5GK5 | pdb_00005gk5

Apo structure of fructose 1,6-bisphosphate aldolase from Escherichia coli at 1.9 angstrom resolution

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)
H	d5gk5h_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
G	d5gk5g_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
F	d5gk5f_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
E	d5gk5e_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
D	d5gk5d_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d5gk5c_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d5gk5b_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d5gk5a_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Aldolase	Class II FBP aldolase	Fructose-bisphosphate aldolase (FBP aldolase)	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Aldolase	8043561	3000445	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Aldolase	8043561	3000445	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	AMP-binding	e5gk5H1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
G	AMP-binding	e5gk5G1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
F	AMP-binding	e5gk5F1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
E	AMP-binding	e5gk5E1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
D	AMP-binding	e5gk5D1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
C	AMP-binding	e5gk5C1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
B	AMP-binding	e5gk5B1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)
A	AMP-binding	e5gk5A1	A: alpha bundles	X: P-loop domains-like	H: RelE-like	T: RelE-like	F: AMP-binding	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
G	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
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, G, H	PF01116	Fructose-bisphosphate aldolase class-II (F_bP_aldolase)	Fructose-bisphosphate aldolase class-II		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, G, H	Fructose-bisphosphate aldolase class 2	fructose-bisphosphate aldolase activity lyase activity catalytic activity carbon-carbon lyase activity aldehyde-lyase activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding ion binding fructose-bisphosphate aldolase activity lyase activity catalytic activity carbon-carbon lyase activity aldehyde-lyase activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process nucleoside phosphate catabolic process organic acid metabolic process nucleobase-containing compound metabolic process glycolytic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process purine ribonucleotide catabolic process phosphorus metabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process pyruvate metabolic process purine nucleoside diphosphate metabolic process primary metabolic process purine-containing compound catabolic process nucleotide metabolic process nucleobase-containing compound catabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process cellular respiration catabolic process ATP metabolic process energy derivation by oxidation of organic compounds purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process nucleotide catabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process ADP catabolic process carboxylic acid metabolic process generation of precursor metabolites and energy purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process cellular process purine ribonucleoside diphosphate catabolic process monosaccharide metabolic process small molecule biosynthetic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process gluconeogenesis hexose biosynthetic process biosynthetic process glucose metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000771	Fructose-bisphosphate aldolase, class-II	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR006411	Fructose-bisphosphate aldolase, class II, yeast/E. coli subtype	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.