4FVM,3IAY,2P5G,6QIB,4AHC


Conserved Protein Domain Family
DNA_pol_B_exo1

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pfam03104: DNA_pol_B_exo1 
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DNA polymerase family B, exonuclease domain
This domain has 3' to 5' exonuclease activity and adopts a ribonuclease H type fold.
Statistics
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PSSM-Id: 397292
View PSSM: pfam03104
Aligned: 32 rows
Threshold Bit Score: 132.926
Threshold Setting Gi: 159795041
Created: 11-May-2020
Updated: 7-Aug-2020
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
4FVM_A   27 KDDNCVSAMVQINGLCRELF---------FLPR---EGKTPT-DIHEEIIPLLMDKy---------GLDNIRAKPQ---- 80   Saccharomyces cerev...
P33609  373 SVKTHVSCCVMVKNIERTLYflpr--emkFDLN---TGKET--AIPVTMKDVYEEFdski--sakyKIMKFKSKIV---- 439  house mouse
P28040  354 ATKQYVSCFLKVDGIMRSLY---------FLPRpssSSVSED-SIAAQTKDVYDEVanll---skrGVKEWKSRVS---- 416  Schizosaccharomyces...
O31096   33 PESQKIVHWTDNTGHKPYCY---------TRQP------------PSELGELEGREdvl----------gtEQVMR---- 77   Cenarchaeum symbiosum
2P5G_A   19 YIDSNGRERTREVEYKPSLF---------AHCP------------ESQATKYFDIYgkp--------------------- 56   Escherichia phage RB69
O05706   26 IDDEGNSCVVVERNFKPYFY---------VVYE---GNGD---EIIENIRKNCEVLl--------------iTKVK---- 72   Saccharolobus shibatae
P52025   20 GLKKPEINLQKECEFKPYFYvdtsepkeiYDYL---DGLNQEiDLKKLEPEFENNTslk----vqdLITNIEIIEKivys 92   Methanococcus voltae
4AHC_B   20 KKENGKFKIEHDRTFRPYIY---------ALLR---DDSKIE-EVKKITGERHGKIvri------vdVEKVE-------- 72   Pyrococcus furiosus
P21402   23 INRESNVIFIR-FNYYYHYV---------YDAS-----KELE-YKPNECIDLGPFKiin-----------idEKLS---- 71   Fowlpox virus strai...
Q9EMZ8   80 KDYDTEEIIYILFDIYEYFL---------CDYElseSNTKLK-NIKNNIDKYKNSFnssylvledyKIITNE-VNI---- 144  Amsacta moorei ento...
4FVM_A   81 ---------KMKYSFELPDIPsesdYLKVLLPYQTPKSSRDTIPSDlssdtfYHVFGGNSNIFESFVIQN-RIMGPCWLD 150  Saccharomyces cerev...
P33609  440 ---------EKNYAFEIPDVPe--kSEYLEVRYSAEVPQLPQNLKge---tfSHVFGTNTSSLELFLMNR-KIKGPCWLE 504  house mouse
P28040  417 ---------KYKYAFELEDVPrtadYLEVIYSYSYPALPTDLTgs-----sfSHVFGTNTALFEQFVLSR-RVMGPCWLK 481  Schizosaccharomyces...
O31096   78 ---------HDLIADKDVP------VTKITVADPLAIGGTNSEKSir---niMDTWESDIKYYENYLYDK-SLVVGRYYS 138  Cenarchaeum symbiosum
2P5G_A   57 -------ctRKLFANXRDASQ----WIKRXEDIGLEALGXDDFKla----ylSDTYNYEIKY------DHtKIRVANF-- 113  Escherichia phage RB69
O05706   73 ---------RKYLGNVVD-------ALLVQTFTPTQIKRCREKISRin--giKSIFDADIRFTMRYSIDF-DLRPFTWFK 133  Saccharolobus shibatae
P52025   93 dyilngkdiSEVSDFKNKKERk---ICKVYVKYPNHVKIIREYFke-----fGKSYEFDIPFLRRYMIDQ-DIVPSAKYS 163  Methanococcus voltae
4AHC_B   73 ---------KKFLGKPIT-------VWKLYLEHPQDQPTIREKVREhp--avVDIFEYDIPFAKRYLIDK-GLIPM---- 129  Pyrococcus furiosus
P21402   72 ---------TDIRYVEPRN------YYTSELVLVKDLKRNR-----------EKQYLQEYLDITWFYLLN-NITPDGCYK 124  Fowlpox virus strai...
Q9EMZ8  145 ---------QYYYNYTED--------SKITLNNNDLVLFMTPYKie----kiYSKYNIFINQYRWFYVLN-NIEPSGSYR 202  Amsacta moorei ento...
4FVM_A  151 IKg-------ADFNSIRNASHCAVEVSVDKPQNITPTTT--------KTm-----PNLRC----LS-LSIQT-------- 197  Saccharomyces cerev...
P33609  505 VK--------NPQLLNQPISWCKFEVMALKPDLVNVIKDvs-------------pPPLVV----MS-FSMKT-------- 550  house mouse
P28040  482 IQq-------PNFDAVKNASWCRVEIGCSSPQNISVSFE--------KNeitsktPPMTV----MS-LAFRT-------- 533  Schizosaccharomyces...
O31096  139 VSggkviphdMPISDEVKLALKSLLWDKVVDEGMADRKEfrefiagwADllnqpiPRIRR----LS-FDIEVdse---eg 210  Cenarchaeum symbiosum
2P5G_A  114 ------------------------DIEVTSPDGFPEPSQ--------AK------HPIDA----IThYDSIDdrfyvfdl 151  Escherichia phage RB69
O05706  134 AEv-------SEVKLEGFRAKKVYILDKILSHYEGKI------------------PELRA----IG-IDFQIysk----y 179  Saccharolobus shibatae
P52025  164 ED--------------NKIDNSIPELNC------------------------------------IA-FDMELyck----- 187  Methanococcus voltae
4AHC_B  130 --------------------------------------E--------GE------EELKI----LA-FAIATlyh----- 147  Pyrococcus furiosus
P21402  125 ID---------------IEHLTPIKKDCYHCDDVSKVFI--------QEi-----PIFEVkftyLL-FDIECqfd----k 171  Fowlpox virus strai...
Q9EMZ8  203 INm-------DNMQKIKTYNKNKTSYYCKNPKLLFSNYV--------KIdk--hiPASRV-----S-IDIECqhf----g 255  Amsacta moorei ento...
4FVM_A  198 -LMNPKENKQEIVSITLSAyRNISldSPIPENIkpdd-----lctLVRPPQSTSFPLGLAALAKqKLPgRVR-------- 263  Saccharomyces cerev...
P33609  551 -MQNVQNHQHEIIAMAALVhHSFA--LDKAPPEppfqthfcvvskPKDCIFPCDFKEVISKKNM-----KVE-------- 614  house mouse
P28040  534 -LINKEQNKQEVVMISARIfENVDi-EKGLPANdmpsysfslirpLKQIFPNGFEKLARQHKS------SIF-------- 597  Schizosaccharomyces...
O31096  211 rIPDPKISDRRVTAVGFAAtDGLKqv-----------------fvLRSGAEEGEN-------GVtPGV-EVV-------- 257  Cenarchaeum symbiosum
2P5G_A  152 lNSPYGNVEEWSIEIAAKLqEQGGde-----------------vpSEIID-------------------KIIy------x 189  Escherichia phage RB69
O05706  180 gSLNPRK--DPIVVLSLWS-KEGSmq-----------------fsLDESM------------------------------ 209  Saccharolobus shibatae
P52025  188 kePNAKK--DPIIMVNLFS-KDYQkv-----------------itYKKFE------------NSeYNG-CVD-------- 226  Methanococcus voltae
4AHC_B  148 egEEFGK--GPIIMISYAD-ENEAkv-----------------itWKNID------------LP-----YVE-------- 182  Pyrococcus furiosus
P21402  172 kFPSVFV--NPISHISCWIiDKVTeyk----------------ftLINTDILPDKEPSILHHKDfSPKdRI--------- 224  Fowlpox virus strai...
Q9EMZ8  256 eFPTANK--FPISHICIDWyMDKN----TNPIKki--------itLINYEIIKNYVGEKKDKFIyTEVnKLLntnkvyit 321  Amsacta moorei ento...
4FVM_A  264 LFNNEKAMLSCFCAMLKVEDPDVIIGHRLQNVYLDV--LAHRMHDLNI----PTFSSIGRRLrrTWPEKFGRGNSNMnh- 336  Saccharomyces cerev...
P33609  615 IAATERTLIGFFLAKVHKIDPDILVGHNICSFELEV--LLQRINECKV----PYWSKIGRLRr-SNMPKLGSRSGFG--- 684  house mouse
P28040  598 CERSEVSLLNNFLNKVRTYDPDVYFGHD---FEMCYsvLLSRLKERKI----HNWSSIGRLRrsEWPRSFNRSSQQF--- 667  Schizosaccharomyces...
O31096  258 FYDKEADMIRDALSVIGSY--PFVLTYNGDDFDMPY--MLNRAR--------------------RLGVSDSDIPLYMm-- 311  Cenarchaeum symbiosum
2P5G_A  190 PFDNEKELLXEYLNFWQQKTPVILTGWNVESFAIPY--VYNRIKNIFG----ESTAK--RLSphRKTRVKVIENXYGs-- 259  Escherichia phage RB69
O05706  210 ---DDLKIIRKFVDYILNYDPDIIYVFDVDVFHWKY--ITERANSLGV----KI----------DIGRKIGSEVSQGt-- 268  Saccharolobus shibatae
P52025  227 YVKDEKELIQKTIEILKQY--DVIYTYNGDNFDFPY--LKKRAN-IYE----IELDFDNASNsqQPQIIKISKGGIN--- 294  Methanococcus voltae
4AHC_B  183 VVSSEREMIKRFLRIIREKDPDIIVTYNGDSFDFPY--LAKRAEKLGI------KLTIGR----DGSEPKMQRIGDM--- 247  Pyrococcus furiosus
P21402  225 TYCTEIVMLL-IMKKILEHRFDFVITFNGNNFDIRY--ISGRLEILEKsfiyFSLPDATETVklKIFERFVTGGTFTnk- 300  Fowlpox virus strai...
Q9EMZ8  322 IYCTEKYMLH-FVLYTLRQDFDYVLTYNGHNFDFTY--IQDRRK---I----NKLKGLCLDNvySTNEIKISKFSYNqdt 391  Amsacta moorei ento...
4FVM_A  337 fFISDICSGRLICDIANEMGQS------LTPKcqSWDLSEM 371  Saccharomyces cerevisiae S288C
P33609  685 --ERNATCGRMICDVEISAKEL------IHCK--SYHLSEL 715  house mouse
P28040  668 -VEKQIIAGRLMCDLSNDFGRS------M-IKaqSWSLSEI 700  Schizosaccharomyces pombe 972h-
O31096  312 -RDSATLRHGVHLDLYRTFSNRsfqlyaFAAKytDYSLNSV 351  Cenarchaeum symbiosum
2P5G_A  260 -REIITLFGISVLDYIDLYKKF------SFTNqpSYSLDYI 293  Escherichia phage RB69
O05706  269 -YGHYSISGRLNVDLVGLLMNE------RLTG--HIDLIEV 300  Saccharolobus shibatae
P52025  295 --RKSKIPGIIHIDLYPIARKL------LNLT--KYKLENV 325  Methanococcus voltae
4AHC_B  248 --TAVEVKGRIHFDLYHVITRT------INLP--TYTLEAV 278  Pyrococcus furiosus
P21402  301 tYHINNNNGVMFFDLYAFIQKT------ERLD--SYKLDSI 333  Fowlpox virus strain NVSL
Q9EMZ8  392 tYEIDSTNGIIFLDLYNYIKKT------Y-PSsnSYKLSEI 425  Amsacta moorei entomopoxvirus
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