5ZYT | pdb_00005zyt

Crystal structure of human MGME1 with 3' overhang double strand DNA3

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	T6SS_VasJ	e5zytD1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: T6SS_VasJ	ECOD (v294.1)
C	T6SS_VasJ	e5zytC1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: T6SS_VasJ	ECOD (v294.1)
B	T6SS_VasJ	e5zytB1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: T6SS_VasJ	ECOD (v294.1)
A	T6SS_VasJ	e5zytA1	A: a/b three-layered sandwiches	X: PriB N-terminal domain-like	H: Aconitase iron-sulfur domain	T: Aconitase iron-sulfur domain	F: T6SS_VasJ	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF12705	PD-(D/E)XK nuclease superfamily (PDDEXK_1)	PD-(D/E)XK nuclease superfamily	Members of this family belong to the PD-(D/E)XK nuclease superfamily	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E, F, G, H	DNA (5'-D(PCPTPTPCPTPTPCPC)-3')	-	-	-
A, B, C, D	Mitochondrial genome maintenance exonuclease 1	DNA exonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA nuclease activity single-stranded DNA exodeoxyribonuclease activity catalytic activity, acting on DNA nuclease activity hydrolase activity, acting on ester bonds catalytic activity exonuclease activity single-stranded DNA 5'-3' DNA exonuclease activity 5'-3' exonuclease activity 5'-3' DNA exonuclease activity DNA exonuclease activity catalytic activity, acting on a nucleic acid hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA nuclease activity single-stranded DNA exodeoxyribonuclease activity catalytic activity, acting on DNA nuclease activity hydrolase activity, acting on ester bonds catalytic activity exonuclease activity single-stranded DNA 5'-3' DNA exonuclease activity 5'-3' exonuclease activity 5'-3' DNA exonuclease activity 5'-flap endonuclease activity endonuclease activity DNA endonuclease activity flap endonuclease activity DNA endonuclease activity, producing 5'-phosphomonoesters	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process mitochondrial DNA metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress mitochondrial DNA repair metabolic process cellular process macromolecule metabolic process cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process mitochondrial DNA metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress mitochondrial DNA repair metabolic process cellular process macromolecule metabolic process DNA repair DNA-templated DNA replication DNA replication mitochondrial DNA replication	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane-enclosed lumen mitochondrial matrix intracellular organelle lumen organelle lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR038726	PD-(D/E)XK endonuclease-like domain, AddAB-type	Domain
A, B, C, D	IPR011604	PD-(D/E)XK endonuclease-like domain superfamily	Homologous Superfamily
A, B, C, D	IPR011335	Restriction endonuclease type II-like	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q9BQP7	mitochondrial DNA depletion syndrome 11 respiratory failure Emaciation ophthalmoplegia osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor astrocytic tumor Hashimoto thyroiditis juvenile dermatomyositis malignant glioma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm progressive external ophthalmoplegia atypical teratoid rhabdoid tumor mitochondrial DNA depletion syndrome 11 respiratory failure Emaciation ophthalmoplegia osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor astrocytic tumor Hashimoto thyroiditis juvenile dermatomyositis malignant glioma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm progressive external ophthalmoplegia atypical teratoid rhabdoid tumor inborn mitochondrial metabolism disorder large cell medulloblastoma medulloblastoma pilocytic astrocytoma subependymal giant cell astrocytoma glioblastoma malignant ependymoma non-small cell lung carcinoma

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.