4OJZ | pdb_00004ojz

Crystal Structure of Alg17c Mutant Y258A Complexed with Alginate Trisaccharide

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Galactose mutarotase-like	8090375	3000035	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Chondroitin AC/alginate lyase	8090377	3001005	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8090379	3001528	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Chondroitin AC/alginate lyase	8090377	3001005	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Glycosyl hydrolase domain-like	8090379	3001528	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Galactose mutarotase-like	8090375	3000035	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	EUF07816	e4ojzA3	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Hyaluronate lyase-like, C-terminal domain (From Topology)	T: Hyaluronate lyase-like, C-terminal domain	F: EUF07816	ECOD (1.6)
A	Hepar_II_III	e4ojzA2	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: supersandwich (From Topology)	T: supersandwich	F: Hepar_II_III	ECOD (1.6)
A	Alginate_lyase_1	e4ojzA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: Alginate_lyase_1	ECOD (1.6)
B	EUF07816	e4ojzB1	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: Hyaluronate lyase-like, C-terminal domain (From Topology)	T: Hyaluronate lyase-like, C-terminal domain	F: EUF07816	ECOD (1.6)
B	Hepar_II_III	e4ojzB2	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: supersandwich (From Topology)	T: supersandwich	F: Hepar_II_III	ECOD (1.6)
B	Alginate_lyase_1	e4ojzB3	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: Alginate_lyase_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.50.10.100	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase	Chondroitin AC/alginate lyase	CATH (4.3.0)
A	2.70.98.70	Mainly Beta	Distorted Sandwich	Beta-galactosidase	Chain A, domain 5	CATH (4.3.0)
B	1.50.10.100	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase	Chondroitin AC/alginate lyase	CATH (4.3.0)
B	2.70.98.70	Mainly Beta	Distorted Sandwich	Beta-galactosidase	Chain A, domain 5	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF22686	Exo-oligoalginate lyase-like, C-terminal domain (Alg17C_C)	Exo-oligoalginate lyase-like, C-terminal domain	This domain is found at the C-terminal end of Exo-oligoalginate lyase from Saccharophagus degradans (Alg17C) and similar sequences from proteobacteria. Alg17C catalyses the depolymerisation of alginate through an exolytic mode of action, via a beta-e ...	This domain is found at the C-terminal end of Exo-oligoalginate lyase from Saccharophagus degradans (Alg17C) and similar sequences from proteobacteria. Alg17C catalyses the depolymerisation of alginate through an exolytic mode of action, via a beta-elimination mechanism. This protein consists of two domains: an N-terminal imperfect alpha-barrel (Pfam:PF05426) and a C-terminal beta-sheet domain (Pfam:PF07940 and this entry) [1]. This domain adopts an all-beta configuration.	Domain
A, B	PF07940	Heparinase II/III-like, C-terminal (Hepar_II_III_C)	Heparinase II/III-like, C-terminal	This is the C-terminal domain of Heparin and heparin-sulfate lyase (HepB, also known as heparinase II), Heparin-sulfate lyase (HepC, also known as heparinase III and distantly related sequences. The structures of Heparinase II and III have been solve ...	This is the C-terminal domain of Heparin and heparin-sulfate lyase (HepB, also known as heparinase II), Heparin-sulfate lyase (HepC, also known as heparinase III and distantly related sequences. The structures of Heparinase II and III have been solved [3,4]. HepB cleaves both heparin and heparan sulfate glycosaminoglycans. HepC specifically cleaves heparan sulfate-rich regions of acidic polysaccharides, it does not act on N,O-desulfated glucosamine or N-acetyl-O-sulfated glucosamine linkages. HepC functions in cleaving metazoan heparan sulfate and providing carbon, nitrogen and sulfate sources for microorganisms [1-4]. This entry also includes FtsZ-localized protein C (FzlC), which binds and recruits FtsZ polymers to membranes early in the cell cycle. It may also improve the efficiency of cytokinesis. This protein has been reported to have sequence similarity to heparinase II/III family proteins [5].	Domain
A, B	PF05426	Alginate lyase (Alginate_lyase)	Alginate lyase	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Putative alginate lyase	exo-oligoalginate lyase activity lyase activity carbon-oxygen lyase activity, acting on polysaccharides catalytic activity carbon-oxygen lyase activity cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process polysaccharide metabolic process catabolic process polysaccharide catabolic process carbohydrate catabolic process metabolic process cellular process primary metabolic process macromolecule metabolic process macromolecule catabolic process	cellular anatomical structure periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR008397	Alginate lyase domain	Domain
A, B	IPR055076	Exo-oligoalginate lyase, C-terminal domain	Domain
A, B	IPR008929	Chondroitin AC/alginate lyase	Homologous Superfamily
A, B	IPR012480	Heparinase II/III-like, C-terminal	Domain

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.