7VMT | pdb_00007vmt

Crystal structure of murine N-acetylglucosaminyl transferase IVa (GnT-IVa) lectin domain in unliganded form

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	F_UNCLASSIFIED	e7vmtF1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)
E	F_UNCLASSIFIED	e7vmtE1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)
D	F_UNCLASSIFIED	e7vmtD1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)
C	F_UNCLASSIFIED	e7vmtC1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)
B	F_UNCLASSIFIED	e7vmtB1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e7vmtA1	A: beta sandwiches	X: jelly-roll	H: Concanavalin A-like	T: Galactose-binding domain-like	F: F_UNCLASSIFIED	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF23524	MGAT4 C-terminal domain (MGAT4A_C)	MGAT4 C-terminal domain	This domain is found C-terminal in N-acetylglucosaminyltransferase IV (MGAT4, GnT-IV) and related proteins. N-Acetylglucosaminyltransferases (GnTs) take part in the formation of branches in the biosynthesis of complex-type sugar chains. In vertebrate ...	This domain is found C-terminal in N-acetylglucosaminyltransferase IV (MGAT4, GnT-IV) and related proteins. N-Acetylglucosaminyltransferases (GnTs) take part in the formation of branches in the biosynthesis of complex-type sugar chains. In vertebrates, six GnTs, designated as GnT-I to -VI, which catalyse the transfer of GlcNAc to the core mannose residues of Asn-linked sugar chains, have been identified. GnT-IV (EC:2.4.1.145) catalyses the transfer of GlcNAc from UDP-GlcNAc to the GlcNAc1-2Man1-3 arm of core oligosaccharide [Gn2(22)core oligosaccharide] and forms GlcNAc1-4(GlcNAc1-2)Man1-3 structure on the core oligosaccharide (Gn3(2,4,2)core oligosaccharide). This domain selectively interacts with the product N-glycans having a beta1-4 GlcNAc branch. Mutation of the residue critical for the sugar recognition impairs the enzymatic activity, suggesting that the lectin domain is a regulatory subunit for efficient catalytic reaction [1]. This domain adopts a beta-sandwich fold typical for galactose binding domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Alpha-1,3-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase A soluble form	glycosyltransferase activity transferase activity catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity UDP-glycosyltransferase activity catalytic activity, acting on a protein alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity catalytic activity, acting on a glycoprotein acetylglucosaminyltransferase activity hexosyltransferase activity glycosyltransferase activity transferase activity catalytic activity identical protein binding protein binding binding protein homodimerization activity protein dimerization activity UDP-glycosyltransferase activity catalytic activity, acting on a protein alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity catalytic activity, acting on a glycoprotein acetylglucosaminyltransferase activity hexosyltransferase activity transferase activity, transferring nitrogenous groups alanine-glyoxylate transaminase activity transaminase activity cation binding ion binding metal ion binding small molecule binding	carbohydrate derivative biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process protein N-linked glycosylation macromolecule biosynthetic process biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process glyoxylate metabolic process oxoacid metabolic process carbohydrate derivative biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process protein N-linked glycosylation macromolecule biosynthetic process biosynthetic process metabolic process cellular process protein metabolic process macromolecule metabolic process glyoxylate metabolic process oxoacid metabolic process carboxylic acid metabolic process small molecule metabolic process monocarboxylic acid metabolic process organic acid metabolic process aldehyde metabolic process N-glycan processing	membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm extracellular region Golgi membrane membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle Golgi stack cytoplasm extracellular region Golgi membrane membrane bounding membrane of organelle organelle membrane peroxisome microbody endoplasmic reticulum-Golgi intermediate compartment endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR006759	Glycosyl transferase family 54	Family
A, B, C, D, E A, B, C, D, E, F	IPR057279	MGAT4, conserved region	Domain
A, B, C, D, E A, B, C, D, E, F	IPR056576	MGAT4 A/B/C, C-terminal domain	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.