Structure of PDB 6t8h Chain A Binding Site BS02

Receptor Information
>6t8h Chain A (length=420) Species: 272844 (Pyrococcus abyssi GE5) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
NYEVKFDVRQVKLRPPKVGKEGEIIVEAYASLFKSRLSKLKRILRENPEI
SNVVDIGKLNYVSGDEEVTIIGLVNSKRETNRGLIFEVEDKTGIVKVFLP
KDSEDYREAFKVLPDAVVAFKGFYSKKGIFFANKFYLPDVPLYRKQKPPL
EEKVYAILISDIHVGSREFCEKAFLKFLEWLNGHVESKEEEEIVSRVKYL
IIAGDVVDGIGIYPGQYSDLVIPDIFDQYEALANLLANVPEHITMFIGPG
NADAARPAIPQPEFYKEYAKPIYKLKNAIIISNPAVIRLHGRDFLIAHGR
GIEDVVSFVPGLTHHKPGLPMVELLKMRHLAPTFGGKVPIAPDPEDLLVI
EEVPDLVQMGHVHVYDAVVYRGVQLVNSATWQAQTEFQKMVNIVPTPAKV
PVVDVESARVVKVLDFSGWC
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 chain6t8h Chain A Residue 702 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6t8h Structural basis for the increased processivity of D-family DNA polymerases in complex with PCNA.
Resolution3.77 Å
Binding residue
(original residue number in PDB)		D404 N450 H497 H560
Binding residue
(residue number reindexed from 1)		D205 N251 H298 H361
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:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0004527 exonuclease activity
GO:0008310 single-stranded DNA 3'-5' DNA exonuclease activity
GO:0008408 3'-5' exonuclease activity
Biological Process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0006271 DNA strand elongation involved in DNA replication
GO:0006308 DNA catabolic process
GO:0071897 DNA biosynthetic process
Cellular Component
GO:0042575 DNA polymerase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6t8h, PDBe:6t8h, PDBj:6t8h
PDBsum6t8h
PubMed32221299
UniProtQ9V2F3|DP2S_PYRAB DNA polymerase II small subunit (Gene Name=polB)

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