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BioLiP

Structure of PDB 8ppu Chain B Binding Site BS01

Receptor Information
>8ppu Chain B (length=1191) Species: 272844 (Pyrococcus abyssi GE5) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
ELPKEMEEYFEMLQREIDKAYEIAKKARAQGKDPSLDVEIPQATDMAGRV
ESLVGPPGVAKRIRELVKEYGKEIAALKIVDEIIEGKFGDLGSREKYAEQ
AVRTALAILTEGIVSAPIEGIANVKIKRNTWADNSEYLALYYAGPIRSSG
GTAQALSVLVGDYVRRKLGLDRFKPSEKHIERMVEEVDLYHRAVTRLQYH
PSPEEVRLAMRNIPIEITGEATDDVEVSHRDVPGVETNQLRGGAILVLAE
GVLQKAKKLVKYIDKMGIEGWEWLKEFVEAKEVDMGFYYSLYQKFKEEIA
PSDKYAKEVIGGRPLFSDPSKPGGFRLRYGRSRASGFATWGINPATMILV
DEFLAIGTQLKTERPGKGAVVTPVTTIEGPIVKLKDGSVLRVDDYNLALK
VREDVEEILYLGDAVIAFGDFVENNQTLLPANYCEEWWILEFVKALKEIY
EVHLEPFTENEEESIEEASDYLEIDPEFLKEMLRDPLRVKPPVELAIHFS
EVLGIPLHPYYTLYWNSVEPKDVEKLWRLLKNYAEIEWSNFRGIKFAKKI
VISQEKLGDSKRTLELLGLPHTVRDGNVIVDYPWAAALLTPLGNLNWEFM
AKPLYATIDIINENNEIKLRDRGISWIGARMGRPEKAKERKMKPPVQVLF
PIGLAGGSSRDIKKAAEEGKVAEVEIAFFKCPKCGHVGPEHLCPNCGTRK
ELLWVCPRCNAEYPESQAEGYNYTCPKCNVKLRPYAKRKIRPSELLNRAM
ENVKVYGVDKLKGVMGMTSGWKMPEPLEKGLLRAKNDVYVFKDGTIRFDA
TDAPITHFRPREIGVSVEKLRELGYTHDFEGKPLVSEDQIVELKPQDIIL
SKEAGRYLLKVAKFVDDLLEKFYGLPRFYNAEKMEDLIGHLVIGLAPHTS
AGIVGRIIGFVDALVGYAHPYFHAAKRRNCDGDEDAVMLLLDALLNFSRY
YLPEKRGGKMDAPLVITTRLDPREVDSEVHNMDIVRYYPLEFYEATYELK
SPKELVGVIERVEDRLGKPEMYYGLKFTHDTDDIALGPKMSLYKQLGDME
EKVRRQLEVAKRIRAVDEHGVAEKILNSHLIPDLRGNLRSFTRQEFRCVK
CNTKFRRPPLNGKCPVCGGKIVLTVSKGAIEKYLGTAKMLVTEYNVKNYT
RQRICLTERDIDSLFENVFPETQLTLIVNPNDICQRLVMAR
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8ppu Molecular basis for proof-reading by Family-D DNA polymerases
Resolution3.02 Å
Binding residue
(original residue number in PDB)		R193 R685 P1107 D1108 R1114 S1115 V1150
Binding residue
(residue number reindexed from 1)		R192 R660 P1082 D1083 R1089 S1090 V1125
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:8ppu, PDBe:8ppu, PDBj:8ppu
PDBsum8ppu
PubMed38097591
UniProtQ9V2F4|DP2L_PYRAB DNA polymerase II large subunit (Gene Name=polC)

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