4F2D | pdb_00004f2d

Crystal Structure of Escherichia coli L-arabinose Isomerase (ECAI) complexed with Ribitol

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)
A	d4f2da2	All beta proteins	Reductase/isomerase/elongation factor common domain	FucI/AraA C-terminal domain-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
A	d4f2da1	Alpha and beta proteins (a/b)	FucI/AraA N-terminal and middle domains	FucI/AraA N-terminal and middle domains	AraA N-terminal and middle domain-like	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d4f2db2	All beta proteins	Reductase/isomerase/elongation factor common domain	FucI/AraA C-terminal domain-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
B	d4f2db1	Alpha and beta proteins (a/b)	FucI/AraA N-terminal and middle domains	FucI/AraA N-terminal and middle domains	AraA N-terminal and middle domain-like	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d4f2dc2	All beta proteins	Reductase/isomerase/elongation factor common domain	FucI/AraA C-terminal domain-like	automated matches	automated matches	(Escherichia coli K-12 ) [TaxId: 83333 ],	SCOPe (2.08)
C	d4f2dc1	Alpha and beta proteins (a/b)	FucI/AraA N-terminal and middle domains	FucI/AraA N-terminal and middle domains	AraA N-terminal and middle domain-like	automated matches	(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)
A	SCOP2B Superfamily	FucI/AraA N-terminal and middle domains	8037117	3001543	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FucI/AraA C-terminal domain-like	8037114	3000804	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FucI/AraA C-terminal domain-like	8037114	3000804	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FucI/AraA N-terminal and middle domains	8037117	3001543	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	FucI/AraA N-terminal and middle domains	8037117	3001543	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	FucI/AraA C-terminal domain-like	8037114	3000804	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	Arabinose_Iso_C	e4f2dA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Arabinose_Iso_C	ECOD (1.6)
A	Arabinose_Isome	e4f2dA2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: L-fucose isomerase, N-terminal and second domains	F: Arabinose_Isome	ECOD (1.6)
B	Arabinose_Iso_C	e4f2dB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Arabinose_Iso_C	ECOD (1.6)
B	Arabinose_Isome	e4f2dB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: L-fucose isomerase, N-terminal and second domains	F: Arabinose_Isome	ECOD (1.6)
C	Arabinose_Iso_C	e4f2dC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: Arabinose_Iso_C	ECOD (1.6)
C	Arabinose_Isome	e4f2dC2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: L-fucose isomerase, N-terminal and second domains	F: Arabinose_Isome	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.10940	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
B	3.40.50.10940	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
C	3.40.50.10940	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF11762	L-arabinose isomerase C-terminal domain (Arabinose_Iso_C)	L-arabinose isomerase C-terminal domain	This is a family of L-arabinose isomerases, AraA, EC:5.3.1.4. These enzymes catalyse the reaction: L-arabinose <=> L-ribulose. This reaction is the first step in the pathway of L-arabinose utilisation as a carbon source after entering the cell L-arab ...	This is a family of L-arabinose isomerases, AraA, EC:5.3.1.4. These enzymes catalyse the reaction: L-arabinose <=> L-ribulose. This reaction is the first step in the pathway of L-arabinose utilisation as a carbon source after entering the cell L-arabinose is converted into L-ribulose by the L-arabinose isomerases enzyme [1]. This is a C-terminal non catalytic domain.	Domain
A, B, C	PF02610	L-arabinose isomerase N-terminal domain (AraA_N)	L-arabinose isomerase N-terminal domain	This entry represents a domain found N-terminal in L-arabinose isomerases, AraA, EC:5.3.1.4. These enzymes catalyse the reaction: L-arabinose <=> L-ribulose. This reaction is the first step in the pathway of L-arabinose utilisation as a carbon source ...	This entry represents a domain found N-terminal in L-arabinose isomerases, AraA, EC:5.3.1.4. These enzymes catalyse the reaction: L-arabinose <=> L-ribulose. This reaction is the first step in the pathway of L-arabinose utilisation as a carbon source after entering the cell L-arabinose is converted into L-ribulose by the L-arabinose isomerases enzyme [1]. The domain represented by this entry is composed of a central parallel beta-sheet packed with alpha-helices on both sides and with topology similar to the topology of the middle domain [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	L-arabinose isomerase	cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding isomerase activity L-arabinose isomerase activity intramolecular oxidoreductase activity, interconverting aldoses and ketoses intramolecular oxidoreductase activity catalytic activity	monosaccharide metabolic process arabinose metabolic process carbohydrate metabolic process catabolic process arabinose catabolic process carbohydrate catabolic process primary metabolic process small molecule metabolic process metabolic process cellular process pentose metabolic process monosaccharide catabolic process small molecule catabolic process pentose catabolic process monosaccharide metabolic process arabinose metabolic process carbohydrate metabolic process catabolic process arabinose catabolic process carbohydrate catabolic process primary metabolic process small molecule metabolic process metabolic process cellular process pentose metabolic process monosaccharide catabolic process small molecule catabolic process pentose catabolic process carbohydrate derivative metabolic process L-arabinose catabolic process L-arabinose catabolic process to D-xylulose 5-phosphate D-xylulose 5-phosphate metabolic process L-arabinose metabolic process organophosphate metabolic process phosphate-containing compound metabolic process phosphorus metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR009015	L-fucose isomerase, N-terminal/central domain superfamily	Homologous Superfamily
A, B, C	IPR003762	L-arabinose isomerase	Family
A, B, C	IPR055390	L-arabinose isomerase, central domain	Domain
A, B, C	IPR038583	L-arabinose isomerase, N-terminal domain superfamily	Homologous Superfamily
A, B, C	IPR055389	L-arabinose isomerase, N-terminal domain	Domain
A, B, C	IPR024664	L-arabinose isomerase, C-terminal	Domain
A, B, C	IPR004216	L-fucose/L-arabinose isomerase, C-terminal	Homologous Superfamily

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.