Conserved Protein Domain Family
POLBc_B2

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cd05531: POLBc_B2 
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.
Statistics
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PSSM-Id: 99914
View PSSM: cd05531
Aligned: 15 rows
Threshold Bit Score: 381.691
Threshold Setting Gi: 14424453
Created: 25-Jul-2007
Updated: 17-Jan-2013
Structure
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Aligned Rows:
 
metal-bindingactive site
Feature 1:metal-binding site
Evidence:

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 13541876  270 LIKRDRGGLVFQPV---PGIYRDVYEIDFSSMYPSIIVKYNLSPGNV--------------------------KFLPEAL 320
gi 183221542 356 LLNADKGGLVFQADiqnGFVLENVAQLDFSQMYPNIMVKHNISPETInclcceddpnvekvpslgyricakrkGIVSEAL 435
gi 124515762 356 LLETDKGGMVFLPP---PGFHESVAELDFASMYPSLMVRFNISPETVgcsccpgsrap----gtrhtictrrsGFIPEVL 428
gi 177657139 336 LIKIDKGGLTLKPL---VGLFENVAEYDFFSMYPSIITNYNLSYETInckhpeckktlp---ytnyrictkkiGIVPQTL 409
gi 14424453  320 IMMVDKGGLILFPQ---PGCYDNVYQVDFSSMYPSLIVKHNISAETVeacddikte--------lhsiclkekGIIPEAL 388
gi 118431787 281 LVESDMPGAARLPE---PGVYWGVVQLDYSSLYPRLIAMYNISAETVdtpcgntldpap--gygghrvcmdrrGLVPEVL 355
gi 146304209 257 LLLNDKGGLVLFPR---TGCFDDAWQVDFSSMYPSLIVKHNISGETVdacddvvtei-------ghticnserGIVPEAL 326
gi 154150796 314 LQAADRGGLMFQPV---PGTYESVDEIDFTSLYPTIIVNENLSPETLghn--------------------drpGFLPAVL 370
gi 16120259  319 LHDADRGGFIFAPE---VGLHENVHELDFSSLYPNIICTRNVSPDVIrcdchsdrddv----pglgysicddrGYLVDVL 391
gi 88602132  320 MRLDYRGGYILQPP---PGIFADVTQIDFTSFYPSIIVSENLSPETLndr--------------------tkpGFLSSVL 376
                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 13541876  321 NGLLERRLFYKRISASsevy-----------snrNAALKWLLLTSFGYTGYKNAKFGKIEVHEDITEIGRKLLADAISIA 389
gi 183221542 436 AHIVQRRNHYKEQKRNnhpnll-------niqskQSSLKWMLVTSFGYLGYRNAKFGKLESHEAVTAFGREKLINAKEVS 508
gi 124515762 429 APLLEKRQTYKDRLANrsvpdkk----tdpdnlrQKALKWLLVVSFGYLGYKNARFGRIEAHECVTAYGREVLLKAKEMA 504
gi 177657139 410 KWLLERRLKYKQLLKKeknqi---------ydnrQKALKWLLVVSFGYLGYKNAVFGRIESHEATTSIGRQLITFVKEIL 480
gi 14424453  389 QWLIERKSELKKIDEEr-----------------AEAIKWILVASFGYLGYRNSLFGKIEAYEMVTYLARKTLRRTMEIA 451
gi 118431787 356 GRLVDLREEARRRGAGe----------------eQEAIKWILVSGFGYLGFRNSLFGSIAAYETVTAAARRALAAAEEAA 419
gi 146304209 327 SWLIRRKEALKPVDPEr-----------------AEAIKWILVASFGYLGYRNSKFGKIEAYELVTYYARKTLRRALEIA 389
gi 154150796 371 DPVIGLRRTTKRQKKTdprl-----------rgpDAILKWMLVTCFGYTGYRNAKFGRIEVHEAITAASREILLRTKEIA 439
gi 16120259  392 QPIIDARDEIKAAIRRetdrddpdedrlaelegrSGALKWILVACFGYQGFSNAKFGRIECHEAINAFAREILLMAKQRL 471
gi 88602132  377 EPVITLRQHTKQMKKTdpsy-----------agmDGVLKWMLVTCFGYTGYKNARFGRIEVHEEITRAATRILKDCVKLT 445
                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                  # ##                                                                  
gi 13541876  390 HDHGFEMIHGIVDSLWISg--------------nGDIEEVIREIRERTMVDiv--vSGHYRWIVFLPENDg--SGSPSRY 451
gi 183221542 509 EEFQYKVVHGITDSIFIQkkdtt-------pitnEDLTFLCLEIEKRTKIKme--iEGIYSWLCFPPSTQdekLPVANRY 579
gi 124515762 505 EDRGFRVLHGIVDSLWLQkqg----------mtqDVCEELAREIGKETGIPln--lEGIYRWIGFFSSRTspsIAVPNRF 572
gi 177657139 481 EAKGFRVIHILTDSIWVYkhdytiddykkmeeylNKRINEKFIPVNPDGIPfkillEGVYDWIVFLPSKSn-sVGVSNRY 559
gi 14424453  452 EEMGLRVLHGIIDSLVVKg---------------DNVDKFIEKVEKETGLRl---dYKRYNWIIFTITRNn--TPYPTRY 511
gi 118431787 420 VEMGYRVIHSLVDSVFIQpve-----------prGPPGEVAREIERRTGVPvk--iEAEYKWLYIPPTLRg--HGAVNKY 484
gi 146304209 390 QEIGVEVLHGIVDSLVIR----------------GDAPQLVRRLEEETGLHl---rSTRLKWIVLGGRRDg--LPYPMRY 448
gi 154150796 440 EEMGFTVLHGIVDCLWVQg---------------NLPIETLRERIERETRYpi--dAEHFDWIVFLPLADg--FGAYNRY 500
gi 16120259  472 EAGGWRVVHGIVDSIWVTpdpdv------deedrEDLQTLATEITERVEIRle--hEAHYDWVAFVPQREs-dAGALTKY 542
gi 88602132  446 EAHGGKVLHAIIDCLFIR----------------GGHAGTIQEEIERMTTFht--eADTYDWVVFLPQSDg--SGSYCSY 505
                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 13541876  452 YGLdy-nGSYKVRGieLRRADAPEICKRFQVEALEVLREcrTVEDVMSSKAKIeaLEHRYIKNIrrfp--lnyfTISKKI 528
gi 183221542 580 MGRfi-dGQFKGRGiiTRRKDFPNFIKDAQNKMIQWMCQfkSISEMQKKESEIlnLFFYYDQKLttgnlnwkdlVIQKST 658
gi 124515762 573 LGVfe-tGEIKVRGleIRRKDAPPFVRKVQQRMLDILAQaeNMEEYRRLIPKArnVVEEALEVLsegrvplsqlVFRKTL 651
gi 177657139 560 FGKfs-nGEFKFRGidLRRRDVPEFIKNFQLEVFEHLGKakNKTEFLKLIKDIdeIFDKHKQKLmegdfslkdlIIKKKV 638
gi 14424453  512 IANm--nGEMIAKG--LIRENMPNIVKSFLEDVLREFSSakTCSDVKKLRIRD--LFEHYRKRA----------INGEPI 575
gi 118431787 485 YGAle-sGGVKLKGiaAVRRDTPEIVREAQASAIARLAEarHPGEWPGAVERAwkVVDGYMRLLregeppveklVIEKRV 563
gi 146304209 449 FGMt--eEGMKYKG--IIRRNMPNLVRDFLESSMNILSRaeTCEDLKRLRSNLleNLREYEERVi---------HGEPRD 515
gi 154150796 501 YGKls-dGHIRVRGiaARRHDTPPFIKEVQCRMLGVMKRaaTIAELEETKEEAeqIFREAILALpaad--pqqmAIGRRI 577
gi 16120259  543 FGKvagdDDFKVRGieARQRSTPPFIEDVQRDCLDRLDAtrSPDAVLGRLERAidELQAGNVAVerlv---ernRVSKPL 619
gi 88602132  506 FGRlk-tGKMKVKGvsTNRRTTPPYVVRMQNEMFDILGTyqEIDGIPDARDTLysVYRRYLDTMnhad--lrdfIITRRI 582
                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
Feature 1                                                                                        
gi 13541876  529 trhsseysvntvtr-salkaaetfgkvsLGQIIKYTVSDESrkivn--------ldddGTIDYRYYERCl-rRAFQPFDF 598
gi 183221542 659 skepedytvdapstiavkdllamgvhvqAGEKIKYIVINQKsdk------------kgERYLTLERMEQk-eNPKKQIDD 725
gi 124515762 652 srspaeferatitaivsrellgrgvrlaAGETVHYVLTDVRnrdpaerarawpvhtpdVTYDRKKYRELi-lRAAEPLLN 730
gi 177657139 639 skdsssyqkrtdlsevagtllkegfnlnPGESVNIIYILDKyikampl---eiyltnpKPINIEKYLKMleeSKIGLLPK 715
gi 14424453  576 dyviwi----------------kdvpyvRGIKGFYEARLGY-----------------MGRDVNYYINYl-kRVYEDVEE 621
gi 118431787 564 dpgssrntpw---------rrawlkspvQTPTVKYVVAGGGrphpv-------wlgppGSIDRQYYMKLl-eRAAGELPK 626
gi 146304209 516 fvmwvk-----------------gepyvRGVRGFYNARRGF-----------------MGRDTKYYLEYl-rRTAREVLG 560
gi 154150796 578 srlvyrhrclega--avqayrdqgielsPGMQIRYVVEDARhyrvv-------pagsaISFDTAFYRTLl-eRAGEEILA 647
gi 16120259  620 egysqntqnvaa----lkrareqdlavhPGQDIEYVVVDDEkssrdrv---alaheaiETYDTSYYETQl-vRAVESVLS 691
gi 88602132  583 gkhtynkqciaqa--vldtykehhvtiePGMDASFLVRDEKrlivd-------pswdaQGIDTRYYKRLl-dKAYEEVVS 652

                 ..
Feature 1          
gi 13541876  599 IF 600
gi 183221542 726 KN 727
gi 124515762 731 PR 732
gi 177657139 716 KL 717
gi 14424453  622 VM 623
gi 118431787 627 PV 628
gi 146304209 561 IG 562
gi 154150796 648 AY 649
gi 16120259  692 PL 693
gi 88602132  653 ML 654

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