5VXS | pdb_00005vxs

Crystal Structure Analysis of human CLYBL in apo form

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
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8100188	3000510	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8100188	3000510	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8100188	3000510	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8100188	3000510	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Phosphoenolpyruvate/pyruvate domain	8100188	3000510	SCOP2B (2022-06-29)
F	SCOP2 Family	HpcH/HpaI aldolase	8100187	4003274	SCOP2 (2022-06-29)
F	SCOP2 Superfamily	Phosphoenolpyruvate/pyruvate domain	8100188	3000510	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)
A	HpcH_HpaI	e5vxsA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HpcH_HpaI	ECOD (1.6)
B	HpcH_HpaI	e5vxsB1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HpcH_HpaI	ECOD (1.6)
C	HpcH_HpaI	e5vxsC1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HpcH_HpaI	ECOD (1.6)
D	HpcH_HpaI	e5vxsD1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HpcH_HpaI	ECOD (1.6)
E	HpcH_HpaI	e5vxsE1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HpcH_HpaI	ECOD (1.6)
F	HpcH_HpaI	e5vxsF1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: HpcH_HpaI	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
B	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
D	3.20.20.60	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Phosphoenolpyruvate-binding domains	CATH (utative)
E	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, C, D, E A, B, C, D, E, F	PF03328	HpcH/HpaI aldolase/citrate lyase (HpcH_HpaI)	HpcH/HpaI aldolase/citrate lyase	This family includes 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase and 4-hydroxy-2-oxovalerate aldolase.	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	Citrate lyase subunit beta-like protein, mitochondrial	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding (S)-citramalyl-CoA lyase activity oxo-acid-lyase activity lyase activity catalytic activity carbon-carbon lyase activity acyltransferase activity acyltransferase activity, acyl groups converted into alkyl on transfer transferase activity cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding (S)-citramalyl-CoA lyase activity oxo-acid-lyase activity lyase activity catalytic activity carbon-carbon lyase activity acyltransferase activity acyltransferase activity, acyl groups converted into alkyl on transfer transferase activity malate synthase activity hydrolase activity	cobalamin metabolic process regulation of biological process regulation of cellular process tetrapyrrole metabolic process regulation of cobalamin metabolic process biological regulation positive regulation of biological process positive regulation of metabolic process regulation of tetrapyrrole metabolic process metabolic process cellular process regulation of metabolic process positive regulation of cobalamin metabolic process positive regulation of cellular process cobalamin metabolic process regulation of biological process regulation of cellular process tetrapyrrole metabolic process regulation of cobalamin metabolic process biological regulation positive regulation of biological process positive regulation of metabolic process regulation of tetrapyrrole metabolic process metabolic process cellular process regulation of metabolic process positive regulation of cobalamin metabolic process positive regulation of cellular process protein-containing complex organization protein trimerization cellular component organization cellular component biogenesis cellular component assembly protein homotrimerization protein complex oligomerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR015813	Pyruvate/Phosphoenolpyruvate kinase-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR005000	HpcH/HpaI aldolase/citrate lyase domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011206	Citrate lyase beta subunit-like	Family
A, B, C, D, E A, B, C, D, E, F	IPR040186	Citramalyl-CoA lyase	Family
A, B, C, D, E A, B, C, D, E, F	IPR040442	Pyruvate kinase-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: Q8N0X4	adrenal cortex carcinoma breast cancer osteosarcoma rheumatoid arthritis ulcerative colitis astrocytic tumor glioblastoma pituitary cancer transitional cell carcinoma attention deficit hyperactivity disorder, inattentive type medulloblastoma primitive neuroectodermal tumor tuberculosis

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.