6U4O | pdb_00006u4o

Crystal structure of recombinant class II fumarase from Schistosoma mansoni

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
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 [auth B]	d6u4ob_	All alpha proteins	L-aspartase-like	L-aspartase-like	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)
C [auth D]	d6u4od_	All alpha proteins	L-aspartase-like	L-aspartase-like	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)
B [auth A]	d6u4oa_	All alpha proteins	L-aspartase-like	L-aspartase-like	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)
A [auth C]	d6u4oc_	All alpha proteins	L-aspartase-like	L-aspartase-like	automated matches	automated matches	Blood fluke (Schistosoma mansoni ) [TaxId: 6183 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B [auth A]	SCOP2 Family	L-aspartase/fumarase	8101302	4001433	SCOP2 (2022-06-29)
B [auth A]	SCOP2 Superfamily	L-aspartase-like	8101303	3001572	SCOP2 (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 [auth B]	Oxidored_q2	e6u4oB1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Oxidored_q2	ECOD (v294.1)
C [auth D]	Oxidored_q2	e6u4oD1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Oxidored_q2	ECOD (v294.1)
B [auth A]	Oxidored_q2	e6u4oA1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Oxidored_q2	ECOD (v294.1)
A [auth C]	Oxidored_q2	e6u4oC1	A: a/b three-layered sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Oxidored_q2	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C], B [auth A], C [auth D], D [auth B]	PF00206	Lyase (Lyase_1)	Lyase		Domain
A [auth C], B [auth A], C [auth D], D [auth B]	PF10415	Fumarase C C-terminus (FumaraseC_C)	Fumarase C C-terminus	Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Kreb's cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The ...	Fumarase C catalyses the stereo-specific interconversion of fumarate to L-malate as part of the Kreb's cycle. The full-length protein forms a tetramer with visible globular shape. FumaraseC_C is the C-terminal 65 residues referred to as domain 3. The core of the molecule consists of a bundle of 20 alpha-helices from the five-helix bundle of domain 2. The projections from the core of the tetramer are generated from domains 1 and 3 of each subunit [1]. FumaraseC_C does not appear to be part of either the active site or the activation site but is helical in structure forming a little bundle.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C], B [auth A], C [auth D], D [auth B]	Fumarate hydratase	hydro-lyase activity lyase activity catalytic activity fumarate hydratase activity carbon-oxygen lyase activity	aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process small molecule metabolic process fumarate metabolic process organic acid metabolic process aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process small molecule metabolic process fumarate metabolic process organic acid metabolic process malate metabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis nitrogen cycle metabolic process biosynthetic process urea cycle urea metabolic process arginine metabolic process amino acid metabolic process alpha-amino acid metabolic process	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C], B [auth A], C [auth D], D [auth B]	IPR000362	Fumarate lyase family	Family
A [auth C], B [auth A], C [auth D], D [auth B]	IPR022761	Fumarate lyase, N-terminal	Domain
A [auth C], B [auth A], C [auth D], D [auth B]	IPR024083	Fumarase/histidase, N-terminal	Homologous Superfamily
A [auth C], B [auth A], C [auth D], D [auth B]	IPR005677	Fumarate hydratase, class II	Family
A [auth C], B [auth A], C [auth D], D [auth B]	IPR008948	L-Aspartase-like	Homologous Superfamily
A [auth C], B [auth A], C [auth D], D [auth B]	IPR018951	Fumarase C, C-terminal	Domain
A [auth C], B [auth A], C [auth D], D [auth B]	IPR020557	Fumarate lyase, conserved site	Conserved Site

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.