3E4D | pdb_00003e4d

Structural and Kinetic Study of an S-Formylglutathione Hydrolase from Agrobacterium tumefaciens

External Resource: Annotation

Domain Annotation: SCOP/SCOPe 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	d3e4df_	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
E [auth D]	d3e4dd_	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
D [auth E]	d3e4de1	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
D [auth E]	d3e4de2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
C	d3e4dc1	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
C	d3e4dc2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
B	d3e4db1	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
B	d3e4db2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
A	d3e4da1	Alpha and beta proteins (a/b)	alpha/beta-Hydrolases	alpha/beta-Hydrolases	automated matches	automated matches	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)
A	d3e4da2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Agrobacterium fabrum str. C58 ) [TaxId: 176299 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	YgbB	e3e4dF1	A: alpha bundles	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: YgbB	ECOD (develop294)
E [auth D]	YgbB	e3e4dD1	A: alpha bundles	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: YgbB	ECOD (develop294)
D [auth E]	YgbB	e3e4dE1	A: alpha bundles	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: YgbB	ECOD (develop294)
C	YgbB	e3e4dC1	A: alpha bundles	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: YgbB	ECOD (develop294)
B	YgbB	e3e4dB1	A: alpha bundles	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: YgbB	ECOD (develop294)
A	Esterase	e3e4dA1	A: alpha bundles	X: Spectrin repeat-like	H: SH3	T: SH3	F: Esterase	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
E [auth D]	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
D [auth E]	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
C	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
B	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)
A	3.40.50.1820	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Alpha/Beta hydrolase fold, catalytic domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D [auth E], E [auth D], A, B, C, D [auth E], E [auth D], F	PF00756	Putative esterase (Esterase)	Putative esterase	This family contains Esterase D Swiss:P10768. However it is not clear if all members of the family have the same function. This family is related to the Pfam:PF00135 family.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D [auth E], E [auth D], A, B, C, D [auth E], E [auth D], F	Esterase D	hydrolase activity, acting on ester bonds thiolester hydrolase activity hydrolase activity S-formylglutathione hydrolase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding carboxylic ester hydrolase activity	cellular response to stimulus cellular detoxification catabolic process response to stimulus formaldehyde catabolic process detoxification response to oxygen-containing compound cellular response to oxygen-containing compound aldehyde metabolic process response to toxic substance cellular detoxification of aldehyde cellular response to chemical stimulus cellular response to aldehyde response to chemical cellular response to stimulus cellular detoxification catabolic process response to stimulus formaldehyde catabolic process detoxification response to oxygen-containing compound cellular response to oxygen-containing compound aldehyde metabolic process response to toxic substance cellular detoxification of aldehyde cellular response to chemical stimulus cellular response to aldehyde response to chemical metabolic process cellular process small molecule metabolic process formaldehyde metabolic process aldehyde catabolic process small molecule catabolic process cellular response to toxic substance	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D [auth E], E [auth D], A, B, C, D [auth E], E [auth D], F	IPR014186	S-formylglutathione hydrolase	Family
A, B, C, D [auth E], E [auth D], A, B, C, D [auth E], E [auth D], F	IPR029058	Alpha/Beta hydrolase fold	Homologous Superfamily
A, B, C, D [auth E], E [auth D], A, B, C, D [auth E], E [auth D], F	IPR000801	Esterase-like	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.