Structure of PDB 1q9y Chain A Binding Site BS04

Receptor Information
>1q9y Chain A (length=902) Species: 12353 (Escherichia phage RB69) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HGSMKEFYLTVEQIGDSIFERYIDSNGRERTREVEYKPSLFAHCPESQAT
KYFDIYGKPCTRKLFANMRDASQWIKRMEDIGLEALGMDDFKLAYLSDTY
NYEIKYDHTKIRVANFDIEVTSPDGFPEPSQAKHPIDAITHYDSIDDRFY
VFDLLNSPYGNVEEWSIEIAAKLQEQGGDEVPSEIIDKIIYMPFDNEKEL
LMEYLNFWQQKTPVILTGWNVESFAIPYVYNRIKNIFGESTAKRLSPHRK
TRVKVIENMYGSREIITLFGISVLDYIDLYKKFSFTNQPSYSLDYISEFE
LNVGKLKYDGPISKLRESNHQRYISYNIIAVYRVLQIDAKRQFINLSLDM
GYYAKIQIQSVFSPIKTWDAIIFNSLKEQNKVIPQGRSHPVQPYPGAFVK
EPIPNRYKYVMSFDLTSLYPSIIRQVNISPETIAGTFKVAPLHDYINAVA
ERPSDVYSCSPNGMMYYKDRDGVVPTEITKVFNQRKEHKGYMLAAQRNGE
IIKEALHNPNLSVDEPLDVDYRFDFSDEIKEKIKKLSAKSLNEMLFRAQR
TEVAGMTAQINRKLLINSLYGALGNVWFRYYDLRNATAITTFGQMALQWI
ERKVNEYLNEVCGTEGEAFVLYGDTDSIYVSADKIIDKVGESKFRDTNHW
VDFLDKFARERMEPAIDRGFREMCEYMNNKQHLMFMDREAIAGPPLGSKG
IGGFWTGKKRYALNVWDMEGTRYAEPKLKIMGLETQKSSTPKAVQKALKE
CIRRMLQEGEESLQEYFKEFEKEFRQLNYISIASVSSANNIAKYDVGGFP
GPKCPFHIRGILTYNRAIKGNIDAPQVVEGEKVYVLPLREGNPFGDKCIA
WPSGTEITDLIKDDVLHWMDYTVLLEKTFIKPLEGFTSAAKLDYEKKASL
FD
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain1q9y Chain A Residue 939 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB1q9y Lesion (in)tolerance reveals insights into DNA replication fidelity.
Resolution2.8 Å
Binding residue
(original residue number in PDB)		D414 L415 D626
Binding residue
(residue number reindexed from 1)		D414 L415 D626
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.11.-
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
View graph for
Biological Process
External links
PDB RCSB:1q9y, PDBe:1q9y, PDBj:1q9y
PDBsum1q9y
PubMed15057282
UniProtQ38087|DPOL_BPR69 DNA-directed DNA polymerase (Gene Name=43)

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