3AFL | pdb_00003afl

Crystal structure of exotype alginate lyase Atu3025 H531A 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	Chondroitin AC/alginate lyase	8090365	3001005	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	E set domains	8090368	3000070	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Galactose mutarotase-like	8090366	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	fn3_7	e3aflA9	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3_7	ECOD (1.6)
A	Hepar_II_III	e3aflA7	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	e3aflA8	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	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF16332	Domain of unknown function (DUF4962) (DUF4962)	Domain of unknown function (DUF4962)	-	Repeat
A	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

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Oligo alginate lyase	lyase activity catalytic activity	-	cellular anatomical structure cell envelope

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR032518	Heparinase II, N-terminal	Domain
A	IPR012364	Oligosaccharide lyase	Family
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR008929	Chondroitin AC/alginate lyase	Homologous Superfamily
A	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.