Structure of PDB 6t8h Chain B Binding Site BS05

Receptor Information
>6t8h Chain B (length=1188) Species: 29292 (Pyrococcus abyssi) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
PKEMEEYFEMLQREIDKAYEIAKKARAQGKDPSLDVEIPQATDMAGRVES
LVGPPGVAKRIRELVKEYGKEIAALKIVDEIIEGKFGDLGSREKYAEQAV
RTALAILTEGIVSAPIEGIANVKIKRNTWADNSEYLALYYAGPIRSSGGT
AQALSVLVGDYVRRKLGLDRFKPSEKHIERMVEEVDLYHRAVTRLQYHPS
PEEVRLAMRNIPIEITGEATDDVEVSHRDVPGVETNQLRGGAILVLAEGV
LQKAKKLVKYIDKMGIEGWEWLKEFVEAKEDMGFYYSLYQKFKEEIAPSD
KYAKEVIGGRPLFSDPSKPGGFRLRYGRSRASGFATWGINPATMILVDEF
LAIGTQLKTERPGKGAVVTPVTTIEGPIVKLKDGSVLRVDDYNLALKVRE
DVEEILYLGDAVIAFGDFVENNQTLLPANYCEEWWILEFVKALKEIYEVH
LEPFTENEEESIEEASDYLEIDPEFLKEMLRDPLRVKPPVELAIHFSEVL
GIPLHPYYTLYWNSVEPKDVEKLWRLLKNYAEIEWSNFRGIKFAKKIVIS
QEKLGDSKRTLELLGLPHTVRDGNVIVDYPWAAALLTPLGNLNWEFMAKP
LYATIDIINENNEIKLRDRGISWIGARMGRPEKAKERKMKPPVQVLFPIG
LAGGSSRDIKKAAEEGKVAEVEIAFFKCPKCGHVGPEHLCPNCGTRKELL
WVCPRCNAEYPESQAEGYNYTCPKCNVKLRPYAKRKIRPSELLNRAMENV
KVYGVDKLKGVMGMTSGWKMPEPLEKGLLRAKNDVYVFKDGTIRFDATDA
PITHFRPREIGVSVEKLRELGYTHDFEGKPLVSEDQIVELKPQDIILSKE
AGRYLLKVAKFVDDLLEKFYGLPRFYNAEKMEDLIGHLVIGLAPHTSAGI
VGRIIGFVDALVGYAHPYFHAAKRRNCDGDEDAVMLLLDALLNFSRYYLP
EKRGGKMDAPLVITTRLDPREVDSEVHNMDIVRYYPLEFYEATYELKSPK
ELVGVIERVEDRLGKPEMYYGLKFTHDTDDIALGPKMSLYKQLGDMEEKV
RRQLEVAKRIRAVDEHGVAEKILNSHLIPDLRGNLRSFTRQEFRCVKCNT
KFRRPPLNGKCPVCGGKIVLTVSKGAIEKYLGTAKMLVTEYNVKNYTRQR
ICLTERDIDSLFENVFPETQLTLIVNPNDICQRLVMAR
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 B Residue 1303 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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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)		C1123 C1126 C1139 C1142
Binding residue
(residue number reindexed from 1)		C1095 C1098 C1111 C1114
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

View graph for
Molecular Function
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Biological Process
External links
PDB RCSB:6t8h, PDBe:6t8h, PDBj:6t8h
PDBsum6t8h
PubMed32221299
UniProtQ9V2F4|DP2L_PYRAB DNA polymerase II large subunit (Gene Name=polC)

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