1D4C | pdb_00001d4c

CRYSTAL STRUCTURE OF THE UNCOMPLEXED FORM OF THE FLAVOCYTOCHROME C FUMARATE REDUCTASE OF SHEWANELLA PUTREFACIENS STRAIN MR-1

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)
D	d1d4cd1	All alpha proteins	Multiheme cytochromes	Multiheme cytochromes	Di-heme elbow motif	Flavocytochrome c3 (respiratory fumarate reductase), N-terminal domain	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
D	d1d4cd2	Alpha and beta proteins (a/b)	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
D	d1d4cd3	Alpha and beta proteins (a+b)	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
C	d1d4cc1	All alpha proteins	Multiheme cytochromes	Multiheme cytochromes	Di-heme elbow motif	Flavocytochrome c3 (respiratory fumarate reductase), N-terminal domain	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
C	d1d4cc2	Alpha and beta proteins (a/b)	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
C	d1d4cc3	Alpha and beta proteins (a+b)	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
B	d1d4cb1	All alpha proteins	Multiheme cytochromes	Multiheme cytochromes	Di-heme elbow motif	Flavocytochrome c3 (respiratory fumarate reductase), N-terminal domain	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
B	d1d4cb2	Alpha and beta proteins (a/b)	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
B	d1d4cb3	Alpha and beta proteins (a+b)	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
A	d1d4ca1	All alpha proteins	Multiheme cytochromes	Multiheme cytochromes	Di-heme elbow motif	Flavocytochrome c3 (respiratory fumarate reductase), N-terminal domain	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
A	d1d4ca2	Alpha and beta proteins (a/b)	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)
A	d1d4ca3	Alpha and beta proteins (a+b)	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain	Flavocytochrome c3 (respiratory fumarate reductase)	(Shewanella oneidensis ) [TaxId: 70863 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Succinate dehydrogenase/fumarate reductase domain-like	8058548	3000054	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Di-heme elbow motif	8058546	3000145	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Succinate dehydrogenase/fumarate reductase domain-like	8058548	3000054	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Di-heme elbow motif	8058546	3000145	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Succinate dehydrogenase/fumarate reductase domain-like	8058548	3000054	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Di-heme elbow motif	8058546	3000145	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Di-heme elbow motif	8058546	3000145	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Succinate dehydrogenase/fumarate reductase domain-like	8058548	3000054	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)
D	Enolase_C	e1d4cD2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Enolase_C	ECOD (develop294)
D	NAD_binding_8	e1d4cD3	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: NAD_binding_8	ECOD (develop294)
D	Cobalamin_bind	e1d4cD4	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
C	Enolase_C	e1d4cC2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Enolase_C	ECOD (develop294)
C	NAD_binding_8	e1d4cC3	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: NAD_binding_8	ECOD (develop294)
C	Cobalamin_bind	e1d4cC4	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
B	Enolase_C	e1d4cB2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Enolase_C	ECOD (develop294)
B	NAD_binding_8	e1d4cB3	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: NAD_binding_8	ECOD (develop294)
B	Cobalamin_bind	e1d4cB4	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
A	Enolase_C	e1d4cA2	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: Enolase_C	ECOD (develop294)
A	NAD_binding_8	e1d4cA3	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: NAD_binding_8	ECOD (develop294)
A	Cobalamin_bind	e1d4cA4	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.1130.10	Mainly Alpha	Orthogonal Bundle	Flavocytochrome C3	Chain A, domain 2	CATH (4.3.0)
D	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
D	3.90.700.10	Alpha Beta	Alpha-Beta Complex	Flavocytochrome C3	Chain A, domain 1	CATH (4.3.0)
C	1.10.1130.10	Mainly Alpha	Orthogonal Bundle	Flavocytochrome C3	Chain A, domain 2	CATH (4.3.0)
C	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
C	3.90.700.10	Alpha Beta	Alpha-Beta Complex	Flavocytochrome C3	Chain A, domain 1	CATH (4.3.0)
B	1.10.1130.10	Mainly Alpha	Orthogonal Bundle	Flavocytochrome C3	Chain A, domain 2	CATH (4.3.0)
B	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
B	3.90.700.10	Alpha Beta	Alpha-Beta Complex	Flavocytochrome C3	Chain A, domain 1	CATH (4.3.0)
A	1.10.1130.10	Mainly Alpha	Orthogonal Bundle	Flavocytochrome C3	Chain A, domain 2	CATH (4.3.0)
A	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
A	3.90.700.10	Alpha Beta	Alpha-Beta Complex	Flavocytochrome C3	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF14537	Cytochrome c3 (Cytochrom_c3_2)	Cytochrome c3	-	Family
A, B, C, D	PF00890	FAD binding domain (FAD_binding_2)	FAD binding domain	This family includes members that bind FAD. This family includes the flavoprotein subunits from succinate and fumarate dehydrogenase, aspartate oxidase and the alpha subunit of adenylylsulphate reductase.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	FLAVOCYTOCHROME C FUMARATE REDUCTASE	FMN binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding metal ion binding oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors FMN binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cation binding metal ion binding oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity	-	cellular anatomical structure periplasmic space intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR036280	Multiheme cytochrome superfamily	Homologous Superfamily
A, B, C, D	IPR003953	FAD-dependent oxidoreductase 2, FAD-binding domain	Domain
A, B, C, D	IPR012286	Tetraheme cytochrome domain	Domain
A, B, C, D	IPR050315	FAD-dependent oxidoreductase 2	Family
A, B, C, D	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR010960	Flavocytochrome c	Family
A, B, C, D	IPR027477	Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain superfamily	Homologous Superfamily

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.