Structure of PDB 2p5g Chain C

Receptor sequence

>2p5gC (length=885) Species: 12353 (Escherichia phage RB69)

MKEFYLTVEQIGDSIFERYIDSNGRERTREVEYKPSLFAHCPESQATKYF
DIYGKPCTRKLFANMRDASQWIKRMEDIGLEALGMDDFKLAYLSDTYNYE
IKYDHTKIRVANFDIEVTSPDGFPEPSQAKHPIDAITHYDSIDDRFYVFD
LLNSPYGNVEEWSIEIAAKLQEQGGDEVPSEIIDKIIYMPFDNEKELLME
YLNFWQQKTPVILTGWNVESFAIPYVYNRIKNIFGESTAKRLSPHRKTRV
KVIENMYGSREIITLFGISVLDYIDLYKKFSFTNQPSYSLDYISEFELNV
GKLKYDGPISKLRESNHQRYISYNIIAVYRVLQIDAKRQFINLSLDMGYY
AKIQIQSVFSPIKTWDAIIFNSLKEQNKVIPQGRSHPVQPYPGAFVKEPI
PNRYKYVMSFDLTSLYPSIIRQVNISPETIAGTFKVAPLHDYINAVAERP
SDVYSCSPNGMMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGEIIK
EALDVDYRFDDEIKEKIKKLSAKSLNEMLFRAQRTEVAGMTAQINRKLLI
NSLYGALGNVWFRYYDLRNATAITTFGQMALQWIERKVNEYLNEVCGTEG
EAFVLYGDTDSIYVSADKIIDKVGESKFRDTNHWVDFLDKFARERMEPAI
DRGFREMCEYMNNKQHLMFMDREAIAGPPLGSKGIGGFWTGKKRYALNVW
DMEGTRYAEPKLKIMGLETQKSSTPKAVQKALKECIRRMLQEGEESLQEY
FKEFEKEFRQLNYISIASVSSANNIAKYDVGGFPGPKCPFHIRGILTYNR
AIKGNIDAPQVVEGEKVYVLPLREGNPFGDKCIAWPSGTEITDLIKDDVL
HWMDYTVLLEKTFIKPLEGFTSAAKLDYEKKASLF

3D structure

• PDB: 2p5g Caught bending the a-rule: crystal structures of translesion DNA synthesis with a non-natural nucleotide.
• Chain: C
• Resolution: 2.8 Å

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	C	Q10 D87 K89 S360 I362 K363 Y391 P392 G393 A394 V396 G568 N572 W574 K705 R707 K800 F803 K844 K874	Q10 D87 K89 S360 I362 K363 Y391 P392 G393 A394 V396 G555 N559 W561 K692 R694 K787 F790 K831 K861
BS02	dna	C	N284 Y416 T622 D623 K706 M728 G729 K734 S735 S736 S783 S784 N786 K790 Y791 H804	N284 Y416 T609 D610 K693 M715 G716 K721 S722 S723 S770 S771 N773 K777 Y778 H791

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

External links

• PDB: RCSB:2p5g, PDBe:2p5g, PDBj:2p5g
• PDBsum: 2p5g
• PubMed: 17718515
• UniProt: Q38087|DPOL_BPR69 DNA-directed DNA polymerase (Gene Name=43)