1Q8I


Conserved Protein Domain Family
POLBc_Pol_II

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cd05537: POLBc_Pol_II 
Click on image for an interactive view with Cn3D
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.
Statistics
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PSSM-Id: 99920
View PSSM: cd05537
Aligned: 17 rows
Threshold Bit Score: 569.977
Threshold Setting Gi: 162453773
Created: 11-Sep-2007
Updated: 2-Oct-2020
Structure
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Program:
Drawing:
Aligned Rows:
 
active sitemetal-binding
Conserved site includes 8 residues -Click on image for an interactive view with Cn3D
Feature 1:active site [active site]
Evidence:
  • Comment:Based on similarity to bacteriophage RB69 POLBc (1Q9Y)

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
Feature 1                             #  ###                                                    
1Q8I_A      397 HASPGGYVMDSRPGLYDSVLVLDYKSLYPSIVRTFLIDPVGLVEgmaqp----------------dpehsTEGFLDAWFS 460 Escherichia coli
ZP_01075839 393 IASPGGFVMSSKPGLYKNVLVFDFKSLYPSIIRTFLIDPFARVKpsd---------------------rrVEGFLGASYD 451 Unknown
ZP_01307445 398 FKAPGGLVLDSKPGLYKDVLVLDFKSLYPSIIRTFKIDPLGLIEglkaqqe-------------ghsedcIAGFHDAFFH 464 Oceanobacter sp....
ZP_01167632 395 LSAPGGYVMDSKPGLYRQVLVLDFKSLYPSIIRTFKIDPYGLAEglktsv---------------paddlIPGFNHAIFS 459 Neptuniibacter c...
YP_268993   413 LVSPGGYVMDSKPGLYKNVLVLDFKSLYPSIIRTFKIDPMGLIEglkavseqksahskseklsddcfddvIRGFDGAYFS 492 Colwellia psychr...
NP_717428   419 IESPGGYVMDSVPGFYQHILVFDFKSLYPSIIRTFLIDPKGLIEglgddsl------------vldesetVTGFLGARFS 486 Shewanella oneid...
YP_563431   437 IESPGGYVMDSVPGFYKDVLVLDFKSLYPSIIRTFLIDPKGLVTgmqer-----------------peqtVPGFLGASFS 499 Unknown
ZP_01132534 397 FNSPGGYVMNSQPGLYQNVIVLDFKSLYPSIIRTFLIDPIGMVEglla------------------ptqsIAGFHDAYFS 458 Pseudoalteromona...
YP_340489   425 FESPGGYVMESTPGLYKNVLVLDFKSLYPSIMRTFCIDPLGLIEglns------------------pekaVAGFNDALFS 486 Unknown
ZP_01114466 397 SSSPGGHVMDSTPGIYRDVIVLDFKSLYPSIIRTFLIDPMGLLEglnad-----------------eaesIPGFLGARFH 459 Unknown
Feature 1                       #               #   #                                           
1Q8I_A      461 RekhCLPEIVTNIWHGRDEAKRQGnkpLSQALKIIMNAFYGVLGTTaCRFFDPRLASSITMRGHQIMRQTKALIEAQ-GY 539 Escherichia coli
ZP_01075839 452 KdsgILPDLISELAQAREQAKQEDnqiLSYAIKIIMNSFYGVLGSNlCRFYHPELASSITMRGHQILNLTKAWFEEA-QA 530 Unknown
ZP_01307445 465 RekhFLPNIITQLWAERDLAKKRNdaaQSYAIKIIMNSFYGILGSTgCRFFDARLASSITERGHSIINQSATWIEQQ-GF 543 Oceanobacter sp....
ZP_01167632 460 RsktILPELIERLWAARDQAKQSSnsaLSQAIKIIMNSFYGVLGSNvCRFFDQRLSSSITLRGHEILIKTRDIIEEEfGF 539 Neptuniibacter c...
YP_268993   493 RtehFLPDIIKSLWLERDKAKLQKdaaLSQAIKIIMSSFYGVLGSTgCRFFDPRLSGSITKRSHEILKKTSVWIEKL-GY 571 Colwellia psychr...
NP_717428   487 RrqpILPKLIQTLSEQREKAKREAnapLSQAIKIIMNSLYGVLGSQgCVFHDAKLASSITMRGHQIMKQTRAWIEEM-GY 565 Shewanella oneid...
YP_563431   500 RespILPTLIASLAAQRELAKLDKnnpLSHAIKIIMNSLYGVLGSKgCVFHDAKLASSITMRGHEIMKQTRRWIEDL-GY 578 Unknown
ZP_01132534 459 RtahHLPNLIATLWQARDVAKQQKnkmLSQAIKIIMNSFYGVLGSTgCRFYDPRLSSSITLRGHEIMLATRAEIERL-GY 537 Pseudoalteromona...
YP_340489   487 RelhHLPKLIKHLTRTRQKAKDTNqpmLSQAIKIIMNSLYGVLGSKgCRFYDPRLSSSITLRGHEIMQTTRKWIEEL-GY 565 Unknown
ZP_01114466 460 RtrhILPGLIDQLWAARDQAKREQnapMSQAIKIIMNSFYGVLGSPlCRFFDPRLASSITMRGHDILQRSSEFIESQ-GY 538 Unknown
Feature 1              #                                                                        
1Q8I_A      540 DVIYGDTDSTFVWlkg------ahsEEEAAKIGRALVQHVNAWWAETLQKqrl-tsaLELEYETHFCRFLMPTIRGADt- 611 Escherichia coli
ZP_01075839 531 EVIYGDTDSLFVVfedp-----glsDAKIRDKGKQLCSEINQKWKTWCLQtyqvdcyLELEFERMYNRFFMPTIRGQAe- 604 Unknown
ZP_01307445 544 QVIYGDTDSVFVSlhtgngniidvdHSIAQQIGNQLSDGLNQYWRHKLQHefgldshLEIEFENHYGDFLMPTIRGSDk- 622 Oceanobacter sp....
ZP_01167632 540 KIIYGDTDSVFVWlgd------dfpESQADGKGSELASFLNKWWQDNLEErfqlksqLEIEYETHYCRFLMPTMRHSDk- 612 Neptuniibacter c...
YP_268993   572 QVIYGDTDSIFVSiga------ektKTQAKQLGAELRSYINDKWQNRLKRdfdiesqLDIEFETHFTKFLMPTIRGIHtv 645 Colwellia psychr...
NP_717428   566 QVIYGDTDSTFVHlgy------epdLSDISALGKQIAAQINANWQAKITKdfelesfLELQFERHYEQFFMPTLRGSEe- 638 Shewanella oneid...
YP_563431   579 QVIYGDTDSTFVWlge------nhdINNINEFGLNIARQITQQWQQKCAEefniesfLELEFETHYSQFVMPTLRGSEe- 651 Unknown
ZP_01132534 538 QVIYGDTDSTFVQlas------elsAEECKKIGFLLQKKINNFWCDYCEKkykiasyLEIEFETLYSPFFMPTIRGSLe- 610 Pseudoalteromona...
YP_340489   566 EVIYGDTDSIFVKvne------rlnATQCNEIGNDVMQVINKRWSDSIKTrfsltsyLEIEFETHYSPFFMPTIRGKKi- 638 Unknown
ZP_01114466 539 PVIYGDTDSLFIHar---------nHAEPKRLGRELADQLNEWWRSLLQEsyglasqLEMEFETHYSRFVMPTIRGTDk- 608 Unknown
Feature 1                                                                                       
1Q8I_A      612 ------GSKKRYAGLiqe-gdkQRMVFKGLETVRTDWTPLAQQFQQELYLRIFRne----pYQEYVRETIDKLMAGELDA 680 Escherichia coli
ZP_01075839 605 ------GSKKRYAGLa-----eGELIFKGLEAVRSDWTPFARHFQKALFEKLFNde----sPEAFIKEIVEALYQGKFNE 669 Unknown
ZP_01307445 623 ------GSKKRYAGLls----sGELVFKGLEAVRSDWTELAKHIQKELYRLVFEgk----dYHVFIQSTVQELLQGKWDH 688 Oceanobacter sp....
ZP_01167632 613 ------GTKKRYAGMkrsadgtDHMVFKGLENVRTDWTMLARKLQEQLYERVFLgq----eWKPLLKSTVESLLAGELDE 682 Neptuniibacter c...
YP_268993   646 kdqksiGTKKRYAGVs-----dGELVFKGLETVRSDWTDLSKDFQQELYRLIFNdq----pIEGYIKKIVDELKQGLHDE 716 Colwellia psychr...
NP_717428   639 ------GSKKRYVGAwrnvsgeLEITFKGMEQVRSDWSPLARKVQAELYERMFNqr----dISGYLADVIGELQAGKRDD 708 Shewanella oneid...
YP_563431   652 ------GSKKRYVGAkvneqgeMSLVFKGMEQVRSDWSPIARRIQYLLYEKLFTge----dPVNFIEQELDALKQGLRNS 721 Unknown
ZP_01132534 611 ------GSKKRYVGQvsd-angDHLVFKGMETVRSDWTELAREFQYNLFTLIFAgd----sVEVYIKQVISDLMAGRLNH 679 Pseudoalteromona...
YP_340489   639 ------GSKKRYVGQidk-nnaKQLIFKGMETVRSDWTQFAQEFQTELFKTLFDqqfeieqLNNIIKSYTKKLYAGEFDK 711 Unknown
ZP_01114466 609 ------GSKKRYAGWieg-dgePRLVFKGLEAVRSDWTPMAKAFQHRLYRCVFQee----dYRQVIRSTVQQLHAGELDA 677 Unknown
Feature 1                                                                                       
1Q8I_A      681 RLVYRKRLRRPLSEYQRNVPPHVRAArLADEENQkrgrplqyqn-rgtikyvwttNGPEPLDYqr--sPLDYEHYLTRQL 757 Escherichia coli
ZP_01075839 670 QLVYQKRLSRPLSEYTKVTPPHVRAArIADQRRMalgvkpefdqgrqsvqyfystQGVEPYTDskdlnNLDYDHYLEKQI 749 Unknown
ZP_01307445 689 ALVYKKRIRKPLNHYKKNIPPQIQAAiAAEPIYQkrnqinpyen-ggwiryvitqQGPMALECan-nlPLDYEHYVDKQI 766 Oceanobacter sp....
ZP_01167632 683 QLVYRKRIRQPLDQYVKNKPPHVQAGlKAEHIYKerglnspfsa-gsyieylmtvNGPEPIEFss--sPIDYQHYLDKQL 759 Neptuniibacter c...
YP_268993   717 KLIYKKKIRRKLSDYVNTPPHIKAAL-LANQKLKelgdkptykh-rsliryvitlDGVQPLEFnt--sKLDYDFYVEKQL 792 Colwellia psychr...
NP_717428   709 ELIFSKRMRRNLEEYTAKSSPHVKVArQLCELTGkasyskrga----qidyvitvNGPEPVSHrs--sTIDYQYYIDKQI 782 Shewanella oneid...
YP_563431   722 ELVFRKRLKRNIEDYTAKSSPHVKAAaLRCAATGdesfgrkga----nveyvmtkQGARVIQSak--lDYDYDYYIEKQI 795 Unknown
ZP_01132534 680 LLLYKKRLRQHLSEYVKNIPPHAQAAqKMSMKYPektpkrgq-----wieyvitlDGPVVATEkp--lKLNLQHYLEKQL 752 Pseudoalteromona...
YP_340489   712 KLIYRKRLGQNLSDYVKNIPPHVQAVkKFKANNPdfdvkrgq-----iieyvyaiNGAEIYNAn---nTLNYPLYIQRQL 783 Unknown
ZP_01114466 678 ELVYRRRLRRQIDQYEKQAPPHVQAArLKKQHNPnwfgrti--------eyvktvQGWQPLPYvs--aPLDYTHYIEKQL 747 Unknown
Feature 1                   
1Q8I_A      758 QPVAEGILPFIE 769 Escherichia coli
ZP_01075839 750 EPIADSVLNLFG 761 Unknown
ZP_01307445 767 APVVDSILYFLD 778 Oceanobacter sp. RED65
ZP_01167632 760 EPVCESILTFIG 771 Neptuniibacter caesariensis
YP_268993   793 KPIADDILPFIG 804 Colwellia psychrerythraea 34H
NP_717428   783 GPIAEPVFSIMK 794 Shewanella oneidensis MR-1
YP_563431   796 QPIAEPILGLLN 807 Unknown
ZP_01132534 753 QPIADSILPTLN 764 Pseudoalteromonas tunicata D2
YP_340489   784 EPVADMILSALG 795 Unknown
ZP_01114466 748 APIADALLFFFD 759 Unknown

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