4OOA | pdb_00004ooa

CRYSTAL STRUCTURE of NAF1 (MINER1): H114C THE REDOX-ACTIVE 2FE-2S PROTEIN

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d4ooaf_	Small proteins	Iron-sulfur cluster-binding zinc finger CDGSH type	Iron-sulfur cluster-binding zinc finger CDGSH type	Outer mitochondrial membrane protein mitoNEET-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d4ooae_	Small proteins	Iron-sulfur cluster-binding zinc finger CDGSH type	Iron-sulfur cluster-binding zinc finger CDGSH type	Outer mitochondrial membrane protein mitoNEET-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d4ooad_	Small proteins	Iron-sulfur cluster-binding zinc finger CDGSH type	Iron-sulfur cluster-binding zinc finger CDGSH type	Outer mitochondrial membrane protein mitoNEET-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4ooac_	Small proteins	Iron-sulfur cluster-binding zinc finger CDGSH type	Iron-sulfur cluster-binding zinc finger CDGSH type	Outer mitochondrial membrane protein mitoNEET-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4ooab_	Small proteins	Iron-sulfur cluster-binding zinc finger CDGSH type	Iron-sulfur cluster-binding zinc finger CDGSH type	Outer mitochondrial membrane protein mitoNEET-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4ooaa_	Small proteins	Iron-sulfur cluster-binding zinc finger CDGSH type	Iron-sulfur cluster-binding zinc finger CDGSH type	Outer mitochondrial membrane protein mitoNEET-like	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	CISD-like	8052386	3002112	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	CISD-like	8052386	3002112	SCOP2B (2022-06-29)
D	SCOP2 Family	Type 1 CISD	8044741	4004111	SCOP2 (2022-06-29)
D	SCOP2 Superfamily	CISD-like	8052386	3002112	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	CISD-like	8052386	3002112	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	CISD-like	8052386	3002112	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	CISD-like	8052386	3002112	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	zf-CDGSH_1	e4ooaF1	A: few secondary structure elements	X: CDGSH iron-sulfur domains (From Homology)	H: CDGSH iron-sulfur domains	T: Type 1 and 2	F: zf-CDGSH_1	ECOD (1.6)
E	zf-CDGSH_1	e4ooaE1	A: few secondary structure elements	X: CDGSH iron-sulfur domains (From Homology)	H: CDGSH iron-sulfur domains	T: Type 1 and 2	F: zf-CDGSH_1	ECOD (1.6)
D	zf-CDGSH_1	e4ooaD1	A: few secondary structure elements	X: CDGSH iron-sulfur domains (From Homology)	H: CDGSH iron-sulfur domains	T: Type 1 and 2	F: zf-CDGSH_1	ECOD (1.6)
C	zf-CDGSH_1	e4ooaC1	A: few secondary structure elements	X: CDGSH iron-sulfur domains (From Homology)	H: CDGSH iron-sulfur domains	T: Type 1 and 2	F: zf-CDGSH_1	ECOD (1.6)
B	zf-CDGSH_1	e4ooaB1	A: few secondary structure elements	X: CDGSH iron-sulfur domains (From Homology)	H: CDGSH iron-sulfur domains	T: Type 1 and 2	F: zf-CDGSH_1	ECOD (1.6)
A	zf-CDGSH_1	e4ooaA1	A: few secondary structure elements	X: CDGSH iron-sulfur domains (From Homology)	H: CDGSH iron-sulfur domains	T: Type 1 and 2	F: zf-CDGSH_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.5.90	Alpha Beta	3-Layer(aba) Sandwich	Ribosomal Protein L9	domain 1	CATH (4.3.0)
E	3.40.5.90	Alpha Beta	3-Layer(aba) Sandwich	Ribosomal Protein L9	domain 1	CATH (4.3.0)
D	3.40.5.90	Alpha Beta	3-Layer(aba) Sandwich	Ribosomal Protein L9	domain 1	CATH (4.3.0)
C	3.40.5.90	Alpha Beta	3-Layer(aba) Sandwich	Ribosomal Protein L9	domain 1	CATH (4.3.0)
B	3.40.5.90	Alpha Beta	3-Layer(aba) Sandwich	Ribosomal Protein L9	domain 1	CATH (4.3.0)
A	3.40.5.90	Alpha Beta	3-Layer(aba) Sandwich	Ribosomal Protein L9	domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF09360	Iron-binding zinc finger CDGSH type (zf-CDGSH)	Iron-binding zinc finger CDGSH type	The CDGSH-type zinc finger domain binds iron rather than zinc as a redox-active pH-labile 2Fe-2S cluster. The conserved sequence C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H is a defining feature of this family [1]. The domain is oriented towards the cytopl ...	The CDGSH-type zinc finger domain binds iron rather than zinc as a redox-active pH-labile 2Fe-2S cluster. The conserved sequence C-X-C-X2-(S/T)-X3-P-X-C-D-G-(S/A/T)-H is a defining feature of this family [1]. The domain is oriented towards the cytoplasm and is tethered to the mitochondrial membrane by a more N-terminal domain found in higher vertebrates, MitoNEET_N, Pfam:PF10660 [2]. The domain forms a uniquely folded homo-dimer and spans the outer mitochondrial membrane, orienting the iron-binding residues towards the cytoplasm [3].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	CDGSH iron-sulfur domain-containing protein 2	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding metal cluster binding small molecule binding RNA binding nucleic acid binding cation binding ion binding metal ion binding	catabolic process autophagy cellular process metabolic process autophagy of mitochondrion process utilizing autophagic mechanism regulation of biological process regulation of cellular process biological regulation regulation of catabolic process regulation of autophagy regulation of metabolic process	cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure mitochondrial membrane mitochondrion organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane cellular anatomical structure membrane membrane-bounded organelle intracellular anatomical structure mitochondrial membrane mitochondrion organelle outer membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope bounding membrane of organelle organelle mitochondrial envelope mitochondrial outer membrane outer membrane cytoplasm organelle membrane protein-containing complex endomembrane system perinuclear endoplasmic reticulum perinuclear region of cytoplasm endoplasmic reticulum organelle subcompartment endoplasmic reticulum subcompartment nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR018967	Iron-binding zinc finger, CDGSH type	Domain
A, B, C, D, E A, B, C, D, E, F	IPR019610	Iron sulphur domain-containing, mitoNEET, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F	IPR045131	CDGSH iron-sulfur domain-containing protein 1/2	Family
A, B, C, D, E A, B, C, D, E, F	IPR042216	MitoNEET, CDGSH iron-sulfur domain	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: Q8N5K1	Wolfram syndrome Wolfram syndrome 2 acquired metabolic disease attention deficit hyperactivity disorder, inattentive type Diabetes Mellitus, Non-Insulin-Dependent malignant ependymoma ovarian cancer Waterhouse-Friderichsen syndrome astrocytic tumor autism spectrum disorder glioblastoma oligodendroglioma pituitary cancer atrial fibrillation diabetes mellitus Wolfram syndrome Wolfram syndrome 2 acquired metabolic disease attention deficit hyperactivity disorder, inattentive type Diabetes Mellitus, Non-Insulin-Dependent malignant ependymoma ovarian cancer Waterhouse-Friderichsen syndrome astrocytic tumor autism spectrum disorder glioblastoma oligodendroglioma pituitary cancer atrial fibrillation diabetes mellitus intellectual disability osteosarcoma type 2 diabetes mellitus

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.