3GFS | pdb_00003gfs

Structure of YhdA, K109D/D137K variant

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)
L	d3gfsl_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
K	d3gfsk_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
J	d3gfsj_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
I	d3gfsi_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
H	d3gfsh_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
G	d3gfsg_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
F	d3gfsf_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
E	d3gfse_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
D	d3gfsd_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
C	d3gfsc_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
B	d3gfsb_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
A	d3gfsa_	Alpha and beta proteins (a/b)	Flavodoxin-like	Flavoproteins	NADPH-dependent FMN reductase	automated matches	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Flavoproteins	8033468	3001217	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Flavoproteins	8033468	3001217	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)
L	FMN_red	e3gfsL1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
K	FMN_red	e3gfsK1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
J	FMN_red	e3gfsJ1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
I	FMN_red	e3gfsI1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
H	FMN_red	e3gfsH1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
G	FMN_red	e3gfsG1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
F	FMN_red	e3gfsF1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
E	FMN_red	e3gfsE1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
D	FMN_red	e3gfsD1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
C	FMN_red	e3gfsC1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
B	FMN_red	e3gfsB1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)
A	FMN_red	e3gfsA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Flavoproteins/Phosphotyrosine protein phosphatases-like	T: Flavoproteins	F: FMN_red	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
K	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
J	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
I	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
H	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
G	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
F	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
E	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
D	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
C	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
B	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	CATH (4.3.0)
A	3.40.50.360	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Flavodoxin domain	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, G, H, I, J, K, L	PF03358	NADPH-dependent FMN reductase (FMN_red)	NADPH-dependent FMN reductase		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, G, H, I, J, K, L	FMN-dependent NADPH-azoreductase	oxidoreductase activity catalytic activity FMN binding binding nucleoside phosphate binding ion binding anion binding nucleotide binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding identical protein binding protein binding	-	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR050712	NAD(P)H-dependent reductase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR029039	Flavoprotein-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR005025	NADPH-dependent FMN reductase-like domain	Domain

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.