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	PF27526	e1vhcF1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: PF27526	ECOD (develop294)
E	PF27526	e1vhcE1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: PF27526	ECOD (develop294)
D	PF27526	e1vhcD1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: PF27526	ECOD (develop294)
C	PF27526	e1vhcC1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: PF27526	ECOD (develop294)
B	PF27526	e1vhcB1	A: alpha bundles	X: HTH	H: HTH	T: winged helix domain	F: PF27526	ECOD (develop294)
A	Aldolase	e1vhcA1	A: a/b barrels	X: TIM beta/alpha-barrel	H: TIM barrels	T: TIM barrels	F: Aldolase	ECOD (develop294)

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	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.