3AOG | pdb_00003aog

Crystal structure of glutamate dehydrogenase (GdhB) from Thermus thermophilus (Glu bound form)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
L	d3aogl2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
L	d3aogl1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
K	d3aogk2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
K	d3aogk1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
J	d3aogj2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
J	d3aogj1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
I	d3aogi2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
I	d3aogi1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
H	d3aogh2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
H	d3aogh1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
G	d3aogg2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
G	d3aogg1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
F	d3aogf2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
F	d3aogf1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
E	d3aoge2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
E	d3aoge1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
D	d3aogd2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
D	d3aogd1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
C	d3aogc2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
C	d3aogc1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
B	d3aogb2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
B	d3aogb1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
A	d3aoga2	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)
A	d3aoga1	Alpha and beta proteins (a/b)	Aminoacid dehydrogenase-like, N-terminal domain	Aminoacid dehydrogenase-like, N-terminal domain	automated matches	automated matches	(Thermus thermophilus HB27 ) [TaxId: 262724 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	MtdA-like	8067021	3000046	SCOP2B (2022-06-29)
A	SCOP2 Family	Aminoacid dehydrogenase-like	8067020	4000004	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	MtdA-like	8067021	3000046	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)
L	Pkinase, APH	e3aogL1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
L		e3aogL2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
K	Pkinase, APH	e3aogK1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
K		e3aogK2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
J	Pkinase, APH	e3aogJ1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
J		e3aogJ2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
I	Pkinase, APH	e3aogI1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
I		e3aogI2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
H	Pkinase, APH	e3aogH1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
H		e3aogH2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
G	Pkinase, APH	e3aogG1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
G		e3aogG2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
F	Pkinase, APH	e3aogF1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
F		e3aogF2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
E	Pkinase, APH	e3aogE1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
E		e3aogE2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
D	Pkinase, APH	e3aogD1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
D		e3aogD2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
C	Pkinase, APH	e3aogC1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
C		e3aogC2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
B	Pkinase, APH	e3aogB1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: Pkinase, APH	ECOD (develop294)
B		e3aogB2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)
A	Lipocalin_7	e3aogA1	A: alpha bundles	X: Cystatin-like	H: sensor domains	T: sensor domains	F: Lipocalin_7	ECOD (develop294)
A		e3aogA2	A: alpha bundles	X: P-loop domains-like	H: ARM repeat	T: ARM repeat	F:	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
L	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
L	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
K	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
K	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
K	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
J	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
J	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
J	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
I	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
I	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
I	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
H	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
H	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
H	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
G	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
G	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
G	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
F	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
F	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
F	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
E	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
E	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
E	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
D	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
C	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	1.10.8.1210	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	3.40.50.10860	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Leucine Dehydrogenase, chain A, domain 1	CATH (4.3.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)

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, I, J, K, L	Glutamate dehydrogenase	oxidoreductase activity, acting on the CH-NH2 group of donors amino-acid dehydrogenase [NAD(P)+] activity oxidoreductase activity L-glutamate dehydrogenase [NAD(P)+] activity L-glutamate dehydrogenase (NAD+) activity oxidoreductase activity, acting on the CH-NH2 group of donors, NAD or NADP as acceptor catalytic activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding	catabolic process oxoacid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process dicarboxylic acid catabolic process alpha-amino acid metabolic process carboxylic acid catabolic process glutamate metabolic process small molecule metabolic process amino acid catabolic process L-glutamate catabolic process dicarboxylic acid metabolic process L-amino acid catabolic process catabolic process oxoacid metabolic process amino acid metabolic process organic acid catabolic process organic acid metabolic process dicarboxylic acid catabolic process alpha-amino acid metabolic process carboxylic acid catabolic process glutamate metabolic process small molecule metabolic process amino acid catabolic process L-glutamate catabolic process dicarboxylic acid metabolic process L-amino acid catabolic process carboxylic acid metabolic process primary metabolic process L-amino acid metabolic process proteinogenic amino acid metabolic process alpha-amino acid catabolic process proteinogenic amino acid catabolic process metabolic process cellular process small molecule catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR006095	Glutamate/phenylalanine/leucine/valine/L-tryptophan dehydrogenase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR046346	Aminoacid dehydrogenase-like, N-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR033922	NAD(P) binding domain of glutamate dehydrogenase	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR006096	Glutamate/phenylalanine/leucine/valine/L-tryptophan dehydrogenase, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR006097	Glutamate/phenylalanine/leucine/valine/L-tryptophan dehydrogenase, dimerisation domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR014362	Glutamate dehydrogenase	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR033524	Leu/Phe/Val dehydrogenases active site	Active Site