4QI9 | pdb_00004qi9

Crystal structure of dihydrofolate reductase from Yersinia pestis complexed with methotrexate

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	d4qi9c1	Alpha and beta proteins (a/b)	Dihydrofolate reductase-like	Dihydrofolate reductase-like	automated matches	automated matches	(Yersinia pestis CO92 ) [TaxId: 214092 ],	SCOPe (2.08)
C	d4qi9c2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Yersinia pestis CO92 ) [TaxId: 214092 ],	SCOPe (2.08)
B	d4qi9b1	Alpha and beta proteins (a/b)	Dihydrofolate reductase-like	Dihydrofolate reductase-like	automated matches	automated matches	(Yersinia pestis CO92 ) [TaxId: 214092 ],	SCOPe (2.08)
B	d4qi9b2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Yersinia pestis CO92 ) [TaxId: 214092 ],	SCOPe (2.08)
A	d4qi9a1	Alpha and beta proteins (a/b)	Dihydrofolate reductase-like	Dihydrofolate reductase-like	automated matches	automated matches	(Yersinia pestis CO92 ) [TaxId: 214092 ],	SCOPe (2.08)
A	d4qi9a2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Yersinia pestis CO92 ) [TaxId: 214092 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	Dihydrofolate reductase-like	8068957	3001255	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Dihydrofolate reductase-like	8068957	3001255	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Dihydrofolate reductase-like	8068957	3001255	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	YajR_YAM	e4qi9C1	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: YajR_YAM	ECOD (develop294)
B	YajR_YAM	e4qi9B1	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: YajR_YAM	ECOD (develop294)
A	YajR_YAM	e4qi9A1	A: alpha bundles	X: YrdC/RibB	H: SH3	T: SH3	F: YajR_YAM	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.430.10	Alpha Beta	3-Layer(aba) Sandwich	Dihydrofolate Reductase, subunit A	Dihydrofolate Reductase, subunit A	CATH (4.3.0)
B	3.40.430.10	Alpha Beta	3-Layer(aba) Sandwich	Dihydrofolate Reductase, subunit A	Dihydrofolate Reductase, subunit A	CATH (4.3.0)
A	3.40.430.10	Alpha Beta	3-Layer(aba) Sandwich	Dihydrofolate Reductase, subunit A	Dihydrofolate Reductase, subunit A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF00186	Dihydrofolate reductase (DHFR_1)	Dihydrofolate reductase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Dihydrofolate reductase	NADP+ binding binding nucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding NADP binding small molecule binding dihydrofolate reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor NADP+ binding binding nucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding heterocyclic compound binding NADP binding small molecule binding dihydrofolate reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor oxidoreductase activity, acting on the CH-NH group of donors catalytic activity cation binding metal ion binding	small molecule metabolic process metabolic process cellular process one-carbon metabolic process oxoacid metabolic process dicarboxylic acid metabolic process dihydrofolate metabolic process carboxylic acid metabolic process modified amino acid metabolic process organic acid metabolic process folic acid-containing compound metabolic process pteridine-containing compound metabolic process folic acid metabolic process folic acid-containing compound biosynthetic process small molecule metabolic process metabolic process cellular process one-carbon metabolic process oxoacid metabolic process dicarboxylic acid metabolic process dihydrofolate metabolic process carboxylic acid metabolic process modified amino acid metabolic process organic acid metabolic process folic acid-containing compound metabolic process pteridine-containing compound metabolic process folic acid metabolic process folic acid-containing compound biosynthetic process modified amino acid biosynthetic process biosynthetic process pteridine-containing compound biosynthetic process tetrahydrofolate biosynthetic process tetrahydrofolate metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR017925	Dihydrofolate reductase conserved site	Conserved Site
A, B, C	IPR012259	Dihydrofolate reductase	Family
A, B, C	IPR024072	Dihydrofolate reductase-like domain superfamily	Homologous Superfamily
A, B, C	IPR001796	Dihydrofolate reductase 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.