9Y4D | pdb_00009y4d

Strand displacement state II of Human mitochondrial DNA polymerase gamma ternary complex

External Resource: Annotation

Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	DNA polymerase subunit gamma-1	catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity DNA exonuclease activity 3'-5' exonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA nuclease activity single-stranded DNA exodeoxyribonuclease activity nuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA catalytic activity, acting on a nucleic acid 5'-deoxyribose-5-phosphate lyase activity lyase activity catalytic activity carbon-oxygen lyase activity DNA exonuclease activity 3'-5' exonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA nuclease activity single-stranded DNA exodeoxyribonuclease activity nuclease activity hydrolase activity, acting on ester bonds 3'-5'-DNA exonuclease activity exonuclease activity single-stranded DNA 3'-5' DNA exonuclease activity chromatin binding binding protein binding enzyme binding protease binding DNA-directed DNA polymerase activity DNA polymerase activity transferase activity nucleotidyltransferase activity transferase activity, transferring phosphorus-containing groups DNA binding nucleic acid binding	nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus DNA-templated DNA replication maintenance of fidelity DNA replication proofreading cellular response to stress nucleobase-containing compound metabolic process DNA-templated DNA replication DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process cellular response to stimulus response to stimulus DNA-templated DNA replication maintenance of fidelity DNA replication proofreading cellular response to stress DNA damage response response to stress DNA repair mitochondrial DNA metabolic process mitochondrial DNA replication base-excision repair base-excision repair, gap-filling	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex mitochondrial protein-containing complex catalytic complex membrane-enclosed lumen transferase complex mitochondrial matrix membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle protein-containing complex mitochondrial protein-containing complex catalytic complex membrane-enclosed lumen transferase complex mitochondrial matrix DNA polymerase complex intracellular organelle lumen transferase complex, transferring phosphorus-containing groups organelle lumen gamma DNA polymerase complex intracellular protein-containing complex mitochondrial chromosome intracellular membraneless organelle chromosome nucleoid membraneless organelle mitochondrial nucleoid
B, C	DNA polymerase subunit gamma-2, mitochondrial	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding double-stranded DNA binding binding nucleic acid binding enzyme regulator activity DNA polymerase processivity factor activity catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups DNA binding double-stranded DNA binding binding nucleic acid binding enzyme regulator activity DNA polymerase processivity factor activity enzyme activator activity molecular function activator activity molecular function regulator activity protein binding DNA polymerase binding enzyme binding identical protein binding	regulation of cellular process regulation of catalytic activity positive regulation of biological process regulation of transferase activity regulation of DNA biosynthetic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of molecular function positive regulation of metabolic process nucleic acid biosynthetic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of cellular process regulation of catalytic activity positive regulation of biological process regulation of transferase activity regulation of DNA biosynthetic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of molecular function positive regulation of metabolic process nucleic acid biosynthetic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process biological regulation positive regulation of catalytic activity positive regulation of DNA biosynthetic process primary metabolic process regulation of macromolecule metabolic process DNA metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process regulation of molecular function positive regulation of DNA metabolic process biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process DNA biosynthetic process positive regulation of DNA-directed DNA polymerase activity regulation of DNA metabolic process DNA-templated DNA replication DNA replication mitochondrial DNA metabolic process mitochondrial DNA replication cellular component organization organelle organization cellular component organization or biogenesis mitochondrion organization developmental process multicellular organism development multicellular organismal process embryo development ending in birth or egg hatching chordate embryonic development anatomical structure development embryo development in utero embryonic development	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial protein-containing complex protein-containing complex catalytic complex membrane-enclosed lumen transferase complex mitochondrial matrix membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial protein-containing complex protein-containing complex catalytic complex membrane-enclosed lumen transferase complex mitochondrial matrix DNA polymerase complex intracellular organelle lumen transferase complex, transferring phosphorus-containing groups organelle lumen gamma DNA polymerase complex intracellular protein-containing complex intracellular membraneless organelle nucleoid membraneless organelle mitochondrial nucleoid
D	DNA (59-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR047580	DNA polymerase gamma, palm domain	Domain
A	IPR019760	DNA-directed DNA polymerase, family A, conserved site	Conserved Site
A	IPR012337	Ribonuclease H-like superfamily	Homologous Superfamily
A	IPR002297	DNA-directed DNA-polymerase, family A, mitochondria	Family
A	IPR043502	DNA/RNA polymerase superfamily	Homologous Superfamily
A	IPR001098	DNA-directed DNA polymerase, family A, palm domain	Domain
A	IPR041336	DNA mitochondrial polymerase, exonuclease domain	Domain
B, C	IPR045864	Class II Aminoacyl-tRNA synthetase/Biotinyl protein ligase (BPL) and lipoyl protein ligase (LPL)	Homologous Superfamily
B, C	IPR004154	Anticodon-binding	Domain
B, C	IPR042064	POLG2, C-terminal	Domain
B, C	IPR036621	Anticodon-binding domain superfamily	Homologous Superfamily
B, C	IPR027031	Glycyl-tRNA synthetase/DNA polymerase subunit gamma-2	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P54098	mitochondrial DNA depletion syndrome 4a sensory ataxic neuropathy, dysarthria, and ophthalmoparesis Leigh syndrome progressive external ophthalmoplegia mitochondrial DNA depletion syndrome 4b progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant 1 mitochondrial DNA depletion syndrome 1 epilepsy progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal recessive 1 male infertility peripheral neuropathy adrenoleukodystrophy myopathy visual epilepsy Charcot-Marie-Tooth disease mitochondrial DNA depletion syndrome 4a sensory ataxic neuropathy, dysarthria, and ophthalmoparesis Leigh syndrome progressive external ophthalmoplegia mitochondrial DNA depletion syndrome 4b progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant 1 mitochondrial DNA depletion syndrome 1 epilepsy progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal recessive 1 male infertility peripheral neuropathy adrenoleukodystrophy myopathy visual epilepsy Charcot-Marie-Tooth disease spinocerebellar ataxia with epilepsy Balo concentric sclerosis Cholestasis in newborn peripheral nervous system disease motor peripheral neuropathy neurodegenerative disease autosomal dominant progressive external ophthalmoplegia inborn mitochondrial metabolism disorder autosomal recessive progressive external ophthalmoplegia bipolar disorder parkinsonian disorder leukodystrophy rhabdomyolysis drug-induced liver injury muscle tissue disease osteosarcoma autosomal recessive juvenile Parkinson disease 2 intellectual disability pancreatic intraductal papillary-mucinous carcinoma cholestasis Pelizaeus-Merzbacher disease lung cancer Schilder disease muscular disease arthrogryposis attention deficit hyperactivity disorder, inattentive type inborn errors of metabolism ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia
B, C	Pharos: Q9UHN1	progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant 4 progressive external ophthalmoplegia progressive external ophthalmoplegia with mitochondrial DNA deletions, autosomal dominant 1 large cell medulloblastoma Mitochondrial Diseases muscular disease rhabdomyolysis leukodystrophy mitochondrial DNA depletion syndrome 4a myopathy medulloblastoma muscle tissue disease osteosarcoma

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.