Structure of PDB 8udk Chain A Binding Site BS02

Receptor Information
>8udk Chain A (length=1012) Species: 9606 (Homo sapiens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QLRHNPLDIQMLSRGLHEQIFGQGGEMPGEAAVRRSVEHLQKHGLWGQPA
VPLPDVELRLPPLYGDNLDQHFRLLAQKQSLPYLEAANLLLQAQLPPKPP
AWAWAEGWTRYGPEGEAVPVAIPEERALVFAVAVCLAEGTCPTLAVAISP
SAWYSWCSQRLVEERYSWTSQLSPADLIPLEVPTQEQLVVGHNVSFDRAH
IREQYLIQGSRMRFLDTMSMHMAISGLSSFQRSLWIAAKQGISSWDWLDI
SSVNSLAEVHRLYVGGPPLEKEPRELFVKGTMKDIRENFQDLMQYCAQDV
WATHEVFQQQLPLFLERCPHPVTLAGMLEMGVSYLPVNQNWERYLAEAQG
TYEELQREMKKSLMDLANDACQLLSGERYKEDPWLWDLEWDLQEFKQKDQ
EDLGPCSEEEEFQQDVMARACLQKLKGTTELLPKRPQHLPGHPGWYRKLC
PRLDDPAWTPGPSLLSLQMRVTPKLMALTWDGFPLHYSERHGWGYLVVCP
YRAIESLYRKHCLEQARGGPKDTQPSYHHGNGPYNDVDIPGCWFFKLPHK
DGNSCNVGSPFAKDFLPKMEDGTLQAGPGGASGPRALEINKMISFWRNAH
KRISSQMVVWLPRSALPRAVIRHPDYDEEGLYGAILPQVVTAGTITRAAV
EPTWLTASNARPDRVGSELKAMVQAPPGYTLVGADVDSQELWIAAVLGDA
HFAGMHGCTAFGWMTLQGRKSRGTDLHSKTATTVGISREHAKIFNYGRIY
GAGQPFAERLLMQFNHRLTQQEAAEKAQQMYAATKGLRWYRLSDWLVREL
NLPVDRTEGGWISLQDLRKERAWKGGTESEMFNKLESIATSDIPRTPVLG
CCISRALEPSAVQEEFMTSRVNWVVQSSAVDYLHLMLVAMKWLFEEFAID
GRFCISIHDEVRYLVREEDRYRAALALQITNLLTRCMFAYKLGLNDLPQS
VAFFSAVDIDRCLRKEVTMDCKTPSNPTGMERRYGIPQGEALDIYQIIEL
TKGSLEKRSQPG
Ligand information
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8udk An interaction network in the polymerase active site is a prerequisite for Watson-Crick base pairing in Pol gamma.
Resolution3.43 Å
Binding residue
(original residue number in PDB)		S306 P560 S593 Q595 M596 R597 N803 R807 T849 P857 G952 Y955 A957 G958 P960 F961 R1047 E1091 N1098 Q1102
Binding residue
(residue number reindexed from 1)		S229 P433 S466 Q468 M469 R470 N598 R602 T644 P652 G747 Y750 A752 G753 P755 F756 R821 E865 N872 Q876
Enzymatic activity
Enzyme Commision number 2.7.7.7: DNA-directed DNA polymerase.
3.1.11.-
4.2.99.-
Gene Ontology
Molecular Function
GO:0002020 protease binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003887 DNA-directed DNA polymerase activity
GO:0005515 protein binding
GO:0008310 single-stranded DNA 3'-5' DNA exonuclease activity
GO:0008408 3'-5' exonuclease activity
GO:0016787 hydrolase activity
GO:0016829 lyase activity
GO:0051575 5'-deoxyribose-5-phosphate lyase activity
Biological Process
GO:0006259 DNA metabolic process
GO:0006260 DNA replication
GO:0006261 DNA-templated DNA replication
GO:0006264 mitochondrial DNA replication
GO:0006281 DNA repair
GO:0006284 base-excision repair
GO:0006287 base-excision repair, gap-filling
GO:0045004 DNA replication proofreading
GO:0071897 DNA biosynthetic process
Cellular Component
GO:0000262 mitochondrial chromosome
GO:0005739 mitochondrion
GO:0005759 mitochondrial matrix
GO:0005760 gamma DNA polymerase complex
GO:0032991 protein-containing complex
GO:0042645 mitochondrial nucleoid
GO:0043231 intracellular membrane-bounded organelle

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8udk, PDBe:8udk, PDBj:8udk
PDBsum8udk
PubMed38787958
UniProtP54098|DPOG1_HUMAN DNA polymerase subunit gamma-1 (Gene Name=POLG)

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