The new UniProt website is here!
Take me to UniProt BETA
UniProtKB - Q56C10 (Q56C10_9CAUD)
Protein
DNA-directed DNA polymerase
Gene
43
Organism
Escherichia virus RB43
Status
Functioni
Replicates the viral genomic DNA. This polymerase possesses two enzymatic activities: DNA synthesis (polymerase) and an exonucleolytic activity that degrades single-stranded DNA in the 3'- to 5'-direction for proofreading purpose.
UniRule annotationCaution
Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation
Catalytic activityi
- a 2'-deoxyribonucleoside 5'-triphosphate + DNA(n) = diphosphate + DNA(n+1)UniRule annotationARBA annotationEC:2.7.7.7UniRule annotationARBA annotation
Cofactori
Mg2+UniRule annotation
Sites
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Metal bindingi | 114 | Magnesium 1; catalytic; for 3'-5' exonuclease activityUniRule annotation | 1 | |
Metal bindingi | 116 | Magnesium 1; catalytic; for 3'-5' exonuclease activityUniRule annotation | 1 | |
Metal bindingi | 213 | Magnesium 2; catalytic; for 3'-5' exonuclease activityUniRule annotation | 1 | |
Metal bindingi | 319 | Magnesium 1; catalytic; for 3'-5' exonuclease activityUniRule annotation | 1 | |
Metal bindingi | 319 | Magnesium 2; catalytic; for 3'-5' exonuclease activityUniRule annotation | 1 | |
Metal bindingi | 403 | Magnesium 3; catalytic; for polymerase activityUniRule annotation | 1 | |
Metal bindingi | 403 | Magnesium 4; catalytic; for polymerase activityUniRule annotation | 1 | |
Metal bindingi | 404 | Magnesium 4; catalytic; via carbonyl oxygen; for polymerase activityUniRule annotation | 1 | |
Binding sitei | 474 | SubstrateUniRule annotation | 1 | |
Binding sitei | 554 | SubstrateUniRule annotation | 1 | |
Sitei | 615 | Optimization of metal coordination by the polymerase active siteUniRule annotation | 1 | |
Metal bindingi | 617 | Magnesium 3; catalytic; for polymerase activityUniRule annotation | 1 | |
Metal bindingi | 617 | Magnesium 4; catalytic; for polymerase activityUniRule annotation | 1 | |
Sitei | 701 | Optimization of metal coordination by the polymerase active siteUniRule annotation | 1 | |
Sitei | 709 | Essential for viral replicationUniRule annotation | 1 |
GO - Molecular functioni
- 3'-5' exonuclease activity Source: UniProtKB-UniRule
- DNA binding Source: UniProtKB-UniRule
- DNA-directed DNA polymerase activity Source: UniProtKB-UniRule
- metal ion binding Source: UniProtKB-KW
- nucleotide binding Source: UniProtKB-UniRule
GO - Biological processi
- bidirectional double-stranded viral DNA replication Source: UniProtKB-UniRule
- DNA replication Source: UniProtKB-KW
Keywordsi
Molecular function | DNA-bindingUniRule annotationARBA annotation, DNA-directed DNA polymeraseUniRule annotationARBA annotation, ExonucleaseUniRule annotationARBA annotation, Hydrolase, Multifunctional enzymeUniRule annotation, Nuclease, Nucleotidyltransferase, Transferase |
Biological process | DNA replication, Viral DNA replicationUniRule annotationARBA annotation |
Ligand | MagnesiumUniRule annotation, Metal-bindingUniRule annotation |
Names & Taxonomyi
Protein namesi | |
Gene namesi | Name:43Imported ORF Names:RB43ORF038cImported |
Organismi | Escherichia virus RB43Imported |
Taxonomic identifieri | 115991 [NCBI] |
Taxonomic lineagei | Viruses › Duplodnaviria › Heunggongvirae › Uroviricota › Caudoviricetes › Caudovirales › Myoviridae › Tevenvirinae › Pseudotevenvirus |
Proteomesi |
|
Interactioni
Subunit structurei
Part of the replicase complex that includes the DNA polymerase, the polymerase clamp, the clamp loader complex, the single-stranded DNA binding protein, and the primase/helicase.
Interacts with the polymerase clamp; this interaction constitutes the polymerase holoenzyme.
UniRule annotationStructurei
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 104 – 285 | DNA_pol_B_exo1InterPro annotationAdd BLAST | 182 | |
Domaini | 361 – 768 | DNA_pol_BInterPro annotationAdd BLAST | 408 |
Region
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Regioni | 372 – 901 | PolymeraseUniRule annotationAdd BLAST | 530 | |
Regioni | 406 – 408 | Substrate bindingUniRule annotation | 3 | |
Regioni | 700 – 703 | Binding of DNA in B-conformationUniRule annotation | 4 | |
Regioni | 893 – 901 | Interaction with the polymerase clampUniRule annotation | 9 |
Domaini
The N-terminus contains the 3'-5' exonuclease activity. The C-terminus contains the polymerase activity and is involved in binding to the polymerase clamp protein. A beta hairpin structure is necessary for the proofreading function of the polymerase.UniRule annotation
Sequence similaritiesi
Family and domain databases
Gene3Di | 3.30.420.10, 1 hit 3.90.1600.10, 1 hit |
HAMAPi | MF_04100, DPOL_T4, 1 hit |
InterProi | View protein in InterPro IPR006172, DNA-dir_DNA_pol_B IPR017964, DNA-dir_DNA_pol_B_CS IPR006133, DNA-dir_DNA_pol_B_exonuc IPR006134, DNA-dir_DNA_pol_B_multi_dom IPR043502, DNA/RNA_pol_sf IPR023211, DNA_pol_palm_dom_sf IPR034749, DPOL_T4 IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf |
Pfami | View protein in Pfam PF00136, DNA_pol_B, 1 hit PF03104, DNA_pol_B_exo1, 1 hit |
PRINTSi | PR00106, DNAPOLB |
SMARTi | View protein in SMART SM00486, POLBc, 1 hit |
SUPFAMi | SSF53098, SSF53098, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS00116, DNA_POLYMERASE_B, 1 hit |
i Sequence
Sequence statusi: Complete.
Q56C10-1 [UniParc]FASTAAdd to basket
10 20 30 40 50
MNEFYLSVEQ MGDHIYERFI DADGREQVRK TKYEPTLFQH AMAGTDSPYK
60 70 80 90 100
DIYGKTCIKK KFDCIKDAKN WMQRMKDVGM EALGMDDFRL AYISDTYRNE
110 120 130 140 150
IEYNRERIRI ASLDIEVTAP EFPDPREAKY AIDAITHYDS VEDKFFVYDL
160 170 180 190 200
VEGGLDEWVA SKVDTEKEIS EEDLKKIVYR AFQTEKSLMS AYIKDWKERT
210 220 230 240 250
PVIVTGWNSN KFDIAYIITR YLNIFGQNVV RHFSPFGKVT AKTTTDQYGN
260 270 280 290 300
EQLGYEIYGV SQMDGMDLYK KFSFTPQPSY SLGAIAEYET GKNKVDYEGS
310 320 330 340 350
LSELRQKDHQ TYITYNIVDV IRVLDIDGKR NFIELVLSVA YYAKINFPGV
360 370 380 390 400
MSPLKTWDAI IYNSLREDKI AIPENKRHTK TPYDGAYVKD PVVAPYKYIV
410 420 430 440 450
SFDLTSLYPS IIRQVNISPE TIANSFAVRP LDEYINKTAP RPSDEFSCSP
460 470 480 490 500
NGWMFRRDIK GVIPVEIKKV FDQRKMWKKR MMAGERNLEL IKHELEHLTD
510 520 530 540 550
AHNQMIDPDF DFYSDFSDES KAVLKTLTKQ MLKAVKKVCE KKIAQANTAQ
560 570 580 590 600
LNRKISINSL YGALGNEHFR YFDIRNASAI TMFGQLAIQW IERKVNEYLN
610 620 630 640 650
QLCNTTDYAY VRYCDTDSIY VCMDNVIEKV GGESKFRDNN HWVDFLDKFS
660 670 680 690 700
RERMEPIIDK GYRELCEYMN NVEHLMFMDR EIISGPPLGS KGLGSFWTAK
710 720 730 740 750
KRYAANVWDS EGTRYEKPKL KIMGMETQRS STPTAVKVFL KEAIRRILQE
760 770 780 790 800
GEESLHESFK VFEEEYKALD YREIAGVSSA NNITKYNDGT GHPIKGTPNH
810 820 830 840 850
IKGVLFFNRL TRGIQGITQI MEGEKVMVLP LRDKNPWQSD CIAWQSGSRL
860 870 880 890 900
PNEIESDILK WVDYNGLFEK HVISPLKNIT EACKIDYEKR ASLNTLFGDD
W
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY967407 Genomic DNA Translation: AAX78560.1 HE858210 Genomic DNA Translation: CCK73887.1 HE981739 Genomic DNA Translation: CCL97504.1 |
RefSeqi | YP_239014.1, NC_007023.1 |
Genome annotation databases
GeneIDi | 3416336 |
KEGGi | vg:3416336 |
Similar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AY967407 Genomic DNA Translation: AAX78560.1 HE858210 Genomic DNA Translation: CCK73887.1 HE981739 Genomic DNA Translation: CCL97504.1 |
RefSeqi | YP_239014.1, NC_007023.1 |
3D structure databases
ModBasei | Search... |
SWISS-MODEL-Workspacei | Submit a new modelling project... |
Genome annotation databases
GeneIDi | 3416336 |
KEGGi | vg:3416336 |
Family and domain databases
Gene3Di | 3.30.420.10, 1 hit 3.90.1600.10, 1 hit |
HAMAPi | MF_04100, DPOL_T4, 1 hit |
InterProi | View protein in InterPro IPR006172, DNA-dir_DNA_pol_B IPR017964, DNA-dir_DNA_pol_B_CS IPR006133, DNA-dir_DNA_pol_B_exonuc IPR006134, DNA-dir_DNA_pol_B_multi_dom IPR043502, DNA/RNA_pol_sf IPR023211, DNA_pol_palm_dom_sf IPR034749, DPOL_T4 IPR012337, RNaseH-like_sf IPR036397, RNaseH_sf |
Pfami | View protein in Pfam PF00136, DNA_pol_B, 1 hit PF03104, DNA_pol_B_exo1, 1 hit |
PRINTSi | PR00106, DNAPOLB |
SMARTi | View protein in SMART SM00486, POLBc, 1 hit |
SUPFAMi | SSF53098, SSF53098, 1 hit SSF56672, SSF56672, 1 hit |
PROSITEi | View protein in PROSITE PS00116, DNA_POLYMERASE_B, 1 hit |
MobiDBi | Search... |
Entry informationi
Entry namei | Q56C10_9CAUD | |
Accessioni | Q56C10Primary (citable) accession number: Q56C10 | |
Entry historyi | Integrated into UniProtKB/TrEMBL: | May 10, 2005 |
Last sequence update: | May 10, 2005 | |
Last modified: | May 25, 2022 | |
This is version 104 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Unreviewed (UniProtKB/TrEMBL) |