Structure of PDB 5ijl Chain A Binding Site BS01

Receptor Information
>5ijl Chain A (length=943) Species: 272844 (Pyrococcus abyssi GE5) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKEMEEYFEMLQREIDKAYEIAKKARAQGKDPSLDVEIPQATDMAGRVES
LVGPPGVAKRIRELVKEYGKEIAALKIVDEIIEGKFGDLGSREKYAEQAV
RTALAILTEGIVSAPIEGIANVKIKRNTWADNSEYLALYYAGPIRSSGGT
AQALSVLVGDYVRRKLGLDRFKPSEKHIERMVEEVDLYHRAVTRLQYHPS
PEEVRLAMRNIPIEITGEATDDVEVSHRDVPGVETNQLRGGAILVLAEGV
LQKAKKLVKYIDKMGIEGWEWLKEFVEAKEKGVDMGFYYSLYQKFKEEPL
FSDPSKPGGFRLRYGRSWGINPATMILVGAVVTPVTTIEGPIVKLKDGSV
LRVDDYNLALKVREDVEEILYLGDAVIAFGDQTLLPANYCEEWWILEFVK
ALKEIYEVHLEPFTENEEESIEEASDYLEIDPEFLKEMLRDPLRVKPPVE
LAIHFSEVLGIPLHPYYTLYWNSVEPKDVEKLWRLLKNYAEIEWSNFRGI
KFAKKIVISQEKLGDSKRTLELLGLPHTVRDGNVIVDYPWAAALLTPLGN
LNWEFMAKPLYATIDIINENNEIKLRDRGISWIGKPPVQVLFPIGLAGGS
SRDIKKAAEEGKVAEVEIAFFKCPKCGHVGPEHLCPNCGTRKELLWVCPR
CNAEYPESQAEGYNYTCPKCNVKLRPYAKRKIRPSELLNRAMENVKVYGV
DKLKGVMGMTSGWKMPEPLEKGLLRAKNDVYVFKDGTIRFDATDAPITHF
RPREIGVSVEKLRELGYTHDFEGKPLVSEDQIVELKPQDIILSKEAGRYL
LKVAKFVDDLLEKFYGLPRFYNAEKMEDLIGHLVIGLAPHTSAGIVGRII
GFVDALVGYAHPYFHAAKRRNCDGDEDAVMLLLDALLNFSRYYLPEKRGG
KMDAPLVITTRLDPRYYPLEFYEATYELKSPKELVGVIERVED
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain5ijl Chain A Residue 1101 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB5ijl Shared active site architecture between archaeal PolD and multi-subunit RNA polymerases revealed by X-ray crystallography.
Resolution2.19 Å
Binding residue
(original residue number in PDB)		C706 C709 C718
Binding residue
(residue number reindexed from 1)		C623 C626 C635
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.11.1: exodeoxyribonuclease I.
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
Biological Process
GO:0006260 DNA replication

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Molecular Function
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Biological Process
External links
PDB RCSB:5ijl, PDBe:5ijl, PDBj:5ijl
PDBsum5ijl
PubMed27548043
UniProtQ9V2F4|DP2L_PYRAB DNA polymerase II large subunit (Gene Name=polC)

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