2NT9 | pdb_00002nt9

Crystal structure of pectin methylesterase D178A mutant in complex with hexasaccharide IV

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2nt9b_	All beta proteins	Single-stranded right-handed beta-helix	Pectin lyase-like	Pectin methylesterase	automated matches	(Dickeya dadantii 3937 ) [TaxId: 198628 ],	SCOPe (2.08)
A	d2nt9a_	All beta proteins	Single-stranded right-handed beta-helix	Pectin lyase-like	Pectin methylesterase	automated matches	(Dickeya dadantii 3937 ) [TaxId: 198628 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B	PK_Tyr_Ser-Thr	e2nt9B1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: PK_Tyr_Ser-Thr	ECOD (develop294)
A	PK_Tyr_Ser-Thr	e2nt9A1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: PK_Tyr_Ser-Thr	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF01095	Pectinesterase (Pectinesterase)	Pectinesterase	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Pectinesterase A	pectinesterase activity hydrolase activity, acting on ester bonds carboxylic ester hydrolase activity hydrolase activity catalytic activity	cellular component organization cell wall modification cell wall organization or biogenesis cell wall organization cellular process cellular component organization or biogenesis external encapsulating structure organization carbohydrate metabolic process catabolic process pectin metabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process pectin catabolic process cellular component organization cell wall modification cell wall organization or biogenesis cell wall organization cellular process cellular component organization or biogenesis external encapsulating structure organization carbohydrate metabolic process catabolic process pectin metabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process pectin catabolic process polysaccharide metabolic process polysaccharide catabolic process metabolic process macromolecule metabolic process	cellular anatomical structure extracellular region extracellular space cell periphery cell outer membrane external encapsulating structure membrane cell envelope outer membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR012334	Pectin lyase fold	Homologous Superfamily
A, B	IPR053505	Pectinesterase	Family
A, B	IPR000070	Pectinesterase, catalytic	Domain
A, B	IPR011050	Pectin lyase fold/virulence factor	Homologous Superfamily
A, B	IPR033131	Pectinesterase, Asp active site	Active Site

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.