6LRT | pdb_00006lrt

Crystal structure of isocitrate lyase (Caur_3889) from Chloroflexus aurantiacus in complex with isocitrate and manganese ion

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H [auth V]	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2B (2022-06-29)
G [auth S]	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2B (2022-06-29)
F [auth P]	SCOP2 Family	Phosphoenolpyruvate mutase/Isocitrate lyase-like	8103896	4003532	SCOP2 (2022-06-29)
F [auth P]	SCOP2 Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2 (2022-06-29)
E [auth M]	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2B (2022-06-29)
D [auth J]	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2B (2022-06-29)
C [auth G]	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8103897	3000510	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)
H [auth V]	DHDPS	e6lrtV1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
G [auth S]	DHDPS	e6lrtS1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
F [auth P]	DHDPS	e6lrtP1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
E [auth M]	DHDPS	e6lrtM1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
D [auth J]	DHDPS	e6lrtJ1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
C [auth G]	DHDPS	e6lrtG1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
B [auth D]	DHDPS	e6lrtD1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: RIFT-related	T: FMN-binding split barrel 2	F: DHDPS	ECOD (develop294)
A	Ribosomal_L14e	e6lrtA1	A: alpha bundles	X: CNF1/YfiH-like putative cysteine hydrolases	H: Bromodomain	T: Bromodomain	F: Ribosomal_L14e	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H [auth V]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
G [auth S]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
F [auth P]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
E [auth M]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
D [auth J]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
C [auth G]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
B [auth D]	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
A	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	PF00463	Isocitrate lyase family (ICL)	Isocitrate lyase family		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	Isocitrate lyase	isocitrate lyase activity oxo-acid-lyase activity lyase activity catalytic activity carbon-carbon lyase activity cation binding ion binding binding metal ion binding small molecule binding	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 carbohydrate metabolic process glyoxylate metabolic process glyoxylate cycle oxoacid metabolic process carboxylic acid 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 carbohydrate metabolic process glyoxylate metabolic process glyoxylate cycle oxoacid metabolic process carboxylic acid metabolic process organic acid metabolic process aldehyde metabolic process small molecule metabolic process monocarboxylic acid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	IPR015813	Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily	Homologous Superfamily
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	IPR018523	Isocitrate lyase/phosphorylmutase, conserved site	Conserved Site
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	IPR039556	ICL/PEPM domain	Domain
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	IPR040442	Pyruvate kinase-like domain superfamily	Homologous Superfamily
A, B [auth D], C [auth G], D [auth J], E [auth M], A, B [auth D], C [auth G], D [auth J], E [auth M], F [auth P], G [auth S], H [auth V]	IPR006254	Isocitrate lyase	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.