1C82

MECHANISM OF HYALURONAN BINDING AND DEGRADATION: STRUCTURE OF STREPTOCOCCUS PNEUMONIAE HYALURONATE LYASE IN COMPLEX WITH HYALURONIC ACID DISACCHARIDE AT 1.7 A 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	d1c82a1	All alpha proteins	alpha/alpha toroid	Chondroitin AC/alginate lyase	Hyaluronate lyase-like catalytic, N-terminal domain	Hyaluronate lyase	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)
A	d1c82a2	All beta proteins	Hyaluronate lyase-like, C-terminal domain	Hyaluronate lyase-like, C-terminal domain	Hyaluronate lyase-like, C-terminal domain	Hyaluronate lyase	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)
A	d1c82a3	All beta proteins	Supersandwich	Galactose mutarotase-like	Hyaluronate lyase-like, central domain	Hyaluronate lyase	(Streptococcus pneumoniae ) [TaxId: 1313 ],	SCOPe (2.08)

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	8043658	3001005	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Galactose mutarotase-like	8043661	3000035	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Hyaluronate lyase-like C-terminal domain	8043659	3001435	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	Lyase_8_C_1	e1c82A1	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: Lyase_8_C_1	ECOD (1.6)
A	Lyase_8	e1c82A2	A: beta sandwiches	X: Glycosyl hydrolase domain-like	H: supersandwich (From Topology)	T: supersandwich	F: Lyase_8	ECOD (1.6)
A	Lyase_8_N	e1c82A3	A: alpha superhelices	X: Repetitive alpha hairpins	H: alpha/alpha toroid (From Topology)	T: alpha/alpha toroid	F: Lyase_8_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.70.98.10	Mainly Beta	Distorted Sandwich	Beta-galactosidase	Chain A, domain 5	CATH (4.3.0)
A	1.50.10.100	Mainly Alpha	Alpha/alpha barrel	Glycosyltransferase	Chondroitin AC/alginate lyase	CATH (4.3.0)
A	2.60.220.10	Mainly Beta	Sandwich	Chondroitinase Ac	Chain A, domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF08124	Polysaccharide lyase family 8, N terminal alpha-helical domain (Lyase_8_N)	Polysaccharide lyase family 8, N terminal alpha-helical domain	-	Repeat
A	PF02278	Polysaccharide lyase family 8, super-sandwich domain (Lyase_8)	Polysaccharide lyase family 8, super-sandwich domain	-	Family
A	PF02884	Polysaccharide lyase family 8, C-terminal beta-sandwich domain (Lyase_8_C)	Polysaccharide lyase family 8, C-terminal beta-sandwich domain	This family consists of a group of secreted bacterial lyase enzymes EC:4.2.2.1 capable of acting on hyaluronan and chondroitin in the extracellular matrix of host tissues, contributing to the invasive capacity of the pathogen.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	HYALURONATE LYASE	binding carbohydrate binding hyaluronate lyase activity lyase activity carbon-oxygen lyase activity, acting on polysaccharides catalytic activity carbon-oxygen lyase activity hydrolase activity, acting on glycosyl bonds hydrolase activity	carbohydrate metabolic process organic substance metabolic process primary metabolic process metabolic process catabolic process organic substance catabolic process	extracellular region cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR003305	Carbohydrate-binding, CenC-like	Domain
A	IPR011071	Polysaccharide lyase family 8-like, C-terminal	Homologous Superfamily
A	IPR008979	Galactose-binding-like domain superfamily	Homologous Superfamily
A	IPR023295	Hyaluronate lyase, beta-sheet domain superfamily	Homologous Superfamily
A	IPR012970	Polysaccharide lyase 8, N-terminal alpha-helical	Domain
A	IPR004103	Polysaccharide lyase family 8, C-terminal	Domain
A	IPR014756	Immunoglobulin E-set	Homologous Superfamily
A	IPR038970	Polysaccharide lyase 8	Family
A	IPR003159	Polysaccharide lyase family 8, central domain	Domain
A	IPR008929	Chondroitin AC/alginate lyase	Homologous Superfamily
A	IPR014718	Glycoside hydrolase-type carbohydrate-binding	Homologous Superfamily
A	IPR048734	Hyaluronate lyase, N-terminal beta-sheet domain	Domain
A	IPR011013	Galactose mutarotase-like domain superfamily	Homologous Superfamily
A	IPR019931	LPXTG cell wall anchor domain	Domain

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

Chains	Enzyme Name	Description	Catalytic Residues
A	hyaluronate lyase M-CSA #439	Bacterial hyaluronan lyases (Hyal) belong to the polysaccharide lyase 8 family and degrade hyaluronan. Hyaluronan is an important component of the extracellular matrix, and involved in microbial spread. Hyal inhibitors may serve as tools to study the role of the enzyme, its substrates and products in the course of bacterial infections. Moreover, such enzyme inhibitors are potential candidates for antibacterial combination therapy. Hyal catalyse the degradation of hyaluronan by a beta-elimination reaction. Also acts on chondroitin. Ultimately, they break the polysaccharide down to its constituent parts, more systematically known as 3-(4-deoxy-alpha-L-threo-hex-4-enopyranosyluronic acid)-2-acetamido-2-deoxy-D-glucose.	Defined by 4 residues: ASN:A-182 [auth A-349]HIS:A-232 [auth A-399]TYR:A-241 [auth A-408]ARG:A-295 [auth A-462] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 4.2.2.1 (PDB Primary Data) Search M-CSA Motif + EC 4.2.2.1

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.