3W4Y | pdb_00003w4y

Crystal structure of yeast Erv1 core

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d3w4yc1	All alpha proteins	Four-helical up-and-down bundle	FAD-dependent thiol oxidase	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
C	d3w4yc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
B	d3w4yb1	All alpha proteins	Four-helical up-and-down bundle	FAD-dependent thiol oxidase	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
B	d3w4yb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)
A	d3w4ya_	All alpha proteins	Four-helical up-and-down bundle	FAD-dependent thiol oxidase	automated matches	automated matches	Baker's yeast (Saccharomyces cerevisiae S288C ) [TaxId: 559292 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	FAD-dependent thiol oxidase	8084643	3001745	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FAD-dependent thiol oxidase	8084643	3001745	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FAD-dependent thiol oxidase	8084643	3001745	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)
C	DNA_pol_B_exo1	e3w4yC1	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: DNA_pol_B_exo1	ECOD (v294.1)
B	SmpA_OmlA	e3w4yB1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: SmpA_OmlA	ECOD (v294.1)
A	SmpA_OmlA	e3w4yA1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: SmpA_OmlA	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	1.20.120.310	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	ERV/ALR sulfhydryl oxidase domain	CATH (4.3.0)
B	1.20.120.310	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	ERV/ALR sulfhydryl oxidase domain	CATH (4.3.0)
A	1.20.120.310	Mainly Alpha	Up-down Bundle	Four Helix Bundle (Hemerythrin (Met), subunit A)	ERV/ALR sulfhydryl oxidase domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF04777	Erv1 / Alr family (Evr1_Alr)	Erv1 / Alr family	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Mitochondrial FAD-linked sulfhydryl oxidase ERV1	oxidoreductase activity, acting on a sulfur group of donors disulfide oxidoreductase activity oxidoreductase activity oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor thiol oxidase activity catalytic activity catalytic activity, acting on a protein protein-disulfide reductase activity flavin-dependent sulfhydryl oxidase activity flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding oxidoreductase activity, acting on a sulfur group of donors disulfide oxidoreductase activity oxidoreductase activity oxidoreductase activity, acting on a sulfur group of donors, oxygen as acceptor thiol oxidase activity catalytic activity catalytic activity, acting on a protein protein-disulfide reductase activity flavin-dependent sulfhydryl oxidase activity flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding small molecule binding	intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis establishment of protein localization transport protein import into mitochondrial intermembrane space establishment of localization intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis establishment of protein localization transport protein import into mitochondrial intermembrane space establishment of localization transmembrane transport localization intercellular transport establishment of protein localization to organelle protein transmembrane transport protein transport macromolecule localization protein localization to organelle protein localization to mitochondrion cellular process intracellular protein localization protein maturation protein metabolic process mitochondrial disulfide relay system primary metabolic process gene expression macromolecule biosynthetic process protein folding biosynthetic process metabolic process macromolecule metabolic process cellular response to stimulus response to oxidative stress cellular response to chemical stimulus response to stimulus cellular response to stress response to stress response to chemical cellular response to oxidative stress cellular response to chemical stress	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle envelope organelle lumen membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle mitochondrial intermembrane space membrane-enclosed lumen intracellular organelle lumen organelle envelope lumen organelle envelope organelle lumen mitochondrial envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR036774	ERV/ALR sulfhydryl oxidase domain superfamily	Homologous Superfamily
A, B, C	IPR017905	ERV/ALR sulfhydryl oxidase domain	Domain
A, B, C	IPR039799	Sulfhydryl oxidase ALR/ERV	Family

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.