1QAZ

CRYSTAL STRUCTURE OF ALGINATE LYASE A1-III FROM SPHINGOMONAS SPECIES A1 AT 1.78A RESOLUTION

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
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1qaza_	All alpha proteins	alpha/alpha toroid	Chondroitin AC/alginate lyase	Alginate lyase A1-III	Alginate lyase A1-III	(Sphingomonas sp. ) [TaxId: 28214 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Alginate lyase-like	8026007	4001183	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Chondroitin AC/alginate lyase	8038386	3001005	SCOP2 (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	PF05426	e1qazA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: PF05426	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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	PROTEIN (ALGINATE LYASE A1-III)	lyase activity catalytic activity	-	periplasmic space cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR013320	Concanavalin A-like lectin/glucanase domain superfamily	Homologous Superfamily
A	IPR008397	Alginate lyase domain	Domain
A	IPR014895	Alginate lyase 2	Domain
A	IPR008929	Chondroitin AC/alginate lyase	Homologous Superfamily

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	mannuronate-specific alginate lyase M-CSA #684	The enzyme alginate lyase from the bacteria Sphingomonas sp. is able to degrade the polymer alginate by eliminative cleavage. Alginate is made up of beta-d-mannuronate and beta-d-glucoronate linked together by a beta-1-4 glycosidic linkage, and alginate lyase is able to cleave this linkage to release two oligosaccharides. The enzyme may have potential therapeutic applications because one of the symptoms of cystic fibrosis is a thick layer of alginate that builds up inside the lungs making breathing difficult. The bacterial species produces three types of Alginate lyase, which are non-homologous but display similar organisation in the active site, suggesting that convergent evolution may account for their similar functions. Here, the structure and mechanism of Alginate lyase III is described.	Defined by 5 residues: TYR:A-65 [auth A-68]ASN:A-188 [auth A-191]HIS:A-189 [auth A-192]ARG:A-236 [auth A-239]TYR:A-243 [auth A-246] \| Explore in 3D: M-CSA Motif Definition Extent of motif is too large to support Structure Motif searching. EC: 3.5.1.45 (PDB Primary Data)

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.