Structure of PDB 3rmc Chain D

Receptor sequence
>3rmcD (length=890) Species: 12353 (Escherichia phage RB69) [Search protein sequence]
MKEFYLTVEQIGDSIFERYIDSNGRERTREVEYKPSLFAHCPESQATKYF
DIYGKPCTRKLFANMRDASQWIKRMEDIGLEALGMDDFKLAYLSDTYNYE
IKYDHTKIRVANFDIEVTSPDGFPEPSQAKHPIDAITHYDSIDDRFYVFD
LLNSPYGNVEEWSIEIAAKLQEQGGDEVPSEIIDKIIYMPFDNEKELLME
YLNFWQQKTPVILTGWNVESFAIPYVYNRIKNIFGESTAKRLSPHRKTRV
KVIEIITLFGISVLDYIDLYKKFSFTNQPSYSLDYISEFELNVGKLKYDG
PISKLRESNHQRYISYNIIAVYRVLQIDAKRQFINLSLDMGYYAKIQIQS
VFSPIKTWDAIIFNSLKEQNKVIPQGRSHPVQPYPGAFVKEPIPNRYKYV
MSFDLTSLYPSIIRQVNISPETIAGTFKVAPLHDYINAVAERPSDVYSCS
PNGMMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIKEALHNPN
LSVDEPLDVDYRFDFSDEIKEKIKKLSAKSLNEMLFRAQRTEVAGMTAQI
NRKLLINSLYGALGNVWFRYYDLRNATAITTFGQMALQWIERKVNEYLNE
VCGTEGEAFVLYGDTDSIYVSADKIIDKVGESKFRDTNHWVDFLDKFARE
RMEPAIDRGFREMCEYMNNKQHLMFMDREAIAGPPLGSKGIGGFWTGKKR
YALNVWDMEGTRYAEPKLKIMGLETQKSSTPKAVQKALKECIRRMLQEGE
ESLQEYFKEFEKEFRQLNYISIASVSSANNIAKYDVGGFPGPKCPFHIRG
ILTYNRAIKGNIDAPQVVEGEKVYVLPLREGNPFGDKCIAWPSGTEITDL
IKDDVLHWMDYTVLLEKTFIKPLEGFTSAAKLDYEKKASL
3D structure
PDB3rmc A crystallographic study of the role of sequence context in thymine glycol bypass by a replicative DNA polymerase serendipitously sheds light on the exonuclease complex.
ChainD
Resolution3.0 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.11.-
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna D G393 V396 K800 C801 K844 K874 G386 V389 K793 C794 K837 K867
BS02 dna D K706 M728 G729 Q733 S735 S783 S784 N786 N787 P802 H804 K699 M721 G722 Q726 S728 S776 S777 N779 N780 P795 H797
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0004527 exonuclease activity
GO:0008408 3'-5' exonuclease activity
GO:0046872 metal ion binding
Biological Process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0039686 bidirectional double-stranded viral DNA replication
GO:0039693 viral DNA genome replication

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Molecular Function
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Biological Process
External links
PDB RCSB:3rmc, PDBe:3rmc, PDBj:3rmc
PDBsum3rmc
PubMed21781974
UniProtQ38087|DPOL_BPR69 DNA-directed DNA polymerase (Gene Name=43)

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