR00594 632 NALYRPGPMEsgMIPDFIDRKHGREPIEYPHPLLEPILKETYGVIVYQEQVMQIAQRLAGFSLGEADLLRRAMGKKKAEE 711
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 715 MKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPE 794
Cdd:TIGR00594 712 MAKEREKFVEGAEKNGYDPEIAENLFDLIEKFAGYGFNKSHAAAYGMISYQTAYLKANYPAEFMAALLTSEINDIEKVAV 791
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 795 YIAEAEKMGLKILPPHVNLSDPYFSVsSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNL 874
Cdd:TIGR00594 792 YIAEAKKMGIEVLPPDINESGQDFAV-EDKGIRYGLGAIKGVGESVVKSIIEERNKNGPFKSLFDFINRVDFKKLNKKVL 870
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 875 EVMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLF--EGSGIKEFSDFVFEKiEEFPKKEKLRLEKELMG 952
Cdd:TIGR00594 871 EALIKAGAFDSLGPNRKTLLASLDDALDAVSRKKKAEALGQNSLFgaLSEGTKPEYVFFPPD-EEWPDKKLLALEKETLG 949
|
970 980 990 1000 1010 1020 1030
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 41819556 953 FYISGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTKK-GAMMGFGTFEDLNGTLDLVFF 1024
Cdd:TIGR00594 950 LYVSGHPLDAYEKALKNTATPAAIEDLEAPNDSQVRTLGGLNSVKKKITTKnGKPMAFLQLEDETGSIEVVVF 1022
|
|
| dnaE |
PRK06826 |
DNA polymerase III DnaE; Reviewed |
1-1148 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 235868 [Multi-domain] Cd Length: 1151 Bit Score: 1470.89 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1 MAVDFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRFEKk 80
Cdd:PRK06826 1 MKMSFVHLHVHTEYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVYVAPRSRFDK- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 81 ETPGGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAH 160
Cdd:PRK06826 80 EPDIDNETYHLVLLAKNETGYKNLMKIVSKAFTEGFYYKPRVDHELLKEHSEGLIALSACLAGEVPRYILKGNYEKAKEA 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 161 VRKYREIFGAENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQF 240
Cdd:PRK06826 160 ALFYKDIFGKENFYLELQDHGIPEQRKVNEELIKLSKELGIPLVATNDVHYIRKEDAKAHDVLLCIQTGKTVDDENRMRF 239
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 241 EGSEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKRYPVITDEI 320
Cdd:PRK06826 240 PSDEFYLKSPEEMYELFSYVPEALENTVKIAERCNVEFEFGKSKLPKFPLPEGYDP-YEYLRELCYEGLKKRYPNPSEEL 318
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 321 KNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVSMPD 400
Cdd:PRK06826 319 IERLEYELSVIKQMGYVDYFLIVWDFIRFARENGIMVGPGRGSAAGSLVAYTLGITKIDPIKYNLLFERFLNPERVSMPD 398
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 401 FDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdGIkevTLKYAV 480
Cdd:PRK06826 399 IDIDFCYERRQEVIDYVVEKYGKDRVAQIITFGTMAARAAIRDVGRALNYPYAEVDRIAKMIPTEL---GI---TIDKAL 472
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 481 DVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSktGKVATQFTMDLIENCGLVKMD 559
Cdd:PRK06826 473 ELNPELKEAYEnDERVRELIDTARALEGLPRHASTHAAGVVISSEPLVEYVPLQKND--GSIVTQFTMTTLEELGLLKMD 550
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 560 FLGLKTLTLIKHTEDLIHKRGGewRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALNAL 639
Cdd:PRK06826 551 FLGLRTLTVIRDAVDLIKKNRG--IEIDLDKIDYDDKKVYKMIGEGKTVGVFQLESAGMRSFMKELKPDSLEDIIAGISL 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 640 YRPGPMDYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVMKTEK 719
Cdd:PRK06826 629 YRPGPMDSIPRYIKNKNNPEKIEYLHPKLEPILKVTYGCIVYQEQVMQIVRDLAGYSMGRSDLVRRAMSKKKHDVMEEER 708
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 720 EKFI--------KGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDK 791
Cdd:PRK06826 709 KNFIygivdeggPGCIRNGIDEETANKIFDSMMDFASYAFNKSHAAAYAVVAYQTAYLKRYYPVEFMAALLNSVMGNSDK 788
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 792 LPEYIAEAEKMGLKILPPHVNLSDPYFSVsSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNK 871
Cdd:PRK06826 789 VAFYIEECRRLGIEVLPPDINESYSKFTV-EGDKIRFGLAAVKNVGENAIDSIVEEREKKGKFKSLVDFCERVDTSQINK 867
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 872 RNLEVMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKENESTGQGSLFEGSGIKEFS--DFVFEKIEEFPKKEKLRLEKE 949
Cdd:PRK06826 868 RAVESLIKAGAFDSLGVYRSQLLAVYEKILDSISKQRKKNIEGQISLFDLIGEEEESslEIKYPDIKEFDKKELLAMEKE 947
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 950 LMGFYISGHPLDEYRKVIDNSATLDISHLARATSKK---------RYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLD 1020
Cdd:PRK06826 948 MLGLYISGHPLEEYEETLKKQTSATISDIISDEEEDgesklkdgdKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVE 1027
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1021 LVFFPKTWEKHRAVLLPETVCGFAGSIDNSDGESHSFLVDEVLEIDKLQQKalsEVHIELDENITSAKELTGLKDFLYER 1100
Cdd:PRK06826 1028 VIVFPKVYEKYRSLLNEDNIVLIKGRVSLREDEEPKLICEEIEPLVINSEK---KLYLRVEDKKDIKLKLKELKEILKQY 1104
|
1130 1140 1150 1160
....*....|....*....|....*....|....*....|....*...
gi 41819556 1101 SGNCEVYIHVKDEDKayIIKASPQIRIPSTPEFIEELNMQFGVEQIWL 1148
Cdd:PRK06826 1105 PGNTPVYLYTEKERK--KFKLDRELWVNLSPELINELKELLGEENVKV 1150
|
|
| dnaE |
PRK07374 |
DNA polymerase III subunit alpha; Validated |
5-1068 |
0e+00 |
|
DNA polymerase III subunit alpha; Validated
Pssm-ID: 168927 [Multi-domain] Cd Length: 1170 Bit Score: 1022.74 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVA------PESRFE 78
Cdd:PRK07374 3 FVPLHNHSDYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMYVIngsiddPQPKKE 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 79 KKetpggkkyYHLILLAKNETGYRNLMVLCSKGYTEGM-----YYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGE 153
Cdd:PRK07374 83 KR--------YHLVVLAKNATGYKNLVKLTTISHLNGMrgrgiFSRPCIDKELLKQYSEGLIVSTACLGGEIPQAILRGR 154
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 154 KEKAEAHVRKYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRT 233
Cdd:PRK07374 155 PDVARDVAAWYKEVFG-DDFYLEIQDHGSIEDRIVNVELVRIAKELGIKLIATNDAHYLSKNDVEAHDALLCVLTGKLIS 233
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 234 DTNRMQFEGSEfYFKSGEEMAQLFPEY------PEAILNTVRIAEMCN----LEIPQpgpiLPIYKIPEDFSSkEDYIRH 303
Cdd:PRK07374 234 DEKRLRYTGTE-YIKSEEEMLRLFRDHldpeviQEAIANTVEVAEKVEeydiLGTYR----MPRFPIPEGHTA-VSYLTE 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 304 LAEEGLKKRYPV-----ITDEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDI 378
Cdd:PRK07374 308 VTEQGLLKRLKLnsldeIDENYKERLSYELKIIEQMGFPTYFLVVWDYIRFAREQGIPVGPGRGSAAGSLVAYALGITNI 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 379 DPLKYNLLFERFLNPERVSMPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAI 458
Cdd:PRK07374 388 DPVKNGLLFERFLNPERKSMPDIDTDFCIERRGEVIDYVTRRYGEDKVAQIITFNRMTSKAVLKDVARVLDIPYGEADRL 467
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 459 TKLIP-----PKPLTDGIKEVTLKyavdvvPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPL 532
Cdd:PRK07374 468 AKLIPvvrgkPAKLKAMIGKESPS------PEFREKYEkDPRVKKWVDMAMRIEGTNKTFGVHAAGVVIASDPLDELVPL 541
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 533 YKDSKtGKVATQFTMDLIENCGLVKMDFLGLKTLTLIKHTEDLIHKRGGEwrKFSIGDIDYSDAETFKMLSEGKAAAVFQ 612
Cdd:PRK07374 542 QRNND-GQVITQYFMEDIESLGLLKMDFLGLKNLTMIEKTLELVEQSTGE--RIDPDNLPLDDEKTFELLARGDLEGIFQ 618
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 613 FESQGMQNILKRAKPSKMEDLIALNALYRPGPMD--YINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQ 690
Cdd:PRK07374 619 LESSGMRQVVRDLKPSSLEDISSILALYRPGPLDagLIPKFINRKHGREAIDFAHPLLEPILTETYGIMVYQEQIMKIAQ 698
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 691 RIAGYSLGQADILRRAMGKKKIEVMKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLK 770
Cdd:PRK07374 699 DLAGYSLGQADLLRRAMGKKKVSEMQKHRGIFVEGASKRGVDEKVADELFDQMVLFAEYCFNKSHSTAYGAVTYQTAYLK 778
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 771 AHFPAEFMAANLTNEITSTDKLPEYIAEAEKMGLKILPPHVNLSDPYFSVSSDgNIIFGLLGIKGVGMQAAHELVEEREK 850
Cdd:PRK07374 779 AHYPVAYMAALLTVNAGSSDKVQRYISNCNSMGIEVMPPDINRSGIDFTPKGN-RILFGLSAVKNLGDGAIRNIIAARDS 857
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 851 NGRYKSFIDFLERNDLHTQNKRNLEVMIKTGCFDGLGQE--RSTLMVNMDGAVAYASQKKENESTGQGSLFE--GSGIKE 926
Cdd:PRK07374 858 DGPFKSLADLCDRLPSNVLNRRSLESLIHCGALDAFSPNanRAQLIADLDLVLDWASSRARDRASGQGNLFDllAGSEEE 937
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 927 FSDFVFE-----KIEEFPKKEKLRLEKELMGFYISGHPLDEYRKVIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQT 1001
Cdd:PRK07374 938 ASNDLSSapkaaPVPDYPPTEKLKLEKELLGFYLSDHPLKQLTEPAKLLAPISLSSLEEQPDKAKVSAIAMIPEMKQVTT 1017
|
1050 1060 1070 1080 1090 1100
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 41819556 1002 KKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAVLLPETVCGFAGSIDNSDgESHSFLVDEVLEIDKL 1068
Cdd:PRK07374 1018 RKGDRMAILQLEDLTGSCEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD-DRVQLIIDDCREIDDL 1083
|
|
| dnaE |
PRK06920 |
DNA polymerase III subunit alpha; |
5-1124 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 180749 [Multi-domain] Cd Length: 1107 Bit Score: 945.00 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPEsrfEKKETpg 84
Cdd:PRK06920 3 FVHLQCQTVFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIFSE---EEEKS-- 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 gkkyYHLILLAKNETGYRNLMVLCSKGYTEGmyyKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRKY 164
Cdd:PRK06920 78 ----YPLVLLAENEIGYQNLLKISSSIMTKS---KEGIPKKWLAHYAKGLIAISPGKDGEIEQLLLEDKESQAEEVARAY 150
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 165 REIFGaeNYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEGSE 244
Cdd:PRK06920 151 QNMFG--NFYMSLQHHAIQDELLLQEKLPEFSNRVNIPVVATNDVRYINQSDALVHECLLSVESGTKMTDPDRPRLKTDQ 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 245 FYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPeDFSSKEDYIRHLAEEGLKKRYPVITDEIKNRL 324
Cdd:PRK06920 229 YYLKSSDEMEALFSHVPEAIYNTVEIAERCRVEIPFHVNQLPKFPVP-SNETADMYLRRVCEEGLQKRYGTPKEVHINRL 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 325 NYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVSMPDFDVD 404
Cdd:PRK06920 308 NHELNVISRMGFSDYFLIVWDFMKYAHENHILTGPGRGSAAGSLVSYVLEITDIDPIEYDLLFERFLNPERVTLPDIDID 387
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 405 FCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPltdgikEVTLKYAVDVVP 484
Cdd:PRK06920 388 FPDTRRDEMIRYVKDKYGQLRVAQIVTFGTLAAKAAIRDIARVMGLPPRDIDIFSKLIPSKL------GITLKDAYEESQ 461
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 485 ELKEM-AEDSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLyKDSKTGKVATQFTMDLIENCGLVKMDFLGL 563
Cdd:PRK06920 462 SLREFiQGNLLHERVFEIAKRVEGLPRHTSIHAAGVIMSQEPLTGSVAI-QEGHNDVYVTQYPADALEELGLLKMDFLGL 540
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 564 KTLTLIKHTEDLIHKRGGewRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALNALYRPG 643
Cdd:PRK06920 541 RNLTLLENIIKFIEQKTG--KEIDIRNLPLQDEKTFQLLGRGDTTGVFQLESSGMRNVLRGLKPNEFEDIVAVNSLYRPG 618
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 644 PMDYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVMKTEKEKFI 723
Cdd:PRK06920 619 PMEQIPTFIESKHGKRKIEYLHPDLKPILERTYGVIVYQEQIMQIASKLAGFSLGEADLLRRAVSKKNRDILDQERKHFV 698
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 724 KGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPEYIAEAEKMG 803
Cdd:PRK06920 699 QGCLQNGYDETSAEKIYDLIVRFANYGFNRSHAVAYSMIGYQLAYLKANYTLEFMTALLSSAIGNEDKIVQYIRETKRKG 778
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 804 LKILPPHVNLSDPYFSVsSDGNIIFGLLGIKGVGMQAAHELVEEREKNgRYKSFIDFLERNDLHTQNKRNLEVMIKTGCF 883
Cdd:PRK06920 779 FHVLPPSLQRSGYNFQI-EGNAIRYSLLSIRNIGMATVTALYEEREKK-MFEDLFEFCLRMPSKFVTERNLEAFVWSGCF 856
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 884 DGLGQERSTLMVNMDGAVAYAsqkkenestgqgSLFEGSGiKEFSDFVFEKIEEFPKKEKLRLEKELMGFYISGHPLDEY 963
Cdd:PRK06920 857 DDFGVSRTNLWKSLKGALEYA------------NLARDLG-DAVPKSKYVQGEELSFIEQLNKEKEVLGFYLSSYPTAQY 923
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 964 RKVIDNSATLDISHlARATSKKRYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWeKHRAVLLPETVCGF 1043
Cdd:PRK06920 924 VKLAKELEIPSLAQ-AMRHKKKVQRAIVYITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPETY-IHFSDKLQEGAIVL 1001
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1044 AGSIDNSDGESHSFLVDE---VLEIDKLQQKALSEVHIELDENITSaKELTGLKDFLYERSGNCEVYIHVKDEDK----- 1115
Cdd:PRK06920 1002 VDGTIELRNHKLQWIVNGlypLEEMDAYEEKKDASVYVKLPSQYEK-KLLNQVTKILFDYSGFAKVLIYYEKEHKmvqls 1080
|
1130
....*....|
gi 41819556 1116 -AYIIKASPQ 1124
Cdd:PRK06920 1081 rSLSIHPSEE 1090
|
|
| PRK09532 |
PRK09532 |
DNA polymerase III subunit alpha; Reviewed |
5-749 |
0e+00 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 181933 [Multi-domain] Cd Length: 874 Bit Score: 701.11 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVApESRFEKKEtpg 84
Cdd:PRK09532 3 FVGLHIHSDYSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVI-NGDIEKQK--- 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 GKKYYHLILLAKNETGYRNLMVLCSKGYTEGM-----YYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEA 159
Cdd:PRK09532 79 RRRKYHQVVLAKNTQGYKNLVKLTTISHLQGVqgkgiFARPCINKELLEQYHEGLIVTSACLGGEIPQAILSGRPDAARK 158
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 160 HVRKYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQ 239
Cdd:PRK09532 159 VAKWYKKLFG-DDFYLEIQDHGSQEDRIVNVEIVKIARELGIKIIATNDSHFISCYDVEAHDALLCIQTGKLITEDKRLR 237
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 240 FEGSEfYFKSGEEMAQLFPEY------PEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKR- 312
Cdd:PRK09532 238 YSGTE-YLKSAEEMRLLFRDHlpddviAEAIANTLEVADKIEPYNILGEPRIPNYPVPSGHTP-DTYVEEVAWQGLLERl 315
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 313 ----YPVITDEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFE 388
Cdd:PRK09532 316 ncksRSEVEPVYKERLEYELKMLQQMGFSTYFLVVWDYIKYARDNNIPVGPGRGSAAGSLVAYCLKITNIDPVHHGLLFE 395
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 389 RFLNPERVSMPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIP----- 463
Cdd:PRK09532 396 RFLNPERKSMPDIDTDFCIERRDEMIKYVTEKYGEDRVAQIITFNRMTSKAVLKDVARVLDIPYGEADKMAKLIPvsrgk 475
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 464 PKPLTDGIKEVTLKyavdvvPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKtGKVA 542
Cdd:PRK09532 476 PTKLKVMISDETPE------PEFKEKYDnDPRVRRWLDMAIRIEGTNKTFGVHAAGVVISSEPLDEIVPLQKNND-GAVI 548
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 543 TQFTMDLIENCGLVKMDFLGLKTLTLIKHTEDLIHKRGG-----------------EWRKFSIGDIDYSDAETFKMLSEG 605
Cdd:PRK09532 549 TQYFMEDLESLGLLKMDFLGLRNLTTIQKTADLIKENRGveidldqlplderkalkILAKGEAKKLPKDVQKTHKLLERG 628
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 606 KAAAVFQFESQGMQNILKRAKPSKMEDLIALNALYRPGPMD--YINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQE 683
Cdd:PRK09532 629 DLEGIFQLESSGMKQIVRDLKPSNIEDISSILALYRPGPLDagLIPKFINRKHGREPIDYEHQLLEPILNETYGVLVYQE 708
|
730 740 750 760 770 780
....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 41819556 684 QVMQVAQRIAGYSLGQADILRRAMGKKKIEVMKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGY 749
Cdd:PRK09532 709 QIMKMAQDLAGYSLGEADLLRRAMGKKKISEMQKHREKFIDGAAKNGVSKKVAENLFDQMVKFAEY 774
|
|
| dnaE |
PRK07135 |
DNA polymerase III DnaE; Validated |
5-965 |
0e+00 |
|
DNA polymerase III DnaE; Validated
Pssm-ID: 235944 [Multi-domain] Cd Length: 973 Bit Score: 669.47 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVapesrfekketpg 84
Cdd:PRK07135 3 LINLHTNTEYSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDLEV------------- 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 gkKYYHLILLAKNETGYRNLMVLCSKgytegmyyKPRIDD-ELLAQYAEGLICLSACLAGelpvlLLNGEKEKAEAhvrk 163
Cdd:PRK07135 70 --ENFRFILLAKNYSGYKLLNELSSK--------KSKNKEiELNDLDSDNIIIIDHPKNG-----FYAKNKEQLEL---- 130
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 164 yreifgaENYFIelqdhglkeekkaSKLLIEMARKVGVPlvlTNDIHYVEQKDYVaqDILMCIGMKKlRTDTNRMQFEGS 243
Cdd:PRK07135 131 -------KNYYI-------------NSNDPKIENAVYVQ---ERKLLFAEDNEYL--KILNKIGNNK-EENSNFKFFDFE 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 244 EFYFKSGEEMaqlfpeypeaILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSKEDYIRHLAEEGLKKR-----YPvitd 318
Cdd:PRK07135 185 KWFEDIDEKI----------LKRTNYLVENINIEFPKKEFNLPDFDNNLGLESDLFLKKILKESVINKKaelkyYP---- 250
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 319 EIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVSM 398
Cdd:PRK07135 251 NVKERINYEYSVIKKLKFSNYFLIIWDFIKWARKNKISIGPGRGSASGSLVSYLLNITSVNPLKYDLLFERFLNPDRITM 330
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 399 PDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPP-KPLTDGIKEVTLK 477
Cdd:PRK07135 331 PDIDIDIQDDRRDEVIDYIFEKYGYEHCATISTFQTLGAKSAIRDVGRMLGIPESDVNAISKLIPNnQSLEEAYDKNKSF 410
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 478 YAvdvvpELKEMaEDSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKdSKTGKVATQFTMDLIENCGLVK 557
Cdd:PRK07135 411 FR-----ELISK-GDPIYKKLYKIAKKLEGLPRQSGTHAAGIIISNKPITNYVPTFE-SKDNYNQVQYSMEFLEDFGLLK 483
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 558 MDFLGLKTLTLIKHTEDLIHKRGGEWRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALN 637
Cdd:PRK07135 484 IDLLGLKNLTIIKNIEEKINKELLFDHLINFNDLPIIDKKTNNLLSNGKTEGIFQLESPGMKSTIKKVGIDSFEDIVAII 563
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 638 ALYRPGPMDYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVMKT 717
Cdd:PRK07135 564 SLYRPGPIQYIPIYAKNKKNPKNIEKIHPEYDEIVAPTYGIIIYQEQIMQIAQKVAGFSFAQADLLRRAISKKDETKLDK 643
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 718 EKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPEYIA 797
Cdd:PRK07135 644 IKDKFIEGGIKNGYSKKVLEKIYSLIEKFADYGFNKSHAVAYATLAYKMAYYKANYPLVFYSALISNSNGSQENIKKYVK 723
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 798 EAEKMGLKILPPHVNLSDPYfSVSSDGNIIFGLLGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNLEVM 877
Cdd:PRK07135 724 EAKNNGIKVYSPDINFSTEN-AVFDNGKIFLPLIMIKGLGSVAIKKIIDERNKNGKYKNFFDFILRLKFIGISKSIIEKL 802
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 878 IKTGCFDGLGQErSTLMVNMDGAVAYASQKKENESTGQGSLFEGSGIkeFSDFVFEKIeEFPKKEKLRLEKELMGFYISG 957
Cdd:PRK07135 803 IKANTLRSFGNQ-DTLLNNLELAKNYAETILSKVAKNLYDDYKNFGL--DLEFILEEI-ERDLEEESKNEIEYLGMSFNA 878
|
....*...
gi 41819556 958 HPLDEYRK 965
Cdd:PRK07135 879 FDTNKLEK 886
|
|
| dnaE |
PRK07279 |
DNA polymerase III DnaE; Reviewed |
5-1138 |
0e+00 |
|
DNA polymerase III DnaE; Reviewed
Pssm-ID: 180917 [Multi-domain] Cd Length: 1034 Bit Score: 619.36 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFyvapesRFEKKETPg 84
Cdd:PRK07279 2 FAQLDTKTVYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLEL------NIFVEEQE- 74
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 gkkyYHLILLAKNETGYRNLMvlcsKGYTEGMYYKPRIDDelLAQYAEGlICLSACLAGELPVLLLngekekaeahvrky 164
Cdd:PRK07279 75 ----VTLRLIAKNTQGYKNLL----KISTAKMSGKKQFSD--LSQYLEG-IAVIVPYFDWSETLEL-------------- 129
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 165 reifgAENYFIelqdhGLKEEKKASKLliemarkvGVPLVLTNDIHYVEQKDYVAQDILMCIgmkKLRTDTNRMQFEGSE 244
Cdd:PRK07279 130 -----PFDYYI-----GVDQETPGSDF--------KRPILPLRTVRYFESADRETLQMLHAI---RDNLSLREVPLVSSD 188
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 245 FYFKSGEEMAQLFPEY-PEAILNTVRIAEMC------NLEIPQPGPilpiykipeDFSSKEDyIRHLAEEGLKKRyPVIT 317
Cdd:PRK07279 189 QELISCQSLETLFQERfPQALDNLEKLVSGIsydfdtDLKLPRFNR---------DRPAVEE-LRELAELGLKEK-GLWS 257
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 318 DEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVS 397
Cdd:PRK07279 258 SPYQERLDKELSVIHDMGFDDYFLIVWDLLRFGRSQGYYMGMGRGSAAGSLVAYALDITGIDPVKHNLLFERFLNKERYS 337
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 398 MPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKPLTDGIKEVTLK 477
Cdd:PRK07279 338 MPDIDIDLPDIYRSEFLRYVRNRYGSDHSAQIVTFSTFGAKQAIRDVFKRFGVPEYELSNLTKKISFRDSLASVYEKNIS 417
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 478 YAVDVVPELKemaedsqYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLykdsKTGK--VATQFTMDLIENCGL 555
Cdd:PRK07279 418 FRQIINSKLE-------YQKAFEIAKRIEGNPRQTSIHAAGVVMSDDDLTNHIPL----KYGDdmMITQYDAHAVEANGL 486
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 556 VKMDFLGLKTLTLIKHTEDLIHKRGGewRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIA 635
Cdd:PRK07279 487 LKMDFLGLRNLTFVQKMQEKVAKDYG--IHIDIEAIDLEDKETLALFAAGDTKGIFQFEQPGAINLLKRIKPVCFEDIVA 564
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 636 LNALYRPGPMDYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVM 715
Cdd:PRK07279 565 TTSLNRPGASDYTDNFVKRRHGQEKVDLIDPVIAPILEPTYGIMLYQEQVMQIAQVFAGFSLGKADLLRRAMSKKNASEM 644
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 716 KTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMaanltnEITSTDKLPEY 795
Cdd:PRK07279 645 QKMEEDFLQGALELGHSEEKARELFDRMEKFAGYGFNRSHAFAYSALAFQLAYFKAHYPAVFY------DIMLNYSSSDY 718
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 796 IAEAEKMGLKILPPHVNlSDPYFSVSSDGNIIFGLLGIKGVGMQAAHELVEEREkngrYKSFIDFLERNDLHTQNKRNLE 875
Cdd:PRK07279 719 ITDALEFGFEVAKLSIN-TIPYHDKIENKKIYLGLKNIKGLPRDLAYWIIENRP----FSSIEDFLTRLPENYQKKEFLE 793
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 876 VMIKTGCFDGLGQERSTLMVNMDGAVAYAsqkkeNEstgQGSLFEGSGikefsdFVFEKIEEFPKKEKLRLEKELMGFYI 955
Cdd:PRK07279 794 PLIKIGLFDSFEKNRQKIINNLDNLFVFV-----NE---LGSLFADSS------YSWVEAEDYSETEKYSLEQELLGVGV 859
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 956 SGHPLDEyrkvIDNSATLDISHLARATSKKRYVLVGMLTGVRQHQTK-KGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAV 1034
Cdd:PRK07279 860 SKHPLQA----IAEKSSRPFTPISQLVKNSEATILVQIQSIRVIRTKtKGQQMAFLSVTDTKKKLDVTLFPETYRQYKDE 935
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1035 LLPETVCGFAGSIDNSDGESHSFLvDEVleidklqQKALSEVHIELDENITSAKELTglkDFLYERSGNCEVYIHVKDED 1114
Cdd:PRK07279 936 LKEGKFYYLKGKIQERDGRLQMVL-QQI-------QEASSERFWILLENHEHDQEIS---EILGAFPGSIPVIIHYQEEK 1004
|
1130 1140
....*....|....*....|....
gi 41819556 1115 KAYiikASPQIRIPSTPEFIEELN 1138
Cdd:PRK07279 1005 ETI---QSTHIFVAKSEELEEKLS 1025
|
|
| dnaE2 |
PRK05672 |
error-prone DNA polymerase; Validated |
1-1064 |
0e+00 |
|
error-prone DNA polymerase; Validated
Pssm-ID: 235553 [Multi-domain] Cd Length: 1046 Bit Score: 579.12 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1 MAVDFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESrfekk 80
Cdd:PRK05672 1 MLPPYAELHCHSNFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLGPDP----- 75
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 81 eTPGGKkyyHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRID-DELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEA 159
Cdd:PRK05672 76 -DPGGP---HLLVLARDREGYGRLSRLITRARLRAGKGEYRLDlDDLAEPAGGHWAILTGCRKGFVILALPYGGDAAALA 151
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 160 HVRKYREIFGAENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIgmkKLRTDTNRMQ 239
Cdd:PRK05672 152 ALAALLDAFFADRVWLELTLHGRPDDDRRNARLAALAARAGVPLVATGDVHMHHRSRRRLQDAMTAI---RARRSLAEAG 228
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 240 ---FEGSEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSkEDYIRHLAEEGLKKRYPV- 315
Cdd:PRK05672 229 gwlAPNGERHLRSGAEMARLFPDYPEALAETVELAERCAFDLDLLAYEYPDEPVPAGHTP-ASWLRQLTEAGAARRYGPg 307
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 316 ITDEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVpVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPER 395
Cdd:PRK05672 308 IPPKARAQIEHELALIAELGYEGYFLTVHDIVRFARSQGI-LCQGRGSAANSAVCYALGITEVDPVQSGLLFERFLSPER 386
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 396 VSMPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLI----PPKPLTDGI 471
Cdd:PRK05672 387 DEPPDIDVDFEHDRREEVIQYVYRRYGRDRAAQVANVITYRPRSAVRDVAKALGLSPGQVDAWAKQVsrwsGSADDLQRL 466
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 472 KEVTLKYAVDVVPELKEMAEDsqykelfeisiaLEGRNRNSSLHAAGIVIGKTALTDYVPLYKDSKTGKVATQFTMDLIE 551
Cdd:PRK05672 467 RQAGLDPESPIPRRVVELAAQ------------LIGFPRHLSQHSGGFVICDRPLARLVPVENAAMEGRSVIQWDKDDCA 534
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 552 NCGLVKMDFLGLKTLTLIKHTEDLIHKRGGewRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKME 631
Cdd:PRK05672 535 AVGLVKVDVLALGMLSALHRAFDLIAEHRG--RRLTLASIPLDDPAVYDMLCRADSVGVFQVESRAQMAMLPRLRPRTFY 612
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 632 DLIALNALYRPGPM--DYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMG- 708
Cdd:PRK05672 613 DLVVEVAIVRPGPIqgGMVHPYLRRRNGQEPVTYPHPELEKVLERTLGVPLFQEQVMQIAIDAAGFTPGEADQLRRAMAa 692
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 709 KKKIEVMKTEKEKFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAAnLTNE--- 785
Cdd:PRK05672 693 WRRKGRLERLRERLYDGMLARGYTGEFADRIFEQIKGFGEYGFPESHAASFAKLVYASSWLKCHHPAAFCAA-LLNSqpm 771
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 786 -ITSTDKLpeyIAEAEKMGLKILPPHVNLSDPYFSVSSDGN----IIFGLLGIKGVGMQAAHELVEEREkNGRYKSFIDF 860
Cdd:PRK05672 772 gFYSPQQL---VQDARRHGVEVLPVDVNASGWDATLEPLPDggpaVRLGLRLVRGLGEEAAERIVAARA-RGPFTSVEDL 847
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 861 LERNDLhtqNKRNLEVMIKTGCFDGLGQERSTLMVNMdGAVAyasqkkenesTGQGSLFEGSGIKEfsdfvfekieefpk 940
Cdd:PRK05672 848 ARRAGL---DRRQLEALADAGALRSLGGDRRQALWAA-GAAA----------TERLDLLPGAPASE-------------- 899
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 941 kEKLRL----EKELM-------GFYISGHPLDEYRKVIDNSATLDISHLARATSKKRyVLVGMLTGVRQH-QTKKGAMmg 1008
Cdd:PRK05672 900 -AAPALpgmsEGELVaadywttGLSLDSHPLALLRPRLDARGVVSAAELLDVEDGRR-VRVAGVVTHRQRpGTASGVT-- 975
|
1050 1060 1070 1080 1090
....*....|....*....|....*....|....*....|....*....|....*.
gi 41819556 1009 FGTFEDLNGTLDLVFFPKTWEKHRAVLLPETVCGFAGSIDNSDGESHsfLVDEVLE 1064
Cdd:PRK05672 976 FLTLEDETGMVNVVVWPGLWERQRREALGARLLLVRGRVQNAEGVRH--LVADRLE 1029
|
|
| dnaE |
PRK05898 |
DNA polymerase III subunit alpha; |
5-1004 |
0e+00 |
|
DNA polymerase III subunit alpha;
Pssm-ID: 135648 [Multi-domain] Cd Length: 971 Bit Score: 571.79 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFyvapESRFEKketpg 84
Cdd:PRK05898 2 FINLNTHSHYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGLEI----EYQSTN----- 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 gkkyYHLILLAKNETGYRNLMVLCSKGYTEgmyykpriDDELLAQYAEGLICLsaCLAGELPVlllngekekaeAHVRKY 164
Cdd:PRK05898 73 ----ATLVLYAKNYNGYLNLIKISSFIMTN--------KEFEIQDYLDDLFIV--CKKGTFVF-----------KSPNFY 127
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 165 REIFGAENYFIELQDHGLKEEKKASKLLIEMARKvgvplvltNDIHYVEQKDyvAQDIlmcigmkklrtdtnrmqfegSE 244
Cdd:PRK05898 128 QTHNQNAPNAIAFNSVFYANKNDKIVFNAMLAIK--------NDLKIDELKN--CQDF--------------------DN 177
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 245 FYFKSGEEMAQLFPeyPEAILNTVRIAEMCNLEIPQPGPILPIYKIPEDFSSKEdYIRHLAEEGLKKRYPVITDEIKN-- 322
Cdd:PRK05898 178 NHFLNDNEAQSLFS--PIQLDNLNKVLNELKVEIHDLPINIIKYDKQNSIISSE-ILKQLCISGLNKRLNANDGQVKKiy 254
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 323 --RLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITDIDPLKYNLLFERFLNPERVSMPD 400
Cdd:PRK05898 255 vkRLKYELDIINEKQFDDYFLIVYDFINFAKSNGIIIGPGRGSAAGSLIAYLLHITDIDPIKYNLIFERFLNPTRKSMPD 334
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 401 FDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNAITKLIPPKpltdgiKEVTLKYAV 480
Cdd:PRK05898 335 IDTDIMDERRDEVVEYLFEKYGNDHVAHIITFQRIKAKMAIRDVGRILGIDLKVIDKICKNIKPD------YEEDLDLAI 408
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 481 DVVPELKEMAEdsQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLyKDSKTGKVATQFTMDLIENCGLVKMDF 560
Cdd:PRK05898 409 KKNTILKEMYV--LHKELFDLAKKIINAPRQIGTHAAGVVLSNSLLTNIIPI-QLGINDRPLSQYSMEYLERFGLIKMDL 485
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 561 LGLKTLTLIKHTEDLIHKRGGewRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALNALY 640
Cdd:PRK05898 486 LGLKNLTIIDNVLKLIKENQN--KKIDLFNINLNDKNVFEDLAKGRTNGIFQLESPGMKKVLKKVKPQNIEDISIVSALF 563
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 641 RPGPMDYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVMKTEKE 720
Cdd:PRK05898 564 RPGPQQNIKTFVERRFKREEFSYWNEATKKILEPTHGIIVYQEQVINLVKTIANFDIATADNFRRAISKKDEKILIQLKK 643
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 721 KFIKGAQEKGFSREDADRIFEILIPFAGYGFNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPEYIAEAE 800
Cdd:PRK05898 644 DFIEGALKNNYKQPLVNQIFEYIFSFADYGFNHSHSLAYSYISYWMAYLKHYYPLEFLSILLSHTSASKDKLLSYLNEAK 723
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 801 KMGLKILPPHVNLSDPYFSVSSDGNII-FGLLGIKGVGMQAAHELVEEReKNGRYKSFIDFLERNDLHTQNKRNLEVMIK 879
Cdd:PRK05898 724 EFNISIKKPDINYSSNSFVLDTQKQIIrFGFNTIKGFGDELLKKIKSAL-QNKTFSDFISYIDALKKNNVSLSNIEILIN 802
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 880 TGCFDGLGQERSTLMVNMDGAVayasqkkenESTGQGSLFegsgiKEFSDFVFEKIEEFPKKEK-LRLEKELMGFYISGH 958
Cdd:PRK05898 803 VGTFDSFKLSRLFLLNNLPEIF---------EKTSLNGHF-----FELNLVGLEYAKDMSVKERfLKKEIQYLGIDLNSL 868
|
970 980 990 1000 1010
....*....|....*....|....*....|....*....|....*....|
gi 41819556 959 PLDEYRKVIDNSATL----DISHLARATSKKRYVLVGMLTGVRQHQTKKG 1004
Cdd:PRK05898 869 NYANYKNEIDYNELKytikDIKEIELKNTNYETNIFAQVYEIKQSKTKNG 918
|
|
| PHP_PolIIIA_DnaE3 |
cd12113 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-286 |
0e+00 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, the PolIIIA PHP exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such an activity has not been found. It has been shown that the PHP of PolIIIA has a trinuclear metal complex and is capable of proofreading activity. Bacterial genome replication and DNA repair mechanisms is related to the GC content of its genomes. There is a correlation between GC content variations and the dimeric combinations of PolIIIA subunits. Eubacteria can be grouped into different GC variable groups: the full-spectrum or dnaE1 group, the high-GC or dnaE2-dnaE1 group, and the low GC or polC-dnaE3 group.
Pssm-ID: 213997 [Multi-domain] Cd Length: 283 Bit Score: 532.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 4 DFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRFEKKETP 83
Cdd:cd12113 1 DFVHLHVHTEYSLLDGAIRIKDLVKRAKELGMPALAITDHGNMFGAIEFYKAAKKAGIKPIIGCEVYVAPGSRFDKKDKK 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 84 GGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRK 163
Cdd:cd12113 81 GDKRYYHLVLLAKNEEGYRNLMKLVSLAYLEGFYYKPRIDKELLAKYSEGLIALSACLAGEIPQLLLNGDEEEAREAALE 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 164 YREIFGAENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEGS 243
Cdd:cd12113 161 YRDIFGKDNFYLELQDHGLPEQKKVNEGLIELAKELGIPLVATNDVHYLNKEDAEAHDVLLCIQTGKTLDDPNRMRFDTD 240
|
250 260 270 280
....*....|....*....|....*....|....*....|...
gi 41819556 244 EFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILP 286
Cdd:cd12113 241 EFYLKSPEEMRELFPDVPEALENTLEIAERCNVELDFGKLHLP 283
|
|
| DNA_pol3_alpha |
pfam07733 |
Bacterial DNA polymerase III alpha NTPase domain; |
299-562 |
2.38e-130 |
|
Bacterial DNA polymerase III alpha NTPase domain;
Pssm-ID: 400196 [Multi-domain] Cd Length: 259 Bit Score: 397.64 E-value: 2.38e-130
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 299 DYIRHLAEEGLKKRYP-VITDEIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPGRGSGAGSILAYSLRITD 377
Cdd:pfam07733 1 EYLRKLVEEGLKERYGeGLPEEYQERLEYELNVIIKMGFAGYFLIVWDLVKWAKDNGILVGPGRGSAAGSLVAYLLGITE 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 378 IDPLKYNLLFERFLNPERVSMPDFDVDFCFERRQEVIEYVRQKYGDENVGQIITFGTLKPKAVVKDVGRVLNIPLADVNA 457
Cdd:pfam07733 81 VDPLKHDLLFERFLNPERVSMPDIDIDFEDERREEVIDYVKEKYGRDRVAQIATFGTYAAKSAIRDVGRALGLPYDEIDR 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 458 ITKLIPPKPltdgikeVTLKYAVDVVPELKEMAE-DSQYKELFEISIALEGRNRNSSLHAAGIVIGKTALTDYVPLYKDS 536
Cdd:pfam07733 161 LAKLIPFEL-------GILEKALEEEPELKELIEsDPEVKRLIELAKKLEGLPRHTGQHAGGVVISPDPLTDFVPLYKAD 233
|
250 260
....*....|....*....|....*.
gi 41819556 537 KTGKVATQFTMDLIENCGLVKMDFLG 562
Cdd:pfam07733 234 DDDRPVTQFDKDDLEDLGLLKMDFLG 259
|
|
| PHP_PolIIIA_DnaE1 |
cd07433 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III ... |
4-288 |
2.50e-102 |
|
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: 324.05 E-value: 2.50e-102
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 4 DFVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRfekketp 83
Cdd:cd07433 1 SFVHLRVHSEYSLLDGAVRIKKLVKLAKEDGMPALAITDLSNLFGAVKFYKAASKAGIKPIIGADLNVANPDD------- 73
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 84 gGKKYYHLILLAKNETGYRNLMVLCSKGYTEGMY-YKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVR 162
Cdd:cd07433 74 -ADEPFRLTLLAQNEQGYKNLTELISRAYLEGQRnGGPHIKLEWLAEYSEGLIALSGGRDGDIGQLLLEGNPDLAEALLQ 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 163 KYREIFGaENYFIELQDHGLKEEKKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQFEG 242
Cdd:cd07433 153 FLKKIFP-DRFYLELQRHGRPEEEAYEHALIDLAYELGLPLVATNDVRFLKPEDFEAHEARVCIAEGRTLDDPRRPRRYS 231
|
250 260 270 280
....*....|....*....|....*....|....*....|....*.
gi 41819556 243 SEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCNLEIPQPGPILPIY 288
Cdd:cd07433 232 PQQYFKSAEEMAELFADLPEAIENTVEIAKRCNVRIELGKPFLPDF 277
|
|
| PRK07373 |
PRK07373 |
DNA polymerase III subunit alpha; Reviewed |
751-1138 |
9.13e-76 |
|
DNA polymerase III subunit alpha; Reviewed
Pssm-ID: 236003 [Multi-domain] Cd Length: 449 Bit Score: 257.68 E-value: 9.13e-76
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 751 FNKSHAAAYSVLAFQTAYLKAHFPAEFMAANLTNEITSTDKLPEYIAEAEKMGLKILPPHVNLSDPYFSvSSDGNIIFGL 830
Cdd:PRK07373 38 FNKSHSTAYAYVTYQTAYLKANYPVEYMAALLTANSGNQDKVQKYRENCQKMGIEVEPPDINRSGKDFT-PVGEKILFGL 116
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 831 LGIKGVGMQAAHELVEEREKNGRYKSFIDFLERNDLHTQNKRNLEVMIKTGCFDGLGQERSTLMVNMDGAVAYASQKKEN 910
Cdd:PRK07373 117 SAVRNLGEGAIESILKAREEGGEFKSLADFCDRVDLRVVNRRALETLIYCGAFDKIEPNRQQLINDLELVIDWAQKRAKE 196
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 911 ESTGQGSLFE----GSGIKEFSDFVFE------KIEEFPKKEKLRLEKELMGFYISGHPLDEYRKVIDNSATLDISHLAR 980
Cdd:PRK07373 197 KASGQGNLFDllggNTSNSSAANNAFEqapsapPVADFSLQEKLKLEKELLGFYVSEHPLKSIRRPARLLSPINLSELEE 276
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 981 ATSKKRYVLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAVLLPETVCGFAGSIDNSDgESHSFLVD 1060
Cdd:PRK07373 277 QKEKTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPKSYERISELLQVDARLIIWGKVDRRD-DQVQLIVE 355
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 1061 EVLEIDKLQQkalseVHIELD-ENITSAKELTGLKDFLYERSGNCE-----VYIHVKDEDKAYIIKASPQIRIPSTPEFI 1134
Cdd:PRK07373 356 DAEPIEEVRM-----VMVELSpQQAGNIVSQHRLKEILQEQAGDKNkakvpVIAIIQSGGNRQLVRLGQQYWVQDEHSAV 430
|
....
gi 41819556 1135 EELN 1138
Cdd:PRK07373 431 QALQ 434
|
|
| DNA_pol3_finger |
pfam17657 |
Bacterial DNA polymerase III alpha subunit finger domain; |
565-730 |
2.93e-73 |
|
Bacterial DNA polymerase III alpha subunit finger domain;
Pssm-ID: 407553 [Multi-domain] Cd Length: 166 Bit Score: 240.13 E-value: 2.93e-73
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 565 TLTLIKHTEDLIHKRGGewRKFSIGDIDYSDAETFKMLSEGKAAAVFQFESQGMQNILKRAKPSKMEDLIALNALYRPGP 644
Cdd:pfam17657 1 TLTIIRDALDLIKENRG--IGIDLATIPLDDPKTYKLLSSGDTLGVFQFESRGMRQMLKRLKPDTFEDLVALSALYRPGP 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 645 M--DYINQFIESKFDNSKIKYPDPCLEDILSETYGVIVYQEQVMQVAQRIAGYSLGQADILRRAMGKKKIEVMKTEKEKF 722
Cdd:pfam17657 79 MqgGNVDDYIKRKHGKEKIEYPHPDLEPILKETYGVIVYQEQVMQIAQILAGFSLGEADLLRRAMGKKKPEEMEKLREKF 158
|
....*...
gi 41819556 723 IKGAQEKG 730
Cdd:pfam17657 159 IEGAKENG 166
|
|
| PHP |
pfam02811 |
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative ... |
7-180 |
1.20e-71 |
|
PHP domain; The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain.
Pssm-ID: 460705 [Multi-domain] Cd Length: 171 Bit Score: 235.90 E-value: 1.20e-71
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 7 HLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRFEKKETPggK 86
Cdd:pfam02811 1 HLHVHSEYSLLDGAARIEELVKRAKELGMPAIAITDHGNLFGAVEFYKAAKKAGIKPIIGCEVYVAPGSREETEKLL--A 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 87 KYYHLILLAKNETGYRNLMVLCSKGYTEGmyYKPRIDDELLAQYAEGLICLSACLAGELPVLLLN-GEKEKAEAHVRKYR 165
Cdd:pfam02811 79 KYFDLVLLAVHEVGYKNLIKLSSRAYLEG--FKPRIDKELLEEYFEGLIALSGCVLGHLDLILLApGDYEEAEELAEEYL 156
|
170
....*....|....*
gi 41819556 166 EIFGAENYFIELQDH 180
Cdd:pfam02811 157 EIFGEDGFYLEINTH 171
|
|
| PHP_PolIIIA |
cd07431 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; ... |
6-278 |
1.09e-48 |
|
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; PolIIIAs that contain an N-terminal PHP domain have been classified into four basic groups based on genome composition, phylogenetic, and domain structural analysis: polC, dnaE1, dnaE2, and dnaE3. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. DNA polymerase III holoenzyme is one of the five eubacterial DNA polymerases that is responsible for the replication of the DNA duplex. The alpha subunit of DNA polymerase III core enzyme catalyzes the reaction for polymerizing both DNA strands. The PolIIIA PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination, and like other PHP structures, exhibits a distorted (beta/alpha) 7 barrel and coordinates up to 3 metals. Initially, it was proposed that PHP region might be involved in pyrophosphate hydrolysis, but such activity has not been found. It has been shown that the PHP domain of PolIIIA has a trinuclear metal complex and is capable of proofreading activity.
Pssm-ID: 213986 [Multi-domain] Cd Length: 179 Bit Score: 170.85 E-value: 1.09e-48
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 6 VHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVApesrfekketpGG 85
Cdd:cd07431 1 AHLHVHSSYSLLDSAIRPEDLVARAKELGYSALALTDRNVLYGAVRFYKACKKAGIKPIIGLELTVE-----------GD 69
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 86 KKYYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRI--DDELLAQYAEGLICLSAClagelpvlllngekekaeahvrk 163
Cdd:cd07431 70 GEPYPLLLLAKNNEGYQNLLRLSTAAMLGEEKDGVPYldLEELAEAASGLLVVLLGP----------------------- 126
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 164 yreifgaenyfielqdhglkeekkaskLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCigmkklrtdtnrmqfegs 243
Cdd:cd07431 127 ---------------------------LLLLLAAEQGLPLVATNDVHYLNPEDAFAADVLTA------------------ 161
|
250 260 270
....*....|....*....|....*....|....*
gi 41819556 244 efyfksgeemaqlfpeyPEAILNTVRIAEMCNLEI 278
Cdd:cd07431 162 -----------------FLAVANTVRIAKECAVEL 179
|
|
| PHP_PolIIIA_POLC |
cd07435 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
6-274 |
1.42e-44 |
|
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: 162.64 E-value: 1.42e-44
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 6 VHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPEsrfekketpgg 85
Cdd:cd07435 2 VELHAHTKMSAMDGVTSVKELVKRAAEWGHKAIAITDHGVVQAFPEAYEAAKKNGIKVIYGVEAYLVDP----------- 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 86 kkyYHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRK-- 163
Cdd:cd07435 71 ---YHITILVKNQTGLKNLYKLVSLSHTKYFYRVPRIPKSELEKYREGLLIGSACENGELFEAALNKKSDEELEEIASfy 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 164 -YREIFGAENYFIELQDHGLKEE---KKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILM-CIGMKklrtdtNRM 238
Cdd:cd07435 148 dYIEIQPLDNYQFLIEKGLIKSEeelKEINKRIIKLGKKLNKPVVATGDVHYLDPEDKIYREILLaGQGGG------DGR 221
|
250 260 270 280
....*....|....*....|....*....|....*....|..
gi 41819556 239 QFEGSEFYFKSGEEMAQLFPEYPEA------ILNTVRIAEMC 274
Cdd:cd07435 222 ADEQPDLYFRTTDEMLDEFSYLGEEkayevvVTNTNKIADMI 263
|
|
| PHP_PolIIIA_DnaE2 |
cd07434 |
Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at ... |
5-275 |
1.07e-28 |
|
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: 116.40 E-value: 1.07e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 5 FVHLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAPESRfekketpg 84
Cdd:cd07434 1 YAELHCLSNFSFLRGASHPEELVARAAELGYRALAITDECSLAGVVRAHAAAKELGLKLIVGSELVLADGTR-------- 72
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 85 gkkyyhLILLAKNETGYRNLMVLCSKGYTE---GMYykpRIDDELLAQYAEGLICLsaclageLPVLLLNGEKEKAEAHV 161
Cdd:cd07434 73 ------LVLLARDRAGYGRLCRLITLGRRRaekGEY---RLTLADLLAHAEGLLLI-------LLPPDRLPAAAALLAQL 136
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 162 RKYREIFGAENYF-IELQDHGLKEEKKAskLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCIGMKKLRTDTNRMQF 240
Cdd:cd07434 137 RWLARAFPGRLWLaLELHLGGDDARRLA--RLAALAAALGLPLVATGDVLMHSPSRRPLQDVLTAIRLGTTVAEAGRRLA 214
|
250 260 270
....*....|....*....|....*....|....*
gi 41819556 241 EGSEFYFKSGEEMAQLFPEYPEAILNTVRIAEMCN 275
Cdd:cd07434 215 ANAERHLRSPAELARLFLYPPEALAETLEIAARCT 249
|
|
| HHH_6 |
pfam14579 |
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain. |
803-893 |
6.81e-28 |
|
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
Pssm-ID: 434050 [Multi-domain] Cd Length: 88 Bit Score: 107.94 E-value: 6.81e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 803 GLKILPPHVNLSDPYFSVSsDGNIIFGLLGIKGVGMQAAHELVEEREkNGRYKSFIDFLERNDLhTQNKRNLEVMIKTGC 882
Cdd:pfam14579 1 GIEVLPPDINRSDWDFTVE-GGGIRLGLGAIKGLGEAAAERIVEERE-NGPFKSLEDFARRVDL-KLNKRVLEALIKAGA 77
|
90
....*....|.
gi 41819556 883 FDGLGQERSTL 893
Cdd:pfam14579 78 FDSLGGNRRQL 88
|
|
| POLIIIAc |
smart00481 |
DNA polymerase alpha chain like domain; DNA polymerase alpha chain like domain, incl. family ... |
7-73 |
1.88e-27 |
|
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: 106.20 E-value: 1.88e-27
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 41819556 7 HLHVHSDFSLLDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEFYVAP 73
Cdd:smart00481 1 DLHVHSDYSLLDGALSPEELVKRAKELGLKAIAITDHGNLFGAVEFYKAAKKAGIKPIIGLEANIVD 67
|
|
| polC |
PRK00448 |
DNA polymerase III PolC; Validated |
89-381 |
3.58e-27 |
|
DNA polymerase III PolC; Validated
Pssm-ID: 234767 [Multi-domain] Cd Length: 1437 Bit Score: 120.33 E-value: 3.58e-27
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 89 YHLILLAKNETGYRNLMVLCSKGYTEGMYYKPRIDDELLAQYAEGLICLSACLAGELPVLLLNGEKEKAEAHVRKYR--E 166
Cdd:PRK00448 611 KHATILVKNQVGLKNLFKLVSLSNTKYFYRVPRIPRSLLDKYREGLLIGSACEEGEVFDAVLQKGDEELEEIAKFYDyiE 690
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 167 IFGAENYFIELQDHGLKEE---KKASKLLIEMARKVGVPLVLTNDIHYVEQKDYVAQDILMCigMKKLRTDTNRMQFegS 243
Cdd:PRK00448 691 IQPPANYQHLIERELVKDEeelKEIIKNLIELGKKLNKPVVATGDVHYLDPEDKIYRKILVA--SQGGGNPLNRHPL--P 766
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 244 EFYFKSGEEMAQLFpEYPEA-------ILNTVRIAEMCnlEIPQPgpilpiykIPED-----FSSKEDYIRHLAEEGLKK 311
Cdd:PRK00448 767 ELHFRTTDEMLDEF-AFLGEelakeivVENTNKIADLI--EEIEP--------IKDKlytpkIEGAEEEIRELTYKKAHE 835
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 41819556 312 RY----PVItdeIKNRLNYELDIVIKMDFVGYFLIVWDFINWAKNNGVPVGPgRGSGAGSILAYSLRITDIDPL 381
Cdd:PRK00448 836 IYgeplPEI---VEKRIEKELNSIIGNGFAVIYLISQKLVKKSLEDGYLVGS-RGSVGSSFVATMIGITEVNPL 905
|
|
| DnaE_OBF |
cd04485 |
DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding ... |
988-1071 |
3.80e-18 |
|
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: 80.25 E-value: 3.80e-18
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 41819556 988 VLVGMLTGVRQHQTKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAVLLPETVCGFAGSIDNSDGESHsFLVDEVLEIDK 1067
Cdd:cd04485 1 TVAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPETYEKYRDLLKEDALLLVEGKVERRDGGLR-LIAERIEDLED 79
|
....
gi 41819556 1068 LQQK 1071
Cdd:cd04485 80 ARER 83
|
|
| PHP |
cd07309 |
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2 ... |
6-72 |
6.69e-11 |
|
Polymerase and Histidinol Phosphatase domain; The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. PHP in polymerases has trinuclear zinc/magnesium dependent proofreading activity. It has also been shown that the PHP domain functions in DNA repair. The PHP structures have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213985 [Multi-domain] Cd Length: 88 Bit Score: 59.75 E-value: 6.69e-11
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 41819556 6 VHLHVHSDFSLLDgAASVKALAAKAEKLGQTALALTDHGNMFGAINF--------YNACKEKNIKPIIGCEFYVA 72
Cdd:cd07309 1 VDLHTHTVFSDGD-HAKLTELVDKAKELGPDALAITDHGNLRGLAEFntagk*nhIKAAEAAGIKIIIGSEVNLT 74
|
|
| YciV |
COG0613 |
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and ... |
1-69 |
4.39e-10 |
|
5'-3' exoribonuclease TrpH/YciV (RNase AM), contains PHP domain [Nucleotide transport and metabolism];
Pssm-ID: 440378 [Multi-domain] Cd Length: 188 Bit Score: 60.31 E-value: 4.39e-10
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 41819556 1 MAVDfvhLHVHSDFSllDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEF 69
Cdd:COG0613 2 MKID---LHVHTTAS--DGSLSPEELVARAKAAGLDVLAITDHDTVAGYEEAAEAAKELGLLVIPGVEI 65
|
|
| PHP_HisPPase |
cd07432 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase ... |
8-69 |
9.75e-09 |
|
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase; HisPPase catalyzes the eighth step of histidine biosynthesis, in which L-histidinol phosphate undergoes dephosphorylation to produce histidinol. HisPPase can be classified into two types: the bifunctional HisPPase found in proteobacteria that belongs to the DDDD superfamily and the monofunctional Bacillus subtilis type that is a member of the PHP family. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. The PHP domain of HisPPase is structurally homologous to other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213987 [Multi-domain] Cd Length: 129 Bit Score: 54.94 E-value: 9.75e-09
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 41819556 8 LHVHSDFSLlDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEF 69
Cdd:cd07432 3 LHIHSVFSP-DSDMTPEEIVERAIELGLDGIAITDHNTIDGAEEALKEAYKDGLLVIPGVEV 63
|
|
| PHP_HisPPase_AMP |
cd07438 |
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) ... |
8-69 |
1.27e-08 |
|
Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; The PHP domain of this HisPPase family has an unknown function. It has a second domain inserted in the middle that binds adenosine 5-monophosphate (AMP). The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. HisPPase catalyzes the eighth step of histidine biosynthesis, in which L-histidinol phosphate undergoes dephosphorylation to give histidinol. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. The PHP domain of HisPPase is structurally homologous to the other members of the PHP family that have a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213993 [Multi-domain] Cd Length: 155 Bit Score: 55.09 E-value: 1.27e-08
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 41819556 8 LHVHSDFSllDGAASVKALAAKAEKLGQTALALTDHGNMFGAINFYNACKEKNIKPIIGCEF 69
Cdd:cd07438 3 LHTHSTAS--DGTLSPEELVELAKEAGLKVLAITDHDTVAGLEEALAAAKELGIELIPGVEI 62
|
|
| tRNA_anti-codon |
pfam01336 |
OB-fold nucleic acid binding domain; This family contains OB-fold domains that bind to nucleic ... |
987-1065 |
4.95e-06 |
|
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: 45.30 E-value: 4.95e-06
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 41819556 987 YVLVGMLTGVRqhqtKKGAMMGFGTFEDLNGTLDLVFFPKTWEKHRAVLLPETVCGFAGSIDNSDGESHSFLVDEVLEI 1065
Cdd:pfam01336 1 VTVAGRVTSIR----RSGGKLLFLTLRDGTGSIQVVVFKEEAEKLAKKLKEGDVVRVTGKVKKRKGGELELVVEEIELL 75
|
|
| HIS2 |
COG1387 |
Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and ... |
8-44 |
1.59e-05 |
|
Histidinol phosphatase or related hydrolase of the PHP family [Amino acid transport and metabolism, General function prediction only]; Histidinol phosphatase or related hydrolase of the PHP family is part of the Pathway/BioSystem: Histidine biosynthesis
Pssm-ID: 440997 [Multi-domain] Cd Length: 232 Bit Score: 47.46 E-value: 1.59e-05
10 20 30
....*....|....*....|....*....|....*..
gi 41819556 8 LHVHSDFSllDGAASVKALAAKAEKLGQTALALTDHG 44
Cdd:COG1387 5 LHTHTTYS--DGEGTIEEMVEAAIELGLEYIAITDHS 39
|
|
| PHP_PolX |
cd07436 |
Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; The bacterial/archaeal ... |
8-43 |
3.53e-05 |
|
Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; The bacterial/archaeal X-family DNA polymerases (PolXs) have a PHP domain at their C-terminus. The bacterial/archaeal PolX core domain and PHP domain interact with each other and together are involved in metal dependent 3'-5' exonuclease activity. The PHP (also called histidinol phosphatase-2/HIS2) domain is associated with several types of DNA polymerases, such as PolIIIA and family X DNA polymerases, stand alone histidinol phosphate phosphatases (HisPPases), and a number of uncharacterized protein families. The PHP domain has four conserved sequence motifs and contains an invariant histidine that is involved in metal ion coordination. PolX is found in all kingdoms, however bacterial PolXs have a completely different domain structure from eukaryotic PolXs. Bacterial PolX has an extended conformation in contrast to the common closed 'right hand' conformation for DNA polymerases. This extended conformation is stabilized by the PHP domain. The PHP domain of PolX is structurally homologous to other members of the PHP family that has a distorted (beta/alpha)7 barrel fold with a trinuclear metal site on the C-terminal side of the barrel.
Pssm-ID: 213991 [Multi-domain] Cd Length: 237 Bit Score: 46.64 E-value: 3.53e-05
10 20 30
....*....|....*....|....*....|....*.
gi 41819556 8 LHVHSDFSllDGAASVKALAAKAEKLGQTALALTDH 43
Cdd:cd07436 9 LHVHTTWS--DGRNSIEEMAEAARALGYEYIAITDH 42
|
|
| PRK07945 |
PRK07945 |
PHP domain-containing protein; |
8-43 |
2.27e-04 |
|
PHP domain-containing protein;
Pssm-ID: 236135 [Multi-domain] Cd Length: 335 Bit Score: 44.59 E-value: 2.27e-04
10 20 30
....*....|....*....|....*....|....*.
gi 41819556 8 LHVHSDFSllDGAASVKALAAKAEKLGQTALALTDH 43
Cdd:PRK07945 100 LHTHSDWS--DGGSPIEEMARTAAALGHEYCALTDH 133
|
|
| ComEA |
COG1555 |
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ... |
830-863 |
2.66e-03 |
|
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];
Pssm-ID: 441164 [Multi-domain] Cd Length: 72 Bit Score: 37.53 E-value: 2.66e-03
10 20 30
....*....|....*....|....*....|....
gi 41819556 830 LLGIKGVGMQAAHELVEEREKNGRYKSFIDFLER 863
Cdd:COG1555 23 LQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEV 56
|
|
| |
