1IDJ

PECTIN LYASE A

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	d1idja_	All beta proteins	Single-stranded right-handed beta-helix	Pectin lyase-like	Pectin lyase	Pectin lyase	(Aspergillus niger ) [TaxId: 5061 ],	SCOPe (2.08)
B	d1idjb_	All beta proteins	Single-stranded right-handed beta-helix	Pectin lyase-like	Pectin lyase	Pectin lyase	(Aspergillus niger ) [TaxId: 5061 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Pectin lyase	8030592	4002793	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Pectin lyase-like	8042971	3001746	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Pectin lyase-like	8042971	3001746	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	PF00544	e1idjA1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Pectin lyase-like (From Topology)	T: Pectin lyase-like	F: PF00544	ECOD (1.6)
B	PF00544	e1idjB1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Pectin lyase-like (From Topology)	T: Pectin lyase-like	F: PF00544	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.160.20.10	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Single-stranded right-handed beta-helix, Pectin lyase-like	CATH (4.3.0)
B	2.160.20.10	Mainly Beta	3 Solenoid	Pectate Lyase C-like	Single-stranded right-handed beta-helix, Pectin lyase-like	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF00544	Pectate lyase (Pectate_lyase_4)	Pectate lyase	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	PECTIN LYASE A	pectin lyase activity lyase activity carbon-oxygen lyase activity, acting on polysaccharides catalytic activity carbon-oxygen lyase activity pectate lyase activity	carbohydrate metabolic process catabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process polysaccharide metabolic process organic substance metabolic process polysaccharide catabolic process metabolic process macromolecule metabolic process organic substance catabolic process cellular component organization cell wall organization or biogenesis cell wall organization carbohydrate metabolic process catabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process polysaccharide metabolic process organic substance metabolic process polysaccharide catabolic process metabolic process macromolecule metabolic process organic substance catabolic process cellular component organization cell wall organization or biogenesis cell wall organization cellular process cellular component organization or biogenesis external encapsulating structure organization	extracellular region cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR012334	Pectin lyase fold	Homologous Superfamily
A, B	IPR045032	Pectin lyase family	Family
A, B	IPR002022	Pectate lyase	Domain
A, B	IPR011050	Pectin lyase fold/virulence factor	Homologous Superfamily

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

Chains	Enzyme Name	Description	Catalytic Residues
A	pectin lyase A (polysaccharide lyase 1 family) M-CSA #590	Pectin lyases are enzymes that catalyse the degradation of pectin, a main structural polysaccharide of the primary cell wall and middle lamella of higher plants. Pectin is a methylesteried form of polygalacturonic acid. The enzymes utilise a beta-elimination reaction to cleave the alpha-d-(1,4) glycosidic bond between galacturonosyl residues in the homogalacturonan (the so-called `smooth') part of the pectin molecule, resulting in the formation of a C4-C5 double bond at the non-reducing end of the cleaved polysaccharide. Pectin lyases belong to the family of polysaccharide lyases of which currently 12 families are known. In addition to the role of pectin lyase in microbial phytopathogenesis, this enzyme has biotechnological potential in fruit juice industries due to the fact that it degrades pectin without disturbing the ester group which is responsible for specific aroma of the juice and also it does not lead to methanol formation which is toxic. This enzyme has potential applications also in textile industries, in degumming and retting of natural fibers like ramie, hemp, jute, flax, etc.	Defined by 4 residues: ASP:A-154ARG:A-176ARG:A-236LYS:A-239 \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 4.2.2.10 (PDB Primary Data) Search M-CSA Motif + EC 4.2.2.10

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.