Structure of PDB 8ppt Chain B Binding Site BS01

Receptor Information
>8ppt 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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PDB8ppt Molecular basis for proof-reading by Family-D DNA polymerases
Resolution2.9 Å
Binding residue
(original residue number in PDB)		R193 R685 P1107 R1114 N1127 K1129 R1178
Binding residue
(residue number reindexed from 1)		R192 R660 P1082 R1089 N1102 K1104 R1153
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
View graph for
Biological Process
External links
PDB RCSB:8ppt, PDBe:8ppt, PDBj:8ppt
PDBsum8ppt
PubMed38097591
UniProtQ9V2F4|DP2L_PYRAB DNA polymerase II large subunit (Gene Name=polC)

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