1VHC | pdb_00001vhc

Crystal structure of a putative KHG/KDPG aldolase

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)
F	d1vhcf1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class I aldolase	Hypothetical protein HI0047	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
F	d1vhcf3	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
F	d1vhcf2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
E	d1vhce1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class I aldolase	Hypothetical protein HI0047	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
E	d1vhce2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
D	d1vhcd1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class I aldolase	Hypothetical protein HI0047	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
D	d1vhcd2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
C	d1vhcc1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class I aldolase	Hypothetical protein HI0047	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
C	d1vhcc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1vhcb1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class I aldolase	Hypothetical protein HI0047	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
B	d1vhcb2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
A	d1vhca1	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class I aldolase	Hypothetical protein HI0047	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)
A	d1vhca2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Haemophilus influenzae ) [TaxId: 727 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Aldolase	8035795	3000445	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Aldolase	8035795	3000445	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Aldolase	8035795	3000445	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Aldolase	8035795	3000445	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Aldolase	8035795	3000445	SCOP2B (2022-06-29)
A	SCOP2 Family	Class I aldolase	8023415	4003216	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Aldolase	8035795	3000445	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)
F	Aldolase	e1vhcF1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Aldolase	ECOD (1.6)
E	Aldolase	e1vhcE1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Aldolase	ECOD (1.6)
D	Aldolase	e1vhcD1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Aldolase	ECOD (1.6)
C	Aldolase	e1vhcC1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Aldolase	ECOD (1.6)
B	Aldolase	e1vhcB1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Aldolase	ECOD (1.6)
A	Aldolase	e1vhcA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels (From Topology)	T: TIM barrels	F: Aldolase	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
E	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
D	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
C	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
B	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	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	PF01081	KDPG and KHG aldolase (Aldolase)	KDPG and KHG aldolase	This family includes the following members: 4-hydroxy-2-oxoglutarate aldolase (KHG-aldolase) Phospho-2-dehydro-3-deoxygluconate aldolase (KDPG-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	Putative KHG/KDPG aldolase	lyase activity catalytic activity carbon-carbon lyase activity aldehyde-lyase activity oxo-acid-lyase activity (4S)-4-hydroxy-2-oxoglutarate aldolase activity 2-dehydro-3-deoxy-phosphogluconate aldolase activity (R,S)-4-hydroxy-2-oxoglutarate aldolase activity	Entner-Doudoroff pathway through 6-phosphogluconate carbohydrate metabolic process pyruvate metabolic process catabolic process oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process carboxylic acid metabolic process primary metabolic process glyceraldehyde-3-phosphate metabolic process organic acid metabolic process aldehyde metabolic process organophosphate metabolic process phosphate-containing compound metabolic process Entner-Doudoroff pathway through 6-phosphogluconate carbohydrate metabolic process pyruvate metabolic process catabolic process oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process carboxylic acid metabolic process primary metabolic process glyceraldehyde-3-phosphate metabolic process organic acid metabolic process aldehyde metabolic process organophosphate metabolic process phosphate-containing compound metabolic process metabolic process cellular process small molecule metabolic process Entner-Doudoroff pathway monocarboxylic acid metabolic process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR031338	KDPG/KHG aldolase, active site 2	Active Site
A, B, C, D, E A, B, C, D, E, F	IPR000887	KDPG/KHG aldolase	Family
A, B, C, D, E A, B, C, D, E, F	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR031337	KDPG/KHG aldolase, active site 1	Active 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.