6IID | pdb_00006iid

Human EXOG-H140A in complex with RNA-DNA chimeric duplex

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Phage_base_V	e6iidD1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: Phage_base_V	ECOD (v294.1)
C	Phage_base_V	e6iidC1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: Phage_base_V	ECOD (v294.1)
B	Phage_base_V	e6iidB1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: Phage_base_V	ECOD (v294.1)
A	Phage_base_V	e6iidA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: Phage_base_V	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF18026	Endo/exonuclease (EXOG) C-terminal domain (Exog_C)	Endo/exonuclease (EXOG) C-terminal domain	This is the C-terminal domain found in EndoG-like mitochondrial endo/exonuclease (EXOG) proteins in higher eukaryotes. Evolutionary conserved mitochondrial nucleases are involved in programmed cell death and normal cell proliferation in lower and hig ...	This is the C-terminal domain found in EndoG-like mitochondrial endo/exonuclease (EXOG) proteins in higher eukaryotes. Evolutionary conserved mitochondrial nucleases are involved in programmed cell death and normal cell proliferation in lower and higher eukaryotes. It has been proposed that during metazoan evolution duplication of an ancestral nuclease gene could have generated the paralogous EndoG- and EXOG-protein subfamilies in higher eukaryotes, thereby maintaining the full endo/exonuclease activity found in mitochondria of lower eukaryotes. Family members include the human EXOG, a dimeric mitochondrial enzyme that displays 5'-3' exonuclease activity and further differs from EndoG in substrate specificity. This C-terminal domain is predicted to fold into a coiled-coil structure. Deletion of the domain led to a pronounced reduction in EXOG activity, revealing that the presence and most likely the proper positioning of this domain in EXOG proteins is crucial for its enzymatic activity [1].	Domain
A, B, C, D	PF01223	DNA/RNA non-specific endonuclease (Endonuclease_NS)	DNA/RNA non-specific endonuclease		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F, H, J, L	DNA (5'-D(CPGPTPGPAPCPAPTPCPCPCPG)-3')	-	-	-
E, G, I, K	DNA/RNA (5'-R(PCPGPGPGPA)-D(PT)-R(PG)-D(PT)-R(PCPAPCPG)-3')	-	-	-
A, B, C, D	Nuclease EXOG, mitochondrial	binding nucleic acid binding DNA endonuclease activity endonuclease activity single-stranded DNA endonuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid hydrolase activity catalytic activity DNA nuclease activity catalytic activity, acting on RNA RNA endonuclease activity binding nucleic acid binding DNA endonuclease activity endonuclease activity single-stranded DNA endonuclease activity hydrolase activity, acting on ester bonds catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid hydrolase activity catalytic activity DNA nuclease activity catalytic activity, acting on RNA RNA endonuclease activity RNA nuclease activity 5'-3' exonuclease activity exonuclease activity cation binding ion binding metal ion binding small molecule binding	cellular component disassembly catabolic process primary metabolic process DNA metabolic process cell death nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process cellular component organization execution phase of apoptosis apoptotic DNA fragmentation cellular component disassembly involved in execution phase of apoptosis DNA catabolic process nucleic acid catabolic process cellular component disassembly catabolic process primary metabolic process DNA metabolic process cell death nucleic acid metabolic process macromolecule catabolic process nucleobase-containing compound catabolic process nucleobase-containing compound metabolic process cellular component organization execution phase of apoptosis apoptotic DNA fragmentation cellular component disassembly involved in execution phase of apoptosis DNA catabolic process nucleic acid catabolic process metabolic process cellular process apoptotic nuclear changes macromolecule metabolic process apoptotic process cellular component organization or biogenesis programmed cell death	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial membrane organelle inner membrane membrane mitochondrial inner membrane organelle envelope mitochondrial envelope organelle membrane membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen protein-containing complex nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR044929	DNA/RNA non-specific endonuclease superfamily	Homologous Superfamily
A, B, C, D	IPR044925	His-Me finger superfamily	Homologous Superfamily
A, B, C, D	IPR040255	Non-specific endonuclease	Family
A, B, C, D	IPR001604	DNA/RNA non-specific endonuclease/pyrophosphatase/phosphodiesterase domain	Domain
A, B, C, D	IPR020821	ENPP1-3/EXOG-like, endonuclease/phosphodiesterase domain	Domain
A, B, C, D	IPR041003	EXOG, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q9Y2C4	atrial fibrillation malignant mesothelioma

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.