3R6V | pdb_00003r6v

Crystal structure of aspartase from Bacillus sp. YM55-1 with bound L-aspartate

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
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3r6va_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
B	d3r6vb_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
C	d3r6vc_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
D	d3r6vd_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
E	d3r6ve_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
G	d3r6vg_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
H	d3r6vh_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)
F	d3r6vf_	All alpha proteins	L-aspartase-like	L-aspartase-like	L-aspartase/fumarase	L-aspartate ammonia lyase	(Bacillus sp. YM55-1 ) [TaxId: 96471 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	L-aspartase-like	8032260	3001572	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)
A	rve	e3r6vA1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
B	rve	e3r6vB1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
C	rve	e3r6vC1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
D	rve	e3r6vD1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
E	rve	e3r6vE1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
G	rve	e3r6vG1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
H	rve	e3r6vH1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)
F	rve	e3r6vF1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: rve	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
A	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
A	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
B	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
B	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
B	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
C	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
C	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
C	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
D	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
D	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
D	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
E	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
E	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
E	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
G	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
G	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
G	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
H	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
H	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
H	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	CATH (4.3.0)
F	1.10.275.10	Mainly Alpha	Orthogonal Bundle	Fumarase C	Chain B, domain 1	CATH (4.3.0)
F	1.20.200.10	Mainly Alpha	Up-down Bundle	Fumarase C	Chain A, domain 2	CATH (4.3.0)
F	1.10.40.30	Mainly Alpha	Orthogonal Bundle	Ribonucleotide Reductase Protein R1	domain 1	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	Aspartase	aspartate ammonia-lyase activity lyase activity ammonia-lyase activity catalytic activity carbon-nitrogen lyase activity	aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process amino acid metabolic process organic acid metabolic process alpha-amino acid metabolic process aerobic respiration cellular respiration tricarboxylic acid cycle energy derivation by oxidation of organic compounds primary metabolic process metabolic process cellular process generation of precursor metabolites and energy oxoacid metabolic process dicarboxylic acid metabolic process carboxylic acid metabolic process amino acid metabolic process organic acid metabolic process alpha-amino acid metabolic process small molecule metabolic process aspartate 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	IPR004708	Aspartate ammonia-lyase	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR000362	Fumarate lyase family	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR022761	Fumarate lyase, N-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR024083	Fumarase/histidase, N-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR008948	L-Aspartase-like	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR018951	Fumarase C, C-terminal	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR020557	Fumarate lyase, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR051546	Class-II Aspartate Ammonia-Lyase	Family

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A, B, C	Aspartate Ammonia Lyase M-CSA #1003	Aspartate Ammonia Lyase is one of the three ammonia lyases that belong to aspartate/fumarase superfamily. It catalyses the reversible reaction of L-aspartate to make ammonia and fumarate and is important in microbial nitrogen metabolism. It is also an industrial precursor for the synthesis of food additives and artificial sweeteners.	Defined by 9 residues: THR:A-187HIS:A-188THR:B-101SER:B-140THR:B-141ASN:B-142SER:C-318SER:C-319LYS:C-324 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 4.3.1.1 (PDB Primary Data) Search M-CSA Motif + EC 4.3.1.1