|
Name |
Accession |
Description |
Interval |
E-value |
| pol2 |
TIGR00592 |
DNA polymerase (pol2); All proteins in this superfamily for which functions are known are DNA ... |
48-1190 |
0e+00 |
|
DNA polymerase (pol2); All proteins in this superfamily 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: 273159 [Multi-domain] Cd Length: 1172 Bit Score: 694.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 48 ELDVEDVYDTVDDDEYEKIVAKRQKDNFIVDDDGMGYVDNGVDFEDDYEDDYA--PSSSKNSNSSKKGEKKPKKDKKKGG 125
Cdd:TIGR00592 2 VEDTDYIYEDVDEEEYSKRVQEKPIDDIFVKDDGEGYVEDGREFFPDEDDILDldKDDGSAAEAKKKDKENHKKVTKPNN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 126 LHAFLSTTSTKKPIDesvVKAEFDDDEEVKNMLEQLGSSdEEAEEKPKATPANPFKRgrKFDSPsgsdslAPRPIAKKAK 205
Cdd:TIGR00592 82 IKAVRIACAPKKKKD---RKKSLGKDGLLGDILQELNKT-ETAQRKITPRLVSVPKL--KFSSP------ADVPAINDFS 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 206 REATGLAEHkfqrhVKVDED-------EDYGIPDDYPVASPVTSPVKTEKMaEVEAPTAPAIQKIEETVK---------M 269
Cdd:TIGR00592 150 NHHPAVVDI-----VKKAIPvstryllEKILIPVPLKRAEFAGGDVQMEGD-PELKLASFDIETYFHDGKdffpgdenpA 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 270 ETEHLEEVEDSLAKFRVIED----------------------------------WTggSSSQEDEDVKVEVKTGSEAFYT 315
Cdd:TIGR00592 224 DEEIMISTTPVIAKQWDYESepearvvtwkkpdkpttgsyvesvseeismikrfWD--VIDQEDTDVEITVNGDNFDLVY 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 316 MGGEDnttkAIRMYWiDAYEDVHKANGTVYLFGKVKTSgnawETCSIVVKNICRKVYFMPRTKNLS------TGEESSLA 389
Cdd:TIGR00592 302 LADRQ----VFQFYW-DAYEDPAEKLGVVLLFGRDVDH----VSPCVQVKGINRDLFFLPREGKIDfdlgkvTRRTINLP 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 390 ELHKEIGDVLRNKFNTHEFKCKMVEKelirdeSFGYGCGT-----KSPLMEVLYPAEKGK-----LPSDLKGDTFSNTFN 459
Cdd:TIGR00592 373 DYYLEFVSELALGYKKEKFRAKPIAK------KYEFEAPDidapySSEYLEVTYELGKEFapmeaLPSDLKGQTFWHVFG 446
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 460 TSVTPLERLLIEKKFMGPGWIELYNYSD-PKAKTSNCKYEFEVDMEKMRNIkyleSSDAPPPTIKLLALNVVTTLNDRKD 538
Cdd:TIGR00592 447 SNTGNLERFLLLRKIKGPCWLAVKGPDElEYPRRSWCKYEGGYVKPPNVEK----GLDKTPPPLVVLDFSMKSLNPSIIR 522
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 539 NEICMISMLFNPKCDLAHPSGDSKDLKPKCLVTKPPGGSLPYDIqKRLETEKLSKFVKSVANEKALLTLFLAMINEDEPD 618
Cdd:TIGR00592 523 NEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDCSFPLDL-KGEFPGKKPSLVEDLATERALIKKFMAKVKKIDPD 601
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 619 MIVGHDL-SATIALLVSRLEKLKLPNWSRISRLKRSINIGKighsksGQWELTAGRMMLDSKLAAMELVKSRSFDLTELS 697
Cdd:TIGR00592 602 EIVGHDYqQRALKVLANRINDLKIPTWSKIGRLRRSPKFGR------RFGERTCGRMICDVEISAKELIRCKSYDLSELV 675
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 698 QQILGAERREIYANEIPQLYVDSKDLISLINWSWNDLLLSLRIVVRLNALPLYIQISQIVGGIASRTMMGGRAERNEYLL 777
Cdd:TIGR00592 676 QQILKTERKVIPIDNINNMYSESSSLTYLLEHTWKDAMFILQIMCELNVLPLALQITNIAGNIMSRTLMGGRSERNEFLL 755
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 778 LHAFEKADLIAPDKYNSSESKKKKEESQEGD-EKKSGKAQYSGGLVLEPKKGLYETLILLLDFNSLYPSIIQEYNICYTT 856
Cdd:TIGR00592 756 LHAFYENNYIVPDKQIFRKQQKLGDEDEEIDgYKKGKKAAYAGGLVLEPKVGLYDKYVLLMDFNSLYPSIIQEFNICFTT 835
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 857 LEYSKDSDEQLSVPQSTDIEGVLPREIRKLVECRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYA 936
Cdd:TIGR00592 836 VQQKVDEDELPELPDSELEMGILPRELRKLVERRKEVKKLMKQDLNPDLRLQYDIRQKALKLTANSMYGCLGYSKSRFYA 915
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 937 KPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCHRLLELDLDGVFKRMLL 1016
Cdd:TIGR00592 916 KPLAALVTAKGREILEHTRQLVEEMNLEVIYGDTDSIMINTPGTKYEEVFKIGKEFKSEVNKLYKLLELDIDGVFKRLLL 995
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1017 LKKKKYAALTINPDTK---VEAKELKGLDIVRRDWSQLAKETGTAVVDKILDASlTRDEMVSSIDDLLREIRAKLDSGTV 1093
Cdd:TIGR00592 996 LKKKKYAAIKVEGDSDgnyTTKQEVKGLDIVRRDWSPLAKETGKKVLDTILSDK-DVEEAVEEVQEVLEKIGKNVLNGEV 1074
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1094 PLEMFQISKQLTRNPEQYADVKAQCHAAVAQRLNKSGKFNLRHNDIVEYVICEDGTDNPATQRAYHRTE-MAENSALKID 1172
Cdd:TIGR00592 1075 PLEKFVINKQLTRDPKDYPDGASLPHVHVALRINARGGRKVKAGDVVSYVICKDGGNLSARQRAYALEElQRKHNNLIYD 1154
|
1210
....*....|....*...
gi 392896659 1173 LLYYLAQQIHPVVSRLVE 1190
Cdd:TIGR00592 1155 TQYYLEHQIHPVVLRILE 1172
|
|
| POLBc_alpha |
cd05532 |
DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases ... |
810-1207 |
0e+00 |
|
DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. In most organisms no specific repair role, other than check point control, has been assigned to this enzyme. Pol alpha contains both polymerase and exonuclease domains, but lacks exonuclease activity suggesting that the exonuclease domain may be for structural purposes only.
Pssm-ID: 99915 Cd Length: 400 Bit Score: 640.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 810 KKSGKAQYSGGLVLEPKKGLYETLILLLDFNSLYPSIIQEYNICYTTLEYSKDSDE---QLSVPQSTDIEGVLPREIRKL 886
Cdd:cd05532 1 KKKKKAKYAGGLVLEPKKGLYDKFILLLDFNSLYPSIIQEYNICFTTVDRADPDDEddeEPPLPPSDQEKGILPRIIRKL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 887 VECRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVV 966
Cdd:cd05532 81 VERRRQVKKLMKSEKDPDKKAQLDIRQLALKLTANSMYGCLGFSYSRFYAKPLAALITSKGREILQKTKDLVEKMNLEVI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 967 YGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCHRLLELDLDGVFKRMLLLKKKKYAALTINPD-TKVEAKELKGLDIVR 1045
Cdd:cd05532 161 YGDTDSIMINTGTTDYEEAKKLGNKIKKEVNKSYKKLEIDIDGVFKRLLLLKKKKYAALKVVDDdKGKLKKEVKGLDIVR 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1046 RDWSQLAKETGTAVVDKILDASLtRDEMVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYADVKAQCHAAVAQR 1125
Cdd:cd05532 241 RDWCPLSKEIGNYVLDQILSDKS-REDIVENIHEYLRKINEDLRNGKIPLEKFIITKQLTKNPEEYPDKKSLPHVQVALR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1126 LNKSGKfNLRHNDIVEYVICEDGTDNPATQRAYHRTEMAENSALKIDLLYYLAQQIHPVVSRLVEPIEETDAVRIAENLG 1205
Cdd:cd05532 320 MNKRGR-KVKAGDTIPYIICKDGSSKSLADRAYHPDEVKKNENLKIDIEYYLSQQILPPISRLCEPIEGTDAVRLAECLG 398
|
..
gi 392896659 1206 LD 1207
Cdd:cd05532 399 LD 400
|
|
| DNA_pol_B |
pfam00136 |
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one ... |
762-1192 |
4.08e-124 |
|
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one structural domain, possibly including elongation, DNA-binding and dNTP binding activities.
Pssm-ID: 395085 Cd Length: 439 Bit Score: 393.52 E-value: 4.08e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 762 SRTMMGGRAERNEYLLLHAFEKADLIAPDKynsseskkkkeesqegDEKKSGKAQYSGGLVLEPKKGLYETLILLLDFNS 841
Cdd:pfam00136 4 SRVLEGGQQIRVESCLLRLALEEGFILPDR----------------PSAKGDEDGYQGATVIEPKKGFYDKPVLVLDFNS 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 842 LYPSIIQEYNICYTTLEYSKD-------SDEQLSVP---------QSTDIEGVLPREIRKLVECRRDVKSLMKSERNEAK 905
Cdd:pfam00136 68 LYPSIIQAHNLCYTTLVRSVDeannlppEDNLITVEctprgvyfvKDHVREGLLPKLLKDLLAKRKAIKKLLKEETDPFE 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 906 KKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKM---GYSVVYGDTDSIMINTNSVDL 982
Cdd:pfam00136 148 RAILDKQQLALKITANSVYGFTGFANGRLPCLPIAASVTAIGREMLENTKDLVEGMytyNFRVIYGDTDSVFIEFGGKDV 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 983 VAAKKLGNEIKKAVNKcHRL---LELDLDGVFKRMLLLKKKKYAALTINPDTKVEAKELKGLDIVRRDWSQLAKETGTAV 1059
Cdd:pfam00136 228 EEAMKIGDELAEHVNQ-DLFkspIKLEFEKVYKPLLLISKKKYAGLKYTAPSNFNKLDMKGVDLVRRDNCPLVKEVIKKV 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1060 VDKILDASLtRDEMVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYaDVKAQCHAAVAQRLNKSGKFNLRHNDI 1139
Cdd:pfam00136 307 LDLLLSDRG-LPVGLEFVISILNDARSDLRNNKVPLEKFVISKELSKPPDNY-KSKNLPHVEVALRMNKRNGEAPEVGDR 384
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*.
gi 392896659 1140 VEYVICEDGTDN---PATQRAYHRTEMAENSaLKIDLLYYLAQQIHPVVSRLVEPI 1192
Cdd:pfam00136 385 IPYVIVKAAKGLknlLIYERAEDPEYVLENN-LPIDYEYYFSNQLIPPVARLLEPI 439
|
|
| PolB |
COG0417 |
DNA polymerase B elongation subunit [Replication, recombination and repair]; |
464-1208 |
8.52e-104 |
|
DNA polymerase B elongation subunit [Replication, recombination and repair];
Pssm-ID: 440186 [Multi-domain] Cd Length: 794 Bit Score: 349.90 E-value: 8.52e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 464 PLERLLIEKkFMGPG-WIELYNYSDPKAKTSNCKYEFEvdmekmrnikylESSDAPPPTIKLLAL-----NVVTTLNDRK 537
Cdd:COG0417 114 FHDRYLIDR-FLTPGvWYEGEVEEDGGKLDYEVKENPR------------LKPEDYRPKLKVLSFdievsTPRGFPDPER 180
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 538 DNEICMISmlfnpkcdLAHPSGDSKDLkpkcLVTKPPggsLPYDIQkrleteklskfvkSVANEKALLTLFLAMINEDEP 617
Cdd:COG0417 181 DGPIISIG--------LAGSDGEKKVL----MLGREG---VDFEVE-------------YFDDEKALLEAFFEIIREYDP 232
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 618 DMIVGH-----DLsatiALLVSRLEKLKLPnwSRISRLKRSINIGKIGhsKSGQWELTaGRMMLDS-KLAAMELVKSRSF 691
Cdd:COG0417 233 DIIIGWnvdnfDL----PYLQKRAERLGIP--LDLGRDGSEPSWREHG--GQGFASIP-GRVVIDLyDALKSATYKFKSY 303
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 692 DLTELSQQILGAERREIYANEIPQLYVDSKDliSLINWSWNDLLLSLRIVVRLNALPLYIQISQIVGGIASRTMMGGRAE 771
Cdd:COG0417 304 SLDAVAEELLGEGKLIVDGGEIERLWDDDKP--ALAEYNLRDAELTLRIFEKTLLLPFLIELSRITGLPLDDVGRAGSSA 381
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 772 RNEYLLLHAFEKADLIAPDKynsseskkkkeesqegdEKKSGKAqYSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYN 851
Cdd:COG0417 382 AFENLLLPEAHRRGYLAPNK-----------------GEIKGEA-YPGGYVLDPKPGLYEN-VLVLDFKSLYPSIIRTFN 442
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 852 ICYTTL--EYSKDSDEQLSVPQ-----STDIEGVLPREIRKLVECRRDVKSLMKS-ERNEAKKKQMDIRQMALKLTANSM 923
Cdd:COG0417 443 ISPETLveGGEEPCGDEDVAPGfghrfCREPKGILPSILEELWDERDEAKKKMKKaKPDSEEYRLYDALQQALKILMNSF 522
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 924 YGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCHRL- 1002
Cdd:COG0417 523 YGVLGSEGCRFYDPELAESITARGREIIKQTIEKAEELGYKVIYGDTDSLFVWLPKASLEEAIEIGKELAEEINAWWPSg 602
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1003 LELDLDGVFKR--MlllkkkkyaaltinPDTK------VEAKEL--KGLDIVRRDWSQLAKETGTAVVDKILdasltRDE 1072
Cdd:COG0417 603 LELEFEKHYRRffF--------------PGSKkryaglTEDGKIdiKGLEAVRSDWTELAKEFQQEVYERIL-----KEE 663
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1073 MVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYaDVKAQCHAAVAQRLNKSGKfNLRHNDIVEYVIcedgTDNP 1152
Cdd:COG0417 664 DVEKAVEYVRDVIEKLRAGEVDLDDLVIRKRLRKPLSEY-EKNVPPHVRAARKLDERGR-PYQRGDKISYVI----TKGG 737
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|....*...
gi 392896659 1153 ATQRAYhrtEMAENSALKIDLLYYLAQQIHPVVSRLVEP--IEETDAVRIAENLGLDS 1208
Cdd:COG0417 738 GRVEPV---ELAKERESEIDYDYYIEKQLKPTADRILEAfgVSFDELKGGSKQLGLFD 792
|
|
| POLBc |
smart00486 |
DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), ... |
520-978 |
6.04e-98 |
|
DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases
Pssm-ID: 214691 [Multi-domain] Cd Length: 474 Bit Score: 322.94 E-value: 6.04e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 520 PTIKLLALNVVTTLNDRK-------DNEICMISMLFNpkcdlahpSGDSKDLKPKCLVTKPPGGSLPydiqkrleteklS 592
Cdd:smart00486 1 PPLKILSFDIETYTDGGNfpdaeifDDEIIQISLVIN--------DGDKKGANRRILFTLGTCKEID------------G 60
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 593 KFVKSVANEKALLTLFLAMINEDEPDMIVGHDLSA-TIALLVSRLEKLKLPNWSRISRLKRSINIGKIG-------HSKS 664
Cdd:smart00486 61 IEVYEFNNEKELLLAFFEFIKKYDPDIIYGHNISNfDLPYIISRLEKLKIDPLSKIGRLKIGLRIPNKKplfgsksFGLS 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 665 GQWELTAGRMMLDSKLAAMELVKSRSFDLTELSQQILGAERREIYANEIPQLYVDSKDLI-SLINWSWNDLLLSLRIVVR 743
Cdd:smart00486 141 DIKVYIKGRLVIDLYRLYKNKLKLPSYKLDTVAEYLLGKEKDDLPYKDIPELYNGNYEERdELLRYCIQDAVLTLKLFNK 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 744 LNALPLYIQISQIVGGIASRTMMGGRAERNEYLLLHAFEKADLIAPDKYnsseskkkKEESQEGDEKKSGKAQYSGGLVL 823
Cdd:smart00486 221 LNVIPLIIELARIAGIPLRRTLYYGSQIRVESLLLREAKKNNYILPSKE--------LYDFKGSEPDLKKKVKYEGGKVL 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 824 EPKKGLYETLILLLDFNSLYPSIIQEYNICYTTLEYS-------------------KDSDEQLSVPQSTDIEGVLPREIR 884
Cdd:smart00486 293 EPKKGFYDNPVLVLDFNSLYPSIIIAHNLCYSTLVGVgevvikgdliipedlltikYEKGNKYRFVKKNIRKGILPKLLK 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 885 KLVECRRDVKSLMKSERNEAK--KKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMG 962
Cdd:smart00486 373 KLLDKRKEIKKLMKKEKDESEelKKLLDSRQLALKLTANSVYGYLGFTNSRLPCKPLAASVTALGREILEKTKELIEENG 452
|
490 500
....*....|....*....|.
gi 392896659 963 YS-----VVYGDTDSIMINTN 978
Cdd:smart00486 453 YPkpgfkVIYGDTDSIFVTKP 473
|
|
| PRK05762 |
PRK05762 |
DNA polymerase II; Reviewed |
594-1206 |
8.32e-68 |
|
DNA polymerase II; Reviewed
Pssm-ID: 235595 [Multi-domain] Cd Length: 786 Bit Score: 245.53 E-value: 8.32e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 594 FVKSVANEKALLTLFLAMINEDEPDMIVGH-----DLsatiALLVSRLEKLKLPnwSRISRLKRSINIGKIGhSKSGQ-- 666
Cdd:PRK05762 196 FLEYVADEKALLEKFNAWFAEHDPDVIIGWnvvqfDL----RLLQERAERYGIP--LRLGRDGSELEWREHP-FRSGYgf 268
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 667 WELtAGRMMLDsklaAMELVKS-----RSFDLTELSQQILGaERREI-----YANEIPQLYVDSKDliSLINWSWNDLLL 736
Cdd:PRK05762 269 ASV-PGRLVLD----GIDALKSatwvfDSFSLEYVSQRLLG-EGKAIddpydRMDEIDRRFAEDKP--ALARYNLKDCEL 340
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 737 SLRIVVRLNALPLYIQISQIVGGIASRTMMGGRAerNEYLLLHAFEKADLIAPDKynsseskkkkeesqeGDEKksGKAq 816
Cdd:PRK05762 341 VTRIFEKTKLLPFLLERATVTGLPLDRVGGSVAA--FEHLYLPRAHRAGYVAPNL---------------GERP--GEA- 400
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 817 YSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICYTTLeyskdsDEQLSVPQSTDIEG-----------VLPREIRK 885
Cdd:PRK05762 401 SPGGYVMDSKPGLYDS-VLVLDFKSLYPSIIRTFNIDPDGL------VEGLAQPPEESVAGflgarfsrekhFLPEIVER 473
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 886 LVECRRDVKSLMKSERneakkkqmdirQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSV 965
Cdd:PRK05762 474 LWEGRDEAKREMNKPL-----------SQAIKIIMNAFYGVLGSSGCRFFDPRLASSITMRGHEIMKQTRELIEAQGYQV 542
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 966 VYGDTDSIMINTNS-VDLVAAKKLGNEIKKAVNKCHRL-----------LELDLDGVFKR--MlllkkkkyaalTINPDT 1031
Cdd:PRK05762 543 IYGDTDSTFVWLGGaHDEEDAAKIGRALVQEINQWWQEhlqqefglesaLELEFEKHYRRffM-----------PTIRGA 611
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1032 KVEAK--------------EL--KGLDIVRRDWSQLAKETGTAVVDKILDasltRDEMVSSIDDLLREIRA-KLDSGTVp 1094
Cdd:PRK05762 612 EEGSKkryagliqegdgdgRIvfKGLETVRTDWTPLAKEFQQELYERIFR----GEPYVDYVREVIDKLRAgELDEKLV- 686
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1095 lemfqISKQLTRNPEQYADVKAQcHAAVAQRLNKSG-----KFNLRHNDIVEYVICEDGtdnpatqrayhrTEMAENSAL 1169
Cdd:PRK05762 687 -----YRKRLRRPLDEYQRNVPP-HVRAARLADEMGykvgrPLQYQNGGKIGYVITVNG------------PEPLEYRKS 748
|
650 660 670
....*....|....*....|....*....|....*..
gi 392896659 1170 KIDLLYYLAQQIHPVVSRLVEPIEETDAVRIAENLGL 1206
Cdd:PRK05762 749 PIDYDYYIEKQLQPVADRILPFFGDDFATLKTGQLGL 785
|
|
| zf-DNA_Pol |
pfam08996 |
DNA Polymerase alpha zinc finger; The DNA Polymerase alpha zinc finger domain adopts an ... |
1232-1421 |
2.30e-49 |
|
DNA Polymerase alpha zinc finger; The DNA Polymerase alpha zinc finger domain adopts an alpha-helix-like structure, followed by three turns, all of which involve proline. The resulting motif is a helix-turn-helix motif, in contrast to other zinc finger domains, which show anti-parallel sheet and helix conformation. Zinc binding occurs due to the presence of four cysteine residues positioned to bind the metal centre in a tetrahedral coordination geometry. Function of this domain is uncertain: it has been proposed that the zinc finger motif may be an essential part of the DNA binding domain.
Pssm-ID: 462651 Cd Length: 184 Bit Score: 173.56 E-value: 2.30e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1232 QENYDLCEGIHVICPldGCGHSNVIRETFDCvTDASSPRLLFSGCAQCQGSWdlqeHQAVIGNQVDRQMSEFVARHHLAA 1311
Cdd:pfam08996 6 EERFKDCEPLELRCP--SCGTEFEFEGVFAS-ADGYSVTPSGLRCPNCDASL----SPASLVNQLELQIRAHISRYYEGW 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1312 FKCDEPTCEFKTRVQTMKWCRegleCIR--CsTGVLRREYTSKQLFDQQMFFRTILDVDAAVRKLSDAQKKAAKVRVEYN 1389
Cdd:pfam08996 79 LVCDDPTCGNRTRQMSVYGKR----CLGpgC-KGRMRYEYSDKQLYNQLLYFASLFDVDKAKKKLLKSEESREKVLALAE 153
|
170 180 190
....*....|....*....|....*....|..
gi 392896659 1390 GCKIDSMMLADRInEKYLEKNAYNRVDLSYIF 1421
Cdd:pfam08996 154 QNRELFKTLKSVV-DKYLDKCGRRWVNLSSLF 184
|
|
|
|
Name |
Accession |
Description |
Interval |
E-value |
| pol2 |
TIGR00592 |
DNA polymerase (pol2); All proteins in this superfamily for which functions are known are DNA ... |
48-1190 |
0e+00 |
|
DNA polymerase (pol2); All proteins in this superfamily 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: 273159 [Multi-domain] Cd Length: 1172 Bit Score: 694.88 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 48 ELDVEDVYDTVDDDEYEKIVAKRQKDNFIVDDDGMGYVDNGVDFEDDYEDDYA--PSSSKNSNSSKKGEKKPKKDKKKGG 125
Cdd:TIGR00592 2 VEDTDYIYEDVDEEEYSKRVQEKPIDDIFVKDDGEGYVEDGREFFPDEDDILDldKDDGSAAEAKKKDKENHKKVTKPNN 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 126 LHAFLSTTSTKKPIDesvVKAEFDDDEEVKNMLEQLGSSdEEAEEKPKATPANPFKRgrKFDSPsgsdslAPRPIAKKAK 205
Cdd:TIGR00592 82 IKAVRIACAPKKKKD---RKKSLGKDGLLGDILQELNKT-ETAQRKITPRLVSVPKL--KFSSP------ADVPAINDFS 149
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 206 REATGLAEHkfqrhVKVDED-------EDYGIPDDYPVASPVTSPVKTEKMaEVEAPTAPAIQKIEETVK---------M 269
Cdd:TIGR00592 150 NHHPAVVDI-----VKKAIPvstryllEKILIPVPLKRAEFAGGDVQMEGD-PELKLASFDIETYFHDGKdffpgdenpA 223
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 270 ETEHLEEVEDSLAKFRVIED----------------------------------WTggSSSQEDEDVKVEVKTGSEAFYT 315
Cdd:TIGR00592 224 DEEIMISTTPVIAKQWDYESepearvvtwkkpdkpttgsyvesvseeismikrfWD--VIDQEDTDVEITVNGDNFDLVY 301
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 316 MGGEDnttkAIRMYWiDAYEDVHKANGTVYLFGKVKTSgnawETCSIVVKNICRKVYFMPRTKNLS------TGEESSLA 389
Cdd:TIGR00592 302 LADRQ----VFQFYW-DAYEDPAEKLGVVLLFGRDVDH----VSPCVQVKGINRDLFFLPREGKIDfdlgkvTRRTINLP 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 390 ELHKEIGDVLRNKFNTHEFKCKMVEKelirdeSFGYGCGT-----KSPLMEVLYPAEKGK-----LPSDLKGDTFSNTFN 459
Cdd:TIGR00592 373 DYYLEFVSELALGYKKEKFRAKPIAK------KYEFEAPDidapySSEYLEVTYELGKEFapmeaLPSDLKGQTFWHVFG 446
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 460 TSVTPLERLLIEKKFMGPGWIELYNYSD-PKAKTSNCKYEFEVDMEKMRNIkyleSSDAPPPTIKLLALNVVTTLNDRKD 538
Cdd:TIGR00592 447 SNTGNLERFLLLRKIKGPCWLAVKGPDElEYPRRSWCKYEGGYVKPPNVEK----GLDKTPPPLVVLDFSMKSLNPSIIR 522
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 539 NEICMISMLFNPKCDLAHPSGDSKDLKPKCLVTKPPGGSLPYDIqKRLETEKLSKFVKSVANEKALLTLFLAMINEDEPD 618
Cdd:TIGR00592 523 NEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDCSFPLDL-KGEFPGKKPSLVEDLATERALIKKFMAKVKKIDPD 601
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 619 MIVGHDL-SATIALLVSRLEKLKLPNWSRISRLKRSINIGKighsksGQWELTAGRMMLDSKLAAMELVKSRSFDLTELS 697
Cdd:TIGR00592 602 EIVGHDYqQRALKVLANRINDLKIPTWSKIGRLRRSPKFGR------RFGERTCGRMICDVEISAKELIRCKSYDLSELV 675
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 698 QQILGAERREIYANEIPQLYVDSKDLISLINWSWNDLLLSLRIVVRLNALPLYIQISQIVGGIASRTMMGGRAERNEYLL 777
Cdd:TIGR00592 676 QQILKTERKVIPIDNINNMYSESSSLTYLLEHTWKDAMFILQIMCELNVLPLALQITNIAGNIMSRTLMGGRSERNEFLL 755
|
810 820 830 840 850 860 870 880
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 778 LHAFEKADLIAPDKYNSSESKKKKEESQEGD-EKKSGKAQYSGGLVLEPKKGLYETLILLLDFNSLYPSIIQEYNICYTT 856
Cdd:TIGR00592 756 LHAFYENNYIVPDKQIFRKQQKLGDEDEEIDgYKKGKKAAYAGGLVLEPKVGLYDKYVLLMDFNSLYPSIIQEFNICFTT 835
|
890 900 910 920 930 940 950 960
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 857 LEYSKDSDEQLSVPQSTDIEGVLPREIRKLVECRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYA 936
Cdd:TIGR00592 836 VQQKVDEDELPELPDSELEMGILPRELRKLVERRKEVKKLMKQDLNPDLRLQYDIRQKALKLTANSMYGCLGYSKSRFYA 915
|
970 980 990 1000 1010 1020 1030 1040
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 937 KPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCHRLLELDLDGVFKRMLL 1016
Cdd:TIGR00592 916 KPLAALVTAKGREILEHTRQLVEEMNLEVIYGDTDSIMINTPGTKYEEVFKIGKEFKSEVNKLYKLLELDIDGVFKRLLL 995
|
1050 1060 1070 1080 1090 1100 1110 1120
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1017 LKKKKYAALTINPDTK---VEAKELKGLDIVRRDWSQLAKETGTAVVDKILDASlTRDEMVSSIDDLLREIRAKLDSGTV 1093
Cdd:TIGR00592 996 LKKKKYAAIKVEGDSDgnyTTKQEVKGLDIVRRDWSPLAKETGKKVLDTILSDK-DVEEAVEEVQEVLEKIGKNVLNGEV 1074
|
1130 1140 1150 1160 1170 1180 1190 1200
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1094 PLEMFQISKQLTRNPEQYADVKAQCHAAVAQRLNKSGKFNLRHNDIVEYVICEDGTDNPATQRAYHRTE-MAENSALKID 1172
Cdd:TIGR00592 1075 PLEKFVINKQLTRDPKDYPDGASLPHVHVALRINARGGRKVKAGDVVSYVICKDGGNLSARQRAYALEElQRKHNNLIYD 1154
|
1210
....*....|....*...
gi 392896659 1173 LLYYLAQQIHPVVSRLVE 1190
Cdd:TIGR00592 1155 TQYYLEHQIHPVVLRILE 1172
|
|
| POLBc_alpha |
cd05532 |
DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases ... |
810-1207 |
0e+00 |
|
DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. In most organisms no specific repair role, other than check point control, has been assigned to this enzyme. Pol alpha contains both polymerase and exonuclease domains, but lacks exonuclease activity suggesting that the exonuclease domain may be for structural purposes only.
Pssm-ID: 99915 Cd Length: 400 Bit Score: 640.40 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 810 KKSGKAQYSGGLVLEPKKGLYETLILLLDFNSLYPSIIQEYNICYTTLEYSKDSDE---QLSVPQSTDIEGVLPREIRKL 886
Cdd:cd05532 1 KKKKKAKYAGGLVLEPKKGLYDKFILLLDFNSLYPSIIQEYNICFTTVDRADPDDEddeEPPLPPSDQEKGILPRIIRKL 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 887 VECRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVV 966
Cdd:cd05532 81 VERRRQVKKLMKSEKDPDKKAQLDIRQLALKLTANSMYGCLGFSYSRFYAKPLAALITSKGREILQKTKDLVEKMNLEVI 160
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 967 YGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCHRLLELDLDGVFKRMLLLKKKKYAALTINPD-TKVEAKELKGLDIVR 1045
Cdd:cd05532 161 YGDTDSIMINTGTTDYEEAKKLGNKIKKEVNKSYKKLEIDIDGVFKRLLLLKKKKYAALKVVDDdKGKLKKEVKGLDIVR 240
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1046 RDWSQLAKETGTAVVDKILDASLtRDEMVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYADVKAQCHAAVAQR 1125
Cdd:cd05532 241 RDWCPLSKEIGNYVLDQILSDKS-REDIVENIHEYLRKINEDLRNGKIPLEKFIITKQLTKNPEEYPDKKSLPHVQVALR 319
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1126 LNKSGKfNLRHNDIVEYVICEDGTDNPATQRAYHRTEMAENSALKIDLLYYLAQQIHPVVSRLVEPIEETDAVRIAENLG 1205
Cdd:cd05532 320 MNKRGR-KVKAGDTIPYIICKDGSSKSLADRAYHPDEVKKNENLKIDIEYYLSQQILPPISRLCEPIEGTDAVRLAECLG 398
|
..
gi 392896659 1206 LD 1207
Cdd:cd05532 399 LD 400
|
|
| DNA_pol_B |
pfam00136 |
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one ... |
762-1192 |
4.08e-124 |
|
DNA polymerase family B; This region of DNA polymerase B appears to consist of more than one structural domain, possibly including elongation, DNA-binding and dNTP binding activities.
Pssm-ID: 395085 Cd Length: 439 Bit Score: 393.52 E-value: 4.08e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 762 SRTMMGGRAERNEYLLLHAFEKADLIAPDKynsseskkkkeesqegDEKKSGKAQYSGGLVLEPKKGLYETLILLLDFNS 841
Cdd:pfam00136 4 SRVLEGGQQIRVESCLLRLALEEGFILPDR----------------PSAKGDEDGYQGATVIEPKKGFYDKPVLVLDFNS 67
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 842 LYPSIIQEYNICYTTLEYSKD-------SDEQLSVP---------QSTDIEGVLPREIRKLVECRRDVKSLMKSERNEAK 905
Cdd:pfam00136 68 LYPSIIQAHNLCYTTLVRSVDeannlppEDNLITVEctprgvyfvKDHVREGLLPKLLKDLLAKRKAIKKLLKEETDPFE 147
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 906 KKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKM---GYSVVYGDTDSIMINTNSVDL 982
Cdd:pfam00136 148 RAILDKQQLALKITANSVYGFTGFANGRLPCLPIAASVTAIGREMLENTKDLVEGMytyNFRVIYGDTDSVFIEFGGKDV 227
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 983 VAAKKLGNEIKKAVNKcHRL---LELDLDGVFKRMLLLKKKKYAALTINPDTKVEAKELKGLDIVRRDWSQLAKETGTAV 1059
Cdd:pfam00136 228 EEAMKIGDELAEHVNQ-DLFkspIKLEFEKVYKPLLLISKKKYAGLKYTAPSNFNKLDMKGVDLVRRDNCPLVKEVIKKV 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1060 VDKILDASLtRDEMVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYaDVKAQCHAAVAQRLNKSGKFNLRHNDI 1139
Cdd:pfam00136 307 LDLLLSDRG-LPVGLEFVISILNDARSDLRNNKVPLEKFVISKELSKPPDNY-KSKNLPHVEVALRMNKRNGEAPEVGDR 384
|
410 420 430 440 450
....*....|....*....|....*....|....*....|....*....|....*.
gi 392896659 1140 VEYVICEDGTDN---PATQRAYHRTEMAENSaLKIDLLYYLAQQIHPVVSRLVEPI 1192
Cdd:pfam00136 385 IPYVIVKAAKGLknlLIYERAEDPEYVLENN-LPIDYEYYFSNQLIPPVARLLEPI 439
|
|
| PolB |
COG0417 |
DNA polymerase B elongation subunit [Replication, recombination and repair]; |
464-1208 |
8.52e-104 |
|
DNA polymerase B elongation subunit [Replication, recombination and repair];
Pssm-ID: 440186 [Multi-domain] Cd Length: 794 Bit Score: 349.90 E-value: 8.52e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 464 PLERLLIEKkFMGPG-WIELYNYSDPKAKTSNCKYEFEvdmekmrnikylESSDAPPPTIKLLAL-----NVVTTLNDRK 537
Cdd:COG0417 114 FHDRYLIDR-FLTPGvWYEGEVEEDGGKLDYEVKENPR------------LKPEDYRPKLKVLSFdievsTPRGFPDPER 180
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 538 DNEICMISmlfnpkcdLAHPSGDSKDLkpkcLVTKPPggsLPYDIQkrleteklskfvkSVANEKALLTLFLAMINEDEP 617
Cdd:COG0417 181 DGPIISIG--------LAGSDGEKKVL----MLGREG---VDFEVE-------------YFDDEKALLEAFFEIIREYDP 232
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 618 DMIVGH-----DLsatiALLVSRLEKLKLPnwSRISRLKRSINIGKIGhsKSGQWELTaGRMMLDS-KLAAMELVKSRSF 691
Cdd:COG0417 233 DIIIGWnvdnfDL----PYLQKRAERLGIP--LDLGRDGSEPSWREHG--GQGFASIP-GRVVIDLyDALKSATYKFKSY 303
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 692 DLTELSQQILGAERREIYANEIPQLYVDSKDliSLINWSWNDLLLSLRIVVRLNALPLYIQISQIVGGIASRTMMGGRAE 771
Cdd:COG0417 304 SLDAVAEELLGEGKLIVDGGEIERLWDDDKP--ALAEYNLRDAELTLRIFEKTLLLPFLIELSRITGLPLDDVGRAGSSA 381
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 772 RNEYLLLHAFEKADLIAPDKynsseskkkkeesqegdEKKSGKAqYSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYN 851
Cdd:COG0417 382 AFENLLLPEAHRRGYLAPNK-----------------GEIKGEA-YPGGYVLDPKPGLYEN-VLVLDFKSLYPSIIRTFN 442
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 852 ICYTTL--EYSKDSDEQLSVPQ-----STDIEGVLPREIRKLVECRRDVKSLMKS-ERNEAKKKQMDIRQMALKLTANSM 923
Cdd:COG0417 443 ISPETLveGGEEPCGDEDVAPGfghrfCREPKGILPSILEELWDERDEAKKKMKKaKPDSEEYRLYDALQQALKILMNSF 522
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 924 YGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCHRL- 1002
Cdd:COG0417 523 YGVLGSEGCRFYDPELAESITARGREIIKQTIEKAEELGYKVIYGDTDSLFVWLPKASLEEAIEIGKELAEEINAWWPSg 602
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1003 LELDLDGVFKR--MlllkkkkyaaltinPDTK------VEAKEL--KGLDIVRRDWSQLAKETGTAVVDKILdasltRDE 1072
Cdd:COG0417 603 LELEFEKHYRRffF--------------PGSKkryaglTEDGKIdiKGLEAVRSDWTELAKEFQQEVYERIL-----KEE 663
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1073 MVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYaDVKAQCHAAVAQRLNKSGKfNLRHNDIVEYVIcedgTDNP 1152
Cdd:COG0417 664 DVEKAVEYVRDVIEKLRAGEVDLDDLVIRKRLRKPLSEY-EKNVPPHVRAARKLDERGR-PYQRGDKISYVI----TKGG 737
|
730 740 750 760 770
....*....|....*....|....*....|....*....|....*....|....*...
gi 392896659 1153 ATQRAYhrtEMAENSALKIDLLYYLAQQIHPVVSRLVEP--IEETDAVRIAENLGLDS 1208
Cdd:COG0417 738 GRVEPV---ELAKERESEIDYDYYIEKQLKPTADRILEAfgVSFDELKGGSKQLGLFD 792
|
|
| POLBc |
smart00486 |
DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), ... |
520-978 |
6.04e-98 |
|
DNA polymerase type-B family; DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases
Pssm-ID: 214691 [Multi-domain] Cd Length: 474 Bit Score: 322.94 E-value: 6.04e-98
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 520 PTIKLLALNVVTTLNDRK-------DNEICMISMLFNpkcdlahpSGDSKDLKPKCLVTKPPGGSLPydiqkrleteklS 592
Cdd:smart00486 1 PPLKILSFDIETYTDGGNfpdaeifDDEIIQISLVIN--------DGDKKGANRRILFTLGTCKEID------------G 60
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 593 KFVKSVANEKALLTLFLAMINEDEPDMIVGHDLSA-TIALLVSRLEKLKLPNWSRISRLKRSINIGKIG-------HSKS 664
Cdd:smart00486 61 IEVYEFNNEKELLLAFFEFIKKYDPDIIYGHNISNfDLPYIISRLEKLKIDPLSKIGRLKIGLRIPNKKplfgsksFGLS 140
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 665 GQWELTAGRMMLDSKLAAMELVKSRSFDLTELSQQILGAERREIYANEIPQLYVDSKDLI-SLINWSWNDLLLSLRIVVR 743
Cdd:smart00486 141 DIKVYIKGRLVIDLYRLYKNKLKLPSYKLDTVAEYLLGKEKDDLPYKDIPELYNGNYEERdELLRYCIQDAVLTLKLFNK 220
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 744 LNALPLYIQISQIVGGIASRTMMGGRAERNEYLLLHAFEKADLIAPDKYnsseskkkKEESQEGDEKKSGKAQYSGGLVL 823
Cdd:smart00486 221 LNVIPLIIELARIAGIPLRRTLYYGSQIRVESLLLREAKKNNYILPSKE--------LYDFKGSEPDLKKKVKYEGGKVL 292
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 824 EPKKGLYETLILLLDFNSLYPSIIQEYNICYTTLEYS-------------------KDSDEQLSVPQSTDIEGVLPREIR 884
Cdd:smart00486 293 EPKKGFYDNPVLVLDFNSLYPSIIIAHNLCYSTLVGVgevvikgdliipedlltikYEKGNKYRFVKKNIRKGILPKLLK 372
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 885 KLVECRRDVKSLMKSERNEAK--KKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMG 962
Cdd:smart00486 373 KLLDKRKEIKKLMKKEKDESEelKKLLDSRQLALKLTANSVYGYLGFTNSRLPCKPLAASVTALGREILEKTKELIEENG 452
|
490 500
....*....|....*....|.
gi 392896659 963 YS-----VVYGDTDSIMINTN 978
Cdd:smart00486 453 YPkpgfkVIYGDTDSIFVTKP 473
|
|
| DNA_polB_alpha_exo |
cd05776 |
inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha, a family-B DNA ... |
520-752 |
5.67e-79 |
|
inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha, a family-B DNA polymerase; The 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha. DNA polymerase alpha is a family-B DNA polymerase with a catalytic subunit that contains a DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (delta and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. It associates with DNA primase and is the only enzyme able to start DNA synthesis de novo. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are crucial for metal binding and catalysis. This explains why in most organisms, that no specific repair role, other than check point control, has been assigned to this enzyme. The exonuclease domain may have a structural role.
Pssm-ID: 99819 [Multi-domain] Cd Length: 234 Bit Score: 260.24 E-value: 5.67e-79
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 520 PTIKLLALNVVTTLNDRK-DNEICMISMLFNPKCDLAHPSGDSKDLKPKCLVTKPPGGSLPyDIQKRLETEKLSKFVKSV 598
Cdd:cd05776 1 PPLTVMSLSIKTVLNSKTnKNEIVMISMLVHRNVSLDKPTPPPPFQSHTCTLTRPLGRSPP-PDLFEKNAKKKKTKVRIF 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 599 ANEKALLTLFLAMINEDEPDMIVGHDLSA-TIALLVSRLEKLKLPNWSRISRLKRSINIGKIGHSKSGQWELTAGRMMLD 677
Cdd:cd05776 80 ENERALLNFFLAKLQKIDPDVLVGHDLEGfDLDVLLSRIQELKVPHWSRIGRLKRSVWPKKKGGGKFGERELTAGRLLCD 159
|
170 180 190 200 210 220 230
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 392896659 678 SKLAAMELVKSRSFDLTELSQQILGAERREIYANEIPQLYVDSKDLISLINWSWNDLLLSLRIVVRLNALPLYIQ 752
Cdd:cd05776 160 TYLSAKELIRCKSYDLTELSQQVLGIERQDIDPEEILNMYNDSESLLKLLEHTEKDAYLILQLMFKLNILPLTKQ 234
|
|
| PRK05762 |
PRK05762 |
DNA polymerase II; Reviewed |
594-1206 |
8.32e-68 |
|
DNA polymerase II; Reviewed
Pssm-ID: 235595 [Multi-domain] Cd Length: 786 Bit Score: 245.53 E-value: 8.32e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 594 FVKSVANEKALLTLFLAMINEDEPDMIVGH-----DLsatiALLVSRLEKLKLPnwSRISRLKRSINIGKIGhSKSGQ-- 666
Cdd:PRK05762 196 FLEYVADEKALLEKFNAWFAEHDPDVIIGWnvvqfDL----RLLQERAERYGIP--LRLGRDGSELEWREHP-FRSGYgf 268
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 667 WELtAGRMMLDsklaAMELVKS-----RSFDLTELSQQILGaERREI-----YANEIPQLYVDSKDliSLINWSWNDLLL 736
Cdd:PRK05762 269 ASV-PGRLVLD----GIDALKSatwvfDSFSLEYVSQRLLG-EGKAIddpydRMDEIDRRFAEDKP--ALARYNLKDCEL 340
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 737 SLRIVVRLNALPLYIQISQIVGGIASRTMMGGRAerNEYLLLHAFEKADLIAPDKynsseskkkkeesqeGDEKksGKAq 816
Cdd:PRK05762 341 VTRIFEKTKLLPFLLERATVTGLPLDRVGGSVAA--FEHLYLPRAHRAGYVAPNL---------------GERP--GEA- 400
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 817 YSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICYTTLeyskdsDEQLSVPQSTDIEG-----------VLPREIRK 885
Cdd:PRK05762 401 SPGGYVMDSKPGLYDS-VLVLDFKSLYPSIIRTFNIDPDGL------VEGLAQPPEESVAGflgarfsrekhFLPEIVER 473
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 886 LVECRRDVKSLMKSERneakkkqmdirQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSV 965
Cdd:PRK05762 474 LWEGRDEAKREMNKPL-----------SQAIKIIMNAFYGVLGSSGCRFFDPRLASSITMRGHEIMKQTRELIEAQGYQV 542
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 966 VYGDTDSIMINTNS-VDLVAAKKLGNEIKKAVNKCHRL-----------LELDLDGVFKR--MlllkkkkyaalTINPDT 1031
Cdd:PRK05762 543 IYGDTDSTFVWLGGaHDEEDAAKIGRALVQEINQWWQEhlqqefglesaLELEFEKHYRRffM-----------PTIRGA 611
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1032 KVEAK--------------EL--KGLDIVRRDWSQLAKETGTAVVDKILDasltRDEMVSSIDDLLREIRA-KLDSGTVp 1094
Cdd:PRK05762 612 EEGSKkryagliqegdgdgRIvfKGLETVRTDWTPLAKEFQQELYERIFR----GEPYVDYVREVIDKLRAgELDEKLV- 686
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1095 lemfqISKQLTRNPEQYADVKAQcHAAVAQRLNKSG-----KFNLRHNDIVEYVICEDGtdnpatqrayhrTEMAENSAL 1169
Cdd:PRK05762 687 -----YRKRLRRPLDEYQRNVPP-HVRAARLADEMGykvgrPLQYQNGGKIGYVITVNG------------PEPLEYRKS 748
|
650 660 670
....*....|....*....|....*....|....*..
gi 392896659 1170 KIDLLYYLAQQIHPVVSRLVEPIEETDAVRIAENLGL 1206
Cdd:PRK05762 749 PIDYDYYIEKQLQPVADRILPFFGDDFATLKTGQLGL 785
|
|
| POLBc_B3 |
cd05536 |
DNA polymerase type-B B3 subfamily catalytic domain. Archaeal proteins that are involved in ... |
817-1190 |
1.17e-64 |
|
DNA polymerase type-B B3 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some members of the archaea also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases. Structural comparison of the thermostable DNA polymerase type B to its mesostable homolog suggests several adaptations to high temperature such as shorter loops, disulfide bridges, and increasing electrostatic interaction at subdomain interfaces.
Pssm-ID: 99919 Cd Length: 371 Bit Score: 224.51 E-value: 1.17e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 817 YSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICYTTLEYSKDSDEQLSVPQS----TDIEGVLPREIRKLVECRRD 892
Cdd:cd05536 4 YEGGIVLEPEKGLHEN-IVVLDFSSLYPSIMIKYNISPDTLVREGCEDCDVEPQVGhkfrKDPPGFIPSVLEDLLEERRR 82
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 893 VKSLMKS-ERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTD 971
Cdd:cd05536 83 IKEKMKKlDPESEEYKLLDERQRAIKILANSFYGYMGWANARWYCKECAEAVTAWGREYIKTTIKIAEEKGFKVIYGDTD 162
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 972 SIMINTNSVDLVA--AKKLGNEIKKavnkchRL-LELDLDGVFKRMLLLKKKKYAAltINPDTKVeakELKGLDIVRRDW 1048
Cdd:cd05536 163 SLFVKIDGADAVKkkVKKLLKYINE------ELpLELEIEKFYKRGFFVTKKRYAG--LTEDGKI---DVVGLEVVRRDW 231
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1049 SQLAKETGTAVVDKILdasltRDEMVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYadVKAQCHAAVAQRLNK 1128
Cdd:cd05536 232 SEIAKETQARVLEAIL-----KEGDVEEAVKIVKEVIEKLKRGEVPPEKLVIWKQLTKDLSEY--KATGPHVAAAKKLAK 304
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|..
gi 392896659 1129 SGkFNLRHNDIVEYVICEDGtdNPATQRAYHRTEMAENSalKIDLLYYLAQQIHPVVSRLVE 1190
Cdd:cd05536 305 RG-YKVRPGTKIGYVIVKGS--GKISDRAYPYDMVDEKH--KYDAEYYIDNQVLPAVLRILE 361
|
|
| POLBc |
cd00145 |
DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by ... |
815-1117 |
6.18e-64 |
|
DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (polymerase) and degradative modes (exonucleases) and play roles in the processes of DNA replication, repair, and recombination. DNA-dependent DNA polymerases can be classified in six main groups based upon their phylogenetic relationships with E. coli polymerase I (class A), E. coli polymerase II (class B), E. coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB, and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family B DNA polymerases include E. coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative DNA polymerases (alpha, delta, epsilon, and zeta), and eukaryotic viral and plasmid-borne enzymes. DNA polymerase is made up of distinct domains and sub-domains. The polymerase domain of DNA polymerase type B (Pol domain) is responsible for the template-directed polymerization of dNTPs onto the growing primer strand of duplex DNA that is usually magnesium dependent. In general, the architecture of the Pol domain has been likened to a right hand with fingers, thumb, and palm sub-domains with a deep groove to accommodate the nucleic acid substrate. There are a few conserved motifs in the Pol domain of family B DNA polymerases. The conserved aspartic acid residues in the DTDS motifs of the palm sub-domain is crucial for binding to divalent metal ion and is suggested to be important for polymerase catalysis.
Pssm-ID: 99912 [Multi-domain] Cd Length: 323 Bit Score: 220.70 E-value: 6.18e-64
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 815 AQYSGGLVLEPKKGLYEtLILLLDFNSLYPSIIQEYNICYTTLEYSKDSDEQLSVPQSTDIE-----GVLPREIRKLVEC 889
Cdd:cd00145 1 EPYEGGYVFDPIPGLYE-NVIVLDFKSLYPSIIITYNLSPTTLVGNGEIAAPEDYIGVGFRSpkdrkGLLPRILEELLNF 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 890 RRDVKSLMKSERN-EAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYG 968
Cdd:cd00145 80 RDEAKKRMKAAKLaPEERVLYDNRQQALKVLANSFYGYLGAKFFRFYDPEVAASITSFGREIIQDTIALVEEHGARVIYG 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 969 DTDSIMINTNSV-DLVAAKKLGNEIKKAVNKCHrLLELDLDGVFKRMLLLKKKKYAALTINPDTKVEAKELKGLDIVRRD 1047
Cdd:cd00145 160 DTDSIFVSLPKMgTKEDAIKEGREILQELADEH-LLELEFEKVYLPFFLGKKKRYAGLDIWKGQDEGKIDIKGLETRRRD 238
|
250 260 270 280 290 300 310
....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1048 WSQLAKETGTAVVDKILDASLTRDEMVSSIDDLLREIRAKLDSGTVPLEMfqiskQLTRNPEQYADVKAQ 1117
Cdd:cd00145 239 SPPLVKKFQKEVLELILEEERKVEAVKEYIDELDKVKYVVTRGGKGVPDY-----ERADPPLEDLDKRHR 303
|
|
| POLBc_delta |
cd05533 |
DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases ... |
816-1192 |
2.42e-61 |
|
DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. Presently, no direct data is available regarding the strand specificity of DNA polymerase during DNA replication in vivo. However, mutation analysis supports the hypothesis that DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand.
Pssm-ID: 99916 Cd Length: 393 Bit Score: 215.59 E-value: 2.42e-61
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 816 QYSGGLVLEPKKGLYETLILLLDFNSLYPSIIQEYNICYTTL----EYSKDSDEQLSVPQSTDI-------EGVLPREIR 884
Cdd:cd05533 2 QYEGATVIEPIKGYYDVPIATLDFASLYPSIMMAHNLCYTTLlnknTAKKLPPEDYIKTPNGDYfvkssvrKGLLPEILE 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 885 KLVECRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVE----- 959
Cdd:cd05533 82 ELLAARKRAKKDLKEETDPFKKAVLDGRQLALKISANSVYGFTGATVGKLPCLEISSSVTSFGRQMIEKTKKLVEekytk 161
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 960 KMGYS----VVYGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCH-RLLELDLDGVF--------KRMLLLKKKkyaalt 1026
Cdd:cd05533 162 ANGYShdakVIYGDTDSVMVKFGVSDVEEAMKLGKEAAEYVSKKFiKPIKLEFEKVYfpyllinkKRYAGLLWT------ 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1027 iNPDT--KVEAkelKGLDIVRRDWSQLAKETGTAVVDKILdasLTRDemVSSIDDLLREIRAKLDSGTVPLEMFQISKQL 1104
Cdd:cd05533 236 -NPDKhdKMDT---KGIETVRRDNCLLVQNVVETCLNKIL---IERD--VEGAIEFVKGVISDLLQNKIDISLLVITKAL 306
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1105 TRNPEQYAdvKAQCHAAVAQRLNKSGKFNLRH-NDIVEYVICEDGTDNPATQRAYHRTEMAENSaLKIDLLYYLAQQIHP 1183
Cdd:cd05533 307 TKTADDYA--GKQAHVELAERMRKRDPGSAPNvGDRVPYVIIKGAKGAKAYEKAEDPIYVLENN-IPIDTQYYLENQLSK 383
|
....*....
gi 392896659 1184 VVSRLVEPI 1192
Cdd:cd05533 384 PLLRIFEPI 392
|
|
| PTZ00166 |
PTZ00166 |
DNA polymerase delta catalytic subunit; Provisional |
467-1192 |
2.07e-58 |
|
DNA polymerase delta catalytic subunit; Provisional
Pssm-ID: 240301 [Multi-domain] Cd Length: 1054 Bit Score: 220.67 E-value: 2.07e-58
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 467 RLLIEKKFMGPGWIEL----YNYSDPKAKTSNCKYEFEVDMEKMRNIKYLESSDAPPP------TIKLLALNVVTTLNDR 536
Cdd:PTZ00166 206 RFLIDNNITGGSWLTLpkgkYKIRPPKKKTSTCQIEVDCSYEDLIPLPPEGEYLTIAPlrilsfDIECIKLKGLGFPEAE 285
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 537 KDNEICMISMLFNpkcdlahpSGDSKDLKPKCLVTKPPGGSLPydiqkrleteklSKFVKSVANEKALLTLFLAMINEDE 616
Cdd:PTZ00166 286 NDPVIQISSVVTN--------QGDEEEPLTKFIFTLKECASIA------------GANVLSFETEKELLLAWAEFVIAVD 345
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 617 PDMIVGHDLSA-TIALLVSRLEKLKLPNWSRISRLKRSINIGKIGHSKSGQW------ELT-AGRMMLDsklaAMELV-- 686
Cdd:PTZ00166 346 PDFLTGYNIINfDLPYLLNRAKALKLNDFKYLGRIKSTRSVIKDSKFSSKQMgtreskEINiEGRIQFD----VMDLIrr 421
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 687 --KSRSFDLTELSQQILGAERREIYANEIPQLYVDS-KDLISLINWSWNDLLLSLRIVVRLNALPLYIQISQIVGGIASR 763
Cdd:PTZ00166 422 dyKLKSYSLNYVSFEFLKEQKEDVHYSIISDLQNGSpETRRRIAVYCLKDAILPLRLLDKLLLIYNYVEMARVTGTPIGW 501
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 764 TMMGGRAERNEYLLLHAFEKADLIAPDKYNSseskkkkeesqegdeKKSGKAQYSGGLVLEPKKGLYETLILLLDFNSLY 843
Cdd:PTZ00166 502 LLTRGQQIKVTSQLLRKCKKLNYVIPTVKYS---------------GGGSEEKYEGATVLEPKKGFYDEPIATLDFASLY 566
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 844 PSIIQEYNICYTTLEYSKDSD---EQLSVPQSTDI--------EGVLPREIRKLVECRRDVKSLMKSERNEAKKKQMDIR 912
Cdd:PTZ00166 567 PSIMIAHNLCYSTLVPPNDANnypEDTYVTTPTGDkfvkkevrKGILPLIVEELIAARKKAKKEMKDEKDPLLKKVLNGR 646
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 913 QMALKLTANSMYGCLGFQYSRFYakP---LAALVTAKGREILMHSKDLVEKM-----GYS----VVYGDTDSIMINTNSV 980
Cdd:PTZ00166 647 QLALKISANSVYGYTGAQVGGQL--PcleVSTSITSFGRQMIDKTKELVEKHytkanGYKhdatVIYGDTDSVMVKFGTD 724
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 981 DLVAAKKLGNEIKKAVNKCH-RLLELDLDGVF--------KRMLLLKKKkyaaltiNPDtKVEAKELKGLDIVRRDWSQL 1051
Cdd:PTZ00166 725 DIQEAMDLGKEAAERISKKFlKPIKLEFEKVYcpyllmnkKRYAGLLYT-------NPE-KYDKIDCKGIETVRRDNCLL 796
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1052 AKETGTAVVDKIL-DASLTRD-EMV-SSIDDLLREiraKLDsgtvpLEMFQISKQLTRNpeQYAdvKAQCHAAVAQRLNK 1128
Cdd:PTZ00166 797 VQQMVETVLNKILiEKDVESAiEFTkGKISDLLQN---RID-----ISLLVITKSLGKD--DYE--GRLAHVELAKKLRQ 864
|
730 740 750 760 770 780 790
....*....|....*....|....*....|....*....|....*....|....*....|....*....|.
gi 392896659 1129 --SGKF-NLrhNDIVEYVICEdGTDNpatQRAYHRTE----MAENSaLKIDLLYYLaQQIHPVVSRLVEPI 1192
Cdd:PTZ00166 865 rdPGSApNV--GDRVSYVIVK-GAKG---APQYERAEdplyVLENN-IPIDTQYYL-DQIKNPLLRIFEGV 927
|
|
| zf-DNA_Pol |
pfam08996 |
DNA Polymerase alpha zinc finger; The DNA Polymerase alpha zinc finger domain adopts an ... |
1232-1421 |
2.30e-49 |
|
DNA Polymerase alpha zinc finger; The DNA Polymerase alpha zinc finger domain adopts an alpha-helix-like structure, followed by three turns, all of which involve proline. The resulting motif is a helix-turn-helix motif, in contrast to other zinc finger domains, which show anti-parallel sheet and helix conformation. Zinc binding occurs due to the presence of four cysteine residues positioned to bind the metal centre in a tetrahedral coordination geometry. Function of this domain is uncertain: it has been proposed that the zinc finger motif may be an essential part of the DNA binding domain.
Pssm-ID: 462651 Cd Length: 184 Bit Score: 173.56 E-value: 2.30e-49
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1232 QENYDLCEGIHVICPldGCGHSNVIRETFDCvTDASSPRLLFSGCAQCQGSWdlqeHQAVIGNQVDRQMSEFVARHHLAA 1311
Cdd:pfam08996 6 EERFKDCEPLELRCP--SCGTEFEFEGVFAS-ADGYSVTPSGLRCPNCDASL----SPASLVNQLELQIRAHISRYYEGW 78
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1312 FKCDEPTCEFKTRVQTMKWCRegleCIR--CsTGVLRREYTSKQLFDQQMFFRTILDVDAAVRKLSDAQKKAAKVRVEYN 1389
Cdd:pfam08996 79 LVCDDPTCGNRTRQMSVYGKR----CLGpgC-KGRMRYEYSDKQLYNQLLYFASLFDVDKAKKKLLKSEESREKVLALAE 153
|
170 180 190
....*....|....*....|....*....|..
gi 392896659 1390 GCKIDSMMLADRInEKYLEKNAYNRVDLSYIF 1421
Cdd:pfam08996 154 QNRELFKTLKSVV-DKYLDKCGRRWVNLSSLF 184
|
|
| POLBc_Pol_II |
cd05537 |
DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, ... |
819-1185 |
7.36e-45 |
|
DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proven by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Pssm-ID: 99920 Cd Length: 371 Bit Score: 167.06 E-value: 7.36e-45
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 819 GGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNI-CYTTLEYSKDSDEQLSVPQSTDI-----EGVLPREIRKLVEcrrd 892
Cdd:cd05537 5 GGYVMDSKPGLYKN-VLVLDFKSLYPSIIRTFLIdPLGLIEGLKAPDPEDLIPGFLGArfsreKHILPDLIARLWA---- 79
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 893 vkslmksERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDS 972
Cdd:cd05537 80 -------ARDEAKREKNAPLSQAIKIIMNSFYGVLGSTGCRFFDPRLASSITLRGHEIMKQTRAWIEQQGYQVIYGDTDS 152
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 973 IMINTNS-VDLVAAKKLGNEIKKAVNK--CHRL---------LELDLDGVFKR--MlllkkkkyaaLTINPDTKVEAK-- 1036
Cdd:cd05537 153 TFVWLGEeLDAAEAQAIGKELASQINQwwAQKLkeefglesfLEIEFETHYSRffM----------PTIRGSDEGSKKry 222
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1037 ------------ELKGLDIVRRDWSQLAKETGTAVVDKILdasltRDEMVSS-IDDLLREIRA-KLDSGTVplemfqISK 1102
Cdd:cd05537 223 aglkstdggdelVFKGLETVRSDWTPLARQFQKELYERVF-----NDEPYEGfIKETVEELLAgELDELLV------YRK 291
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1103 QLTRNPEQYAD-----VKAqchAAVAQRLNKSGKFNLRHnDIVEYVICEDGtdnpatqrayhrTEMAENSALKIDLLYYL 1177
Cdd:cd05537 292 RLRRPLSEYTKnvpphVQA---ARLADQINRELGRPRQY-QWIEYVITVNG------------PEPLEYRTSPLDYQHYI 355
|
....*...
gi 392896659 1178 AQQIHPVV 1185
Cdd:cd05537 356 DKQLKPIA 363
|
|
| POLBc_zeta |
cd05534 |
DNA polymerase type-B zeta subfamily catalytic domain. DNA polymerase (Pol) zeta is a member ... |
821-1192 |
9.77e-39 |
|
DNA polymerase type-B zeta subfamily catalytic domain. DNA polymerase (Pol) zeta is a member of the eukaryotic B-family of DNA polymerases and distantly related to DNA Pol delta. Pol zeta plays a major role in translesion replication and the production of either spontaneous or induced mutations. Apart from its role in translesion replication, Pol zeta also appears to be involved in somatic hypermutability in B lymphocytes, an important element for the production of high affinity antibodies in response to an antigen.
Pssm-ID: 99917 Cd Length: 451 Bit Score: 151.21 E-value: 9.77e-39
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 821 LVLEPKKGLYETLILLLDFNSLYPSIIQEYNICYTT-------------------LEYSKDSDEQLSVpQSTDI------ 875
Cdd:cd05534 40 LVMEPESGFYSDPVIVLDFQSLYPSIMIAYNYCYSTclgrveelngggkfgflgvKLYLPPPPLDLLL-LKDDVtispng 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 876 ---------EGVLPREIRKLVECRRDVKSLMKSERNEAK-KKQMDIRQMALKLTANSMYGCLGFQYS-RFYAKPLAALVT 944
Cdd:cd05534 119 vmfvkksvrKGILPKMLEEILDTRIMVKKAMKKYKDDKKlQRILDARQLALKLLANVTYGYTAASFSgRMPCVEIADSIV 198
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 945 AKGREILMHSKDLVE---KMGYSVVYGDTDSIMINTNSVDLVAAKKLGNEIKKAVNKCH-RLLELDLDGVF--------K 1012
Cdd:cd05534 199 QTGRETLERAIELIEstpKWGAKVVYGDTDSLFVLLPGRTKEEAFKIGKEIAEAVTAANpSPIKLKFEKVYhpcvlvtkK 278
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1013 RMLLLKKkkyaaltINPDTKVEAKELKGLDIVRRDwsqlaketGTAVVDKILDASL-----TRDemVSSIDDLLREIRAK 1087
Cdd:cd05534 279 RYVGYKY-------ESPDQTEPTFDAKGIETVRRD--------GCPAVQKILEKSLrilfeTKD--LSTVKSYLQRQWSK 341
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1088 LDSGTVPLEMFQISKQLtRNPEQYADVKAQCHAAVA-QRLNKSGKFNLRHNDIVEYVICEDGTDNPATQRAYHRTEMAEN 1166
Cdd:cd05534 342 LLQGRVSIQDFIFAKEV-RLGTYKEGATLPAGAIVAlRRMEKDPRAEPQYGERVPYVVVRGEPGSRLIDLVVSPEEFLAD 420
|
410 420
....*....|....*....|....*.
gi 392896659 1167 SALKIDLLYYLAQQIHPVVSRLVEPI 1192
Cdd:cd05534 421 PSLRLDAEYYITKQIIPALDRLFNLV 446
|
|
| POLBc_B1 |
cd05530 |
DNA polymerase type-B B1 subfamily catalytic domain. Archaeal proteins that are involved in ... |
813-1143 |
2.42e-37 |
|
DNA polymerase type-B B1 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases.
Pssm-ID: 99913 Cd Length: 372 Bit Score: 145.19 E-value: 2.42e-37
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 813 GKaQYSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICYTTLEYSKDSDEQLSVPQS-----TDIEGVLPREIRKLV 887
Cdd:cd05530 10 GK-KYRGAIVLEPPPGIFFN-VVVLDFASLYPSIIKVWNLSYETVNCPHCECKTNEVPEVghwvcKKRPGITSQIIGLLR 87
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 888 ECRRDV-KSLMKSER-NEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSV 965
Cdd:cd05530 88 DLRVKIyKKKAKDKSlDEEMRQWYDVVQSAMKVFINASYGVFGAENFPLYCPPVAESTTALGRYIITSTIKKARELGLKV 167
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 966 VYGDTDSIMINTNSVDLVaakklgNEIKKAVNKCHRlLELDLDGVFkRMLLLKKKKYAALTINPDTKVeakELKGLDIVR 1045
Cdd:cd05530 168 LYGDTDSLFLWNPPQEQL------EDLVEWVEKELG-LDLELDKEY-RYVVFSGLKKNYLGVTKDGSV---DIKGLLGKK 236
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1046 RDWSQLAKETGTAVVDkILDASLTRDEMVSS---IDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQYADVKAQcHAAV 1122
Cdd:cd05530 237 RNTPEFVKELFYEVIE-ILSAVNSPEDFEKArekIRDIVKGVYKRLKKKEYTLDQLAFKVMLSKPPEEYTKNTPQ-HVKA 314
|
330 340
....*....|....*....|.
gi 392896659 1123 AQRLNKSGKfNLRHNDIVEYV 1143
Cdd:cd05530 315 ARQLEKYGR-NVEAGDIISYV 334
|
|
| PRK05761 |
PRK05761 |
DNA-directed DNA polymerase I; |
813-1143 |
2.89e-34 |
|
DNA-directed DNA polymerase I;
Pssm-ID: 235594 [Multi-domain] Cd Length: 787 Bit Score: 142.52 E-value: 2.89e-34
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 813 GKAqYSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICYTTLEYSKDSDEQLSVPQSTD-------------IEGVL 879
Cdd:PRK05761 404 GKK-YRGGLVFQPPPGIFFN-VYVLDFASLYPSIIVKWNLSPETVRIPECKCHYDDEVPELGhsvcddrpgltsvLVGLL 481
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 880 pREIRKLVecrrdVKSLMKSERNEAKKKQM-DIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLV 958
Cdd:PRK05761 482 -RDFRVKI-----YKKKAKDPNLDEERRAWyDVVQRALKVFLNASYGVFGAENFKLYRIEVAESITALGREILLSTKKKA 555
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 959 EKMGYSVVYGDTDSIMINTNSVDlvAAKKLGNEIKKAVNkchrlLELDLDGVFK-------------RMlllkkkkyaal 1025
Cdd:PRK05761 556 EELGLKVLYGDTDSLFVWGPTKE--SLEELIKEIEERTG-----IDLEVDKTYDwvafsglkknyfgVL----------- 617
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1026 tinPDTKVeakELKGLDIVRRDWSQLAKETGTAVVDkILDASLTRDEMVSSID---DLLREIRAKLDSGTVPLEMFQISK 1102
Cdd:PRK05761 618 ---KDGKV---KIKGIVAKKRNTPEFVKELQREVLE-VLKSIRSPEDVEKVKDeieDVLKRYYEKLRAKDYPLDELAIRV 690
|
330 340 350 360
....*....|....*....|....*....|....*....|.
gi 392896659 1103 QLTRNPEQYaDVKAQCHAAVAQRLNKSGKfNLRHNDIVEYV 1143
Cdd:PRK05761 691 RLSKPLDEY-TKNTPQHVKAALQLRDYGV-EVSPGDIISYV 729
|
|
| POLBc_B2 |
cd05531 |
DNA polymerase type-B B2 subfamily catalytic domain. Archaeal proteins that are involved in ... |
819-1199 |
2.62e-28 |
|
DNA polymerase type-B B2 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases.
Pssm-ID: 99914 Cd Length: 352 Bit Score: 118.21 E-value: 2.62e-28
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 819 GGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICYTTLE---YSKDSDEQLSVPQSTDIEGVLPREIRKLVECRRDVKS 895
Cdd:cd05531 7 GGLVFQPEPGLYEN-VAQIDFSSMYPSIIVKYNISPETINcrcCECRDHVYLGHRICLKRRGFLPEVLEPLLERRLEYKR 85
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 896 LMKSERNEAKkkqmdiRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDSIMI 975
Cdd:cd05531 86 LKKEEDPYAG------RQKALKWILVTSFGYLGYKNAKFGRIEVHEAITAYGRKILLRAKEIAEEMGFRVLHGIVDSLWI 159
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 976 NTNSVDLVAAKKLGNEIKkavnkchrlLELDLDGVFK-------RMLLLKKKKYAALTINPDTKVeakelKGLDIVRRDW 1048
Cdd:cd05531 160 QGRGDIEELAREIEERTG---------IPLKLEGHYDwivflpeRDGLGAPNRYFGRLSDGEMKV-----RGIELRRRDT 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1049 SQLAKETGTAVVDkILDASLTRDE---MVSSIDDLLREIRAKLDSGtvPLEMFQISKQLTRNPEQYadvkaQCHAAVAQR 1125
Cdd:cd05531 226 PPFVKKFQEEALD-ILASAKTPEEllkLREEALDLFRRYLQRLREG--DLEDLIIEKKISKRSSEY-----KVLASTALK 297
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....
gi 392896659 1126 LNKSGKFNLRHNDIVEYVICEDgtdnpatqraYHRTEMAENsALKIDLLYYLAQqihpvvsrLVEPIEETDAVR 1199
Cdd:cd05531 298 ALRAKGVSVVPGMKIEYIVRDG----------KRPVPDLGN-DEGYDTKYYREL--------LERAAEELLFPL 352
|
|
| DNA_pol_B_exo1 |
pfam03104 |
DNA polymerase family B, exonuclease domain; This domain has 3' to 5' exonuclease activity and ... |
358-696 |
4.24e-24 |
|
DNA polymerase family B, exonuclease domain; This domain has 3' to 5' exonuclease activity and adopts a ribonuclease H type fold.
Pssm-ID: 397292 Cd Length: 333 Bit Score: 105.19 E-value: 4.24e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 358 ETCSIVVKNICRKVYFMPRtknlstgEESSLAELHKEIGDVlrnkfntHEFKCKMVEKELIRDES-FGYGcGTKSPLMEV 436
Cdd:pfam03104 6 VSVCVNVFGFKPYFYCLAP-------DGKELEEVIEEIKEL-------YEGLDKIEKIELKLKKSlYGYE-EDPVPYLKV 70
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 437 L--YPAEKGKLPSDLKGDTFSNTFNTSVTPLERLLIEKKFMGPGWIELYNYSDPKAKT-SNCKYEFEVDMEKmrNIKYLE 513
Cdd:pfam03104 71 SfaNPRPLLKIRKYLSPENISDVYEYDVDYLERFLIDNDIVGFGWYKVKVYPFRAEGRiSNCDVEIDCDSPD--LISVPF 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 514 SSDAPPPTIklLALNVVTTLNDRK-------DNEICMISMLFNpkcdlahpSGDSKDLKPK---CLVTKPPGGSLPYDIQ 583
Cdd:pfam03104 149 EKEWPPLRV--LSFDIECTSLPGKfpdaenvKDPIIQISCMLD--------GQGEPEPEPRflfTLRECDSEDIEDFEYT 218
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 584 KRLETEKLSkfVKSVANEKALLTLFLAMINEDEPDMIVGHDL-SATIALLVSRLEKLKLPNWSRISRLKRS--INIGKIG 660
Cdd:pfam03104 219 PKPIYPGVK--VFEFPSEKELLRRFFEFIRQYDPDIITGYNGdNFDWPYILNRAKELYIVKLSSIGRLNRGgrSKVREIG 296
|
330 340 350
....*....|....*....|....*....|....*..
gi 392896659 661 HSKSGQWEL-TAGRMMLDSKLAAMELVKSRSFDLTEL 696
Cdd:pfam03104 297 FGTRSYEKVkISGRLHLDLYRVIKRDYKLPSYKLNAV 333
|
|
| PHA03036 |
PHA03036 |
DNA polymerase; Provisional |
809-1107 |
8.30e-23 |
|
DNA polymerase; Provisional
Pssm-ID: 222962 [Multi-domain] Cd Length: 1004 Bit Score: 106.26 E-value: 8.30e-23
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 809 EKKSgKAQYSGGLVLEPKKGLYETLILLLDFNSLYPSIIQEYN------IC-------------------------YTTL 857
Cdd:PHA03036 523 ETKN-KFPYEGGKVFAPKQKMFDNNVLIFDYNSLYPNVCIFGNlspetlVGvvvndnrleaeinkqelrrkypyprYIYV 601
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 858 EYSKDSDEQLSVPQSTD--IEGVLPREIRKLVECRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFY 935
Cdd:PHA03036 602 HCEPRSPDLVSEIAVFDrrIEGIIPKLLKTFLEERARYKKLLKEATSSVEKAIYDSMQYTYKIVANSVYGLMGFRNSALY 681
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 936 AKPLAALVTAKGREILMHSKDLV--------------------------------------EKMGYSVVYGDTDSIMINT 977
Cdd:PHA03036 682 SYASAKSCTAIGRNMIKYLNSVLngsklingklilancpinpffkddrsidtnydtnlpveYNFTFRSVYGDTDSVFLEI 761
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 978 NSVDLVAAKKLGNEIKKAVNK--CHRLLELDLDGVFKRMLLLKKKKYAALTINP---DTKVEAKELKGLDIVRRDWSQLA 1052
Cdd:PHA03036 762 NTKDVDKSIKIAKELERIINEkvLFDNFKIEFEAVYKNLIMQSKKKYTTLKYIAsstDGSVPERVNKGTSETRRDVSKFH 841
|
330 340 350 360 370 380
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 392896659 1053 KETGTAVVDKILDaSLTRDEMVSS------IDDLLREIRAKLDSGTVPLEMFQISKQLTRN 1107
Cdd:PHA03036 842 KYMIKIYKTRLLD-MLSEGNMNSNqvcidiLRSLEKDLIIEFDSRSAPLEMFLLSRTHHCN 901
|
|
| DNA_pol_alpha_N |
pfam12254 |
DNA polymerase alpha subunit p180 N terminal; This domain family is found in eukaryotes, and ... |
33-89 |
2.92e-19 |
|
DNA polymerase alpha subunit p180 N terminal; This domain family is found in eukaryotes, and is approximately 70 amino acids in length. The family is found in association with pfam00136, pfam08996, pfam03104. This family is the N terminal of DNA polymerase alpha subunit p180 protein. The N terminal contains the catalytic region of the alpha subunit.
Pssm-ID: 463508 Cd Length: 65 Bit Score: 82.99 E-value: 2.92e-19
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 392896659 33 EQLKLARSTGKAYRPEL---DVEDVYDTVDDDEYEKIVAKR-QKDNFIVDDDGMGYVDNGV 89
Cdd:pfam12254 2 EKLKAARAGGKRRLDEYeseEDEDIYDEVDEEEYRKIVRKRlLDDDFVVDDDGEGYVDDGR 62
|
|
| POLBc_Pol_II_B |
cd05538 |
DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, ... |
816-1154 |
3.28e-17 |
|
DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proved by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Pssm-ID: 99921 Cd Length: 347 Bit Score: 84.85 E-value: 3.28e-17
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 816 QYSGGLVLEPKKGLYETlILLLDFNSLYPSIIQEYNICyttleyskdsdeqlsvPQStDIEGVLPREIRKLVECRRDVKS 895
Cdd:cd05538 2 KFEGGYAYVFITGVLGP-IVHADVASLYPSIMLAYRIC----------------PAR-DSLGIFLALLKYLVELRLAAKE 63
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 896 LMKSERNEAKKKQMDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKGREILMHSKDLVEKMGYSVVYGDTDSI-M 974
Cdd:cd05538 64 SARAAARPAERDAFKAKQAAFKVLINSFYGYLGTGLHAFSDPEAAAEVTRLGRELLKLMIRWLRRRGATPVEVDTDGIyF 143
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 975 INTNSVDLVaakklgNEIKKAVNKCHRLL----ELDLDGVFKRMLLLKKKKYAAltINPDTKVeakELKGLDIVRRDWSQ 1050
Cdd:cd05538 144 IPPNGVDTE------DEEEELVRELSSTLpkgiTVEFDGRYRAMFSYKIKNYAL--LDYDGKL---IVKGSAFRSRGIEP 212
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 1051 LAKETGTAVVDKILDASltrdemVSSIDDLLREIRAKLDSGTVPLEMFQISKQLTRNPEQY-ADVKA-QCHAAVAQRLNK 1128
Cdd:cd05538 213 FLREFLREAVRLLLQGD------GAGVHDLYEDYLRRLRSHELPISDLARTETLKESPEEYlQKVRAgKRNPAAAYEIAL 286
|
330 340
....*....|....*....|....*.
gi 392896659 1129 SGKFNLRHNDIVEYVIceDGTDNPAT 1154
Cdd:cd05538 287 ARPREWRAGDRVTYYV--SGTGKGVS 310
|
|
| 43 |
PHA02528 |
DNA polymerase; Provisional |
809-989 |
2.38e-15 |
|
DNA polymerase; Provisional
Pssm-ID: 177369 [Multi-domain] Cd Length: 881 Bit Score: 81.66 E-value: 2.38e-15
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 809 EKKSGKAQ-YSGGLVLEPKKGLYEtLILLLDFNSLYPSIIQEYNICYTTL---------------EYSKDSDEQLSVPQS 872
Cdd:PHA02528 368 ENKSHKKQkYAGAFVKEPVPGAYR-WVVSFDLTSLYPSIIRQVNISPETIagtfhvapvheyinkTAPRPSDEYSCSPNG 446
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 873 T----DIEGVLPREIRKLVECRRDVKSLM-KSERN-EAKKKQMDIR---------------------------------- 912
Cdd:PHA02528 447 WmyrkDIRGVIPTEIKKVFDQRKIYKKKMlAAERNaELIKTILEDLndsvdtpidvdyyfdfsdefkaelktltksslka 526
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 913 ---------------QMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKG--------REILMHSKDLVEKMGYS-VVYG 968
Cdd:PHA02528 527 lleecekeialcntiQMARKILINSLYGALGNEHFRYYDLRNAEAITLFGqlaiqwieRKMNEYLNKLCKTEDEDyVIYG 606
|
250 260
....*....|....*....|..
gi 392896659 969 DTDSIMINTNS-VDLVAAKKLG 989
Cdd:PHA02528 607 DTDSIYVNLDPlVEKVGEDKFK 628
|
|
| DEDDy_DNA_polB_exo |
cd05160 |
DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; The 3'-5' exonuclease domain of ... |
595-740 |
4.33e-08 |
|
DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; The 3'-5' exonuclease domain of family-B DNA polymerases. This domain has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members include Escherichia coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative DNA polymerases (alpha, delta, epsilon and zeta), and eukaryotic viral and plasmid-borne enzymes. Nuclear DNA polymerases alpha and zeta lack the four conserved acidic metal-binding residues. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Pssm-ID: 176646 [Multi-domain] Cd Length: 199 Bit Score: 55.05 E-value: 4.33e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 595 VKSVANEKALLTLFLAMINEDEPDMIVGHDL-SATIALLVSRLEKLKLPNWSRISRL-KRSINIGKIGHSKsgqwelTAG 672
Cdd:cd05160 57 VEYFADEKELLKRFFDIIREYDPDILTGYNIdDFDLPYLLKRAEALGIKLTDGIYRRsGGEKSSGSTERIA------VKG 130
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 392896659 673 RMMLDSKLAAMELVKSRSFDLTELSQQILGAERREIYANEIPQLYvDSKDLISLINWSWNDLLLSLRI 740
Cdd:cd05160 131 RVVFDLLAAYKRDFKLKSYTLDAVAEELLGEGKEKVDGEIIEDAE-WEEDPERLIEYNLKDAELTLQI 197
|
|
| PHA03334 |
PHA03334 |
putative DNA polymerase catalytic subunit; Provisional |
819-974 |
5.87e-08 |
|
putative DNA polymerase catalytic subunit; Provisional
Pssm-ID: 223049 [Multi-domain] Cd Length: 1545 Bit Score: 57.94 E-value: 5.87e-08
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 819 GGLVLEPKKGL-----YETLILLLDFNSLYPSIIQEYNIC---------------YTTLEYSK----------------- 861
Cdd:PHA03334 635 GGYVFAPLTGLtfagpYQGTELTLDFASLYPSNMCDANISpeaivdpdctarvrgWVVFDWKKidrgfgkatlmytilrt 714
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 862 DSDEQLSVPQSTDIEGVLPREIRklveCRRDVKSLMKSERNEAKKKQMDIRQMALKLTANSMYGclgfqysrfyAKPLAA 941
Cdd:PHA03334 715 KPEEPSWRRFTTYTTSSLNHYLS----MRTEYKGAMKQAKDPKLKSYHNQLQNEMKICANSHYG----------VAPHAC 780
|
170 180 190
....*....|....*....|....*....|....*.
gi 392896659 942 --LVTAKGREILMHSKDLVEKM-GYSVVYGDTDSIM 974
Cdd:PHA03334 781 qhLITTLGRHKIKLVEEFIKKEpGMTVNYGDTDSVM 816
|
|
| DNA_polB_Kod1_like_exo |
cd05780 |
DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B ... |
581-740 |
2.74e-06 |
|
DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases; The 3'-5' exonuclease domain of archaeal family-B DNA polymerases with similarity to Pyrococcus kodakaraensis Kod1, including polymerases from Desulfurococcus (D. Tok Pol) and Thermococcus gorgonarius (Tgo Pol). Kod1, D. Tok Pol, and Tgo Pol are thermostable enzymes that exhibit both polymerase and 3'-5' exonuclease activities. They are family-B DNA polymerases. Their amino termini harbor a DEDDy-type DnaQ-like 3'-5' exonuclease domain that contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members of this subfamily show similarity to eukaryotic DNA polymerases involved in DNA replication. Some archaea possess multiple family-B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family-B DNA polymerases support independent gene duplications during the evolution of archaeal and eukaryotic family-B DNA polymerases.
Pssm-ID: 99823 [Multi-domain] Cd Length: 195 Bit Score: 49.66 E-value: 2.74e-06
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 581 DIQKRLETEKLSK-FVKSVANEKALLTLFLAMINEDEPDMIVGH-----DLsatiALLVSRLEKLKLPnwSRISRLKRSI 654
Cdd:cd05780 35 GGNKVITWKKFDLpFVEVVKTEKEMIKRFIEIVKEKDPDVIYTYngdnfDF----PYLKKRAEKLGIE--LDLGRDGSEI 108
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 655 NIGKIGHSKSGqweLTAGRMMLDSKLAAMELVKSRSFDLTELSQQILGAERREIYANEIPQLYVDSKDLISLINWSWNDL 734
Cdd:cd05780 109 KIQRGGFNNAS---EIKGRIHVDLYPVARRTLNLTRYTLERVYEELFGIEKEDVPGEEIAEAWDSGENLERLFRYSMEDA 185
|
....*.
gi 392896659 735 LLSLRI 740
Cdd:cd05780 186 KYTYEI 191
|
|
| DNA_polB_II_exo |
cd05784 |
DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial ... |
598-702 |
1.95e-04 |
|
DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; The 3'-5' exonuclease domain of Escherichia coli DNA polymerase II (Pol II) and similar bacterial proteins. Pol II is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain has a fundamental role in the proofreading activity of polII. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Pol II is involved in a variety of cellular activities, such as the repair of DNA damaged by UV irradiation or oxidation. It plays a pivotal role in replication-restart, a process that bypasses DNA damage in an error-free manner. Pol II is also involved in lagging strand synthesis.
Pssm-ID: 99827 [Multi-domain] Cd Length: 193 Bit Score: 44.10 E-value: 1.95e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 598 VANEKALLTLFLAMINEDEPDMIVG-----HDLsatiALLVSRLEKLKLPnwSRISRLKRSINIGKigHSKSGQWELT-A 671
Cdd:cd05784 48 FADEKSLLLALIAWFAQYDPDIIIGwnvinFDL----RLLQRRAEAHGLP--LRLGRGGSPLNWRQ--SGKPGQGFLSlP 119
|
90 100 110
....*....|....*....|....*....|....*.
gi 392896659 672 GRMMLDsklaAMELVKS-----RSFDLTELSQQILG 702
Cdd:cd05784 120 GRVVLD----GIDALKTatyhfESFSLENVAQELLG 151
|
|
| DNA_polB_delta_exo |
cd05777 |
DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase; ... |
595-716 |
7.25e-04 |
|
DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase; The 3'-5' exonuclease domain of eukaryotic DNA polymerase delta. DNA polymerase delta is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand. It is also implicated in mismatch repair (MMR) and base excision repair (BER). The catalytic subunit displays both polymerase and 3'-5' exonuclease activities. The exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues necessary for metal binding and catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation.
Pssm-ID: 99820 [Multi-domain] Cd Length: 230 Bit Score: 42.95 E-value: 7.25e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 595 VKSVANEKALLTLFLAMINEDEPDMIVGHDLSA-TIALLVSRLEKLKLPNWSRISRLKRSINIGKIGHSKS---GQWELT 670
Cdd:cd05777 65 VFSFETEEELLLAWRDFVQEVDPDIITGYNICNfDLPYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSkqmGTRETK 144
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|....
gi 392896659 671 ----AGRMMLDsklaAMELV----KSRSFDLTELSQQILGAERREIYANEIPQL 716
Cdd:cd05777 145 einiEGRIQFD----LLQVIqrdyKLRSYSLNSVSAHFLGEQKEDVHYSIITDL 194
|
|
| 43B |
PHA02523 |
DNA polymerase subunit B; Provisional |
894-1011 |
4.89e-03 |
|
DNA polymerase subunit B; Provisional
Pssm-ID: 164924 Cd Length: 391 Bit Score: 40.85 E-value: 4.89e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 392896659 894 KSLMKSERNEAKKkqmDIRQMALKLTANSMYGCLGFQYSRFYAKPLAALVTAKG--------REILMHSKDLVEKMGYS- 964
Cdd:PHA02523 27 QMIARCEKEEQKR---NTNQLNRKILINSLYGALGNNWFRYFDLRNAEAITTYGqlairwieRKLNEYINELVKTTGVDy 103
|
90 100 110 120 130 140 150
....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 392896659 965 VVYGDTDSIMINTNSV-------------------DLVAAKKLG-------NEIKKAVNKCHRLLELDLDGVF 1011
Cdd:PHA02523 104 VCYIDTDSVYLNMEAVvnrvgidkfrdtnhlidflDNLGSKKLEpfiddsyKELEEYMNHDHHLLLMDREAIF 176
|
|
|