3R25 | pdb_00003r25

Crystal structure of enolase superfamily member from Vibrionales bacterium complexed with Mg and Glycerol in the active site

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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)
A	d3r25a2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
A	d3r25a1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
A	d3r25a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
B	d3r25b2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
B	d3r25b1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
B	d3r25b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
D	d3r25d2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
D	d3r25d1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
D	d3r25d3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
E	d3r25e2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
E	d3r25e1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
E	d3r25e3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
F	d3r25f2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
F	d3r25f1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
F	d3r25f3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
H	d3r25h2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
H	d3r25h1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
H	d3r25h3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
G	d3r25g2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
G	d3r25g1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
G	d3r25g3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
C	d3r25c2	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Enolase C-terminal domain-like	D-glucarate dehydratase-like	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
C	d3r25c1	Alpha and beta proteins (a+b)	Enolase N-terminal domain-like	Enolase N-terminal domain-like	automated matches	automated matches	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)
C	d3r25c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Vibrionales bacterium SWAT-3 ) [TaxId: 391574 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	BclA_C	e3r25A1	A: alpha arrays	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: BclA_C	ECOD (v295.2)
B	AHSA1	e3r25B3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)
D	AHSA1	e3r25D3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)
E	AHSA1	e3r25E3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)
F	AHSA1	e3r25F3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)
H	AHSA1	e3r25H3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)
G	AHSA1	e3r25G3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)
C	AHSA1	e3r25C3	A: alpha arrays	X: Fusion glycoprotein F2	H: Fusion glycoprotein F2	T: Fusion glycoprotein F2	F: AHSA1	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
A	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
B	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
B	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
D	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
D	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
E	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
E	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
F	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
F	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
H	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
H	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
G	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
G	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal domain	CATH (4.3.0)
C	3.30.390.10	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
C	3.20.20.120	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Enolase-like C-terminal 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	mandelate racemase / muconate lactonizing enzyme	cation binding magnesium ion binding ion binding binding metal ion binding small molecule binding	catabolic process metabolic process cellular process amino acid metabolic process primary metabolic process amino acid 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	IPR034589	D-mannonate dehydratase-like	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR034593	D-galactonate dehydratase DgoD-like	Family
A, B, C, D, E A, B, C, D, E, F, G, H	IPR018110	Mandelate racemase/muconate lactonizing enzyme, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F, G, H	IPR013341	Mandelate racemase-like, N-terminal domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR029017	Enolase-like, N-terminal	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036849	Enolase-like, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR013342	Mandelate racemase-like, C-terminal domain	Domain

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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.