4IRQ | pdb_00004irq

Crystal structure of catalytic domain of human beta1,4galactosyltransferase 7 in closed conformation in complex with manganese and UDP

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D		e4irqD1	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: cNMP_binding	F:	ECOD (20:10:01)
C		e4irqC1	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: cNMP_binding	F:	ECOD (20:10:01)
B		e4irqB1	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: cNMP_binding	F:	ECOD (20:10:01)
A		e4irqA1	A: P-loop domains-like	X: P-loop domains-related	H: P-loop containing nucleoside triphosphate hydrolases	T: cNMP_binding	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)
C	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)
B	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)
A	3.90.550.10	Alpha Beta	Alpha-Beta Complex	Spore Coat Polysaccharide Biosynthesis Protein SpsA	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF02709	N-terminal domain of galactosyltransferase (Glyco_transf_7C)	N-terminal domain of galactosyltransferase	-	Family
A, B, C, D	PF13733	N-terminal region of glycosyl transferase group 7 (Glyco_transf_7N)	N-terminal region of glycosyl transferase group 7	This is the N-terminal half of a family of galactosyltransferases from a wide range of Metazoa with three related galactosyltransferases activities, all three of which are possessed by one sequence in some cases. EC:2.4.1.90, N-acetyllactosamine syn ...	This is the N-terminal half of a family of galactosyltransferases from a wide range of Metazoa with three related galactosyltransferases activities, all three of which are possessed by one sequence in some cases. EC:2.4.1.90, N-acetyllactosamine synthase; EC:2.4.1.38, Beta-N-acetylglucosaminyl-glycopeptide beta-1,4- galactosyltransferase; and EC:2.4.1.22 Lactose synthase. Note that N-acetyllactosamine synthase is a component of Lactose synthase along with alpha-lactalbumin, in the absence of alpha-lactalbumin EC:2.4.1.90 is the catalysed reaction.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Beta-1,4-galactosyltransferase 7	UDP-glycosyltransferase activity xylosylprotein 4-beta-galactosyltransferase activity glycosyltransferase activity catalytic activity, acting on a protein catalytic activity, acting on a glycoprotein transferase activity galactosyltransferase activity hexosyltransferase activity UDP-galactosyltransferase activity catalytic activity cation binding manganese ion binding transition metal ion binding ion binding UDP-glycosyltransferase activity xylosylprotein 4-beta-galactosyltransferase activity glycosyltransferase activity catalytic activity, acting on a protein catalytic activity, acting on a glycoprotein transferase activity galactosyltransferase activity hexosyltransferase activity UDP-galactosyltransferase activity catalytic activity cation binding manganese ion binding transition metal ion binding ion binding binding metal ion binding small molecule binding beta-N-acetylglucosaminylglycopeptide beta-1,4-galactosyltransferase activity	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 proteoglycan metabolic process proteoglycan biosynthetic 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 proteoglycan metabolic process proteoglycan biosynthetic process macromolecule modification protein modification process glycosaminoglycan metabolic process aminoglycan metabolic process aminoglycan biosynthetic process glycosaminoglycan biosynthetic process carbohydrate metabolic process negative regulation of cell population proliferation regulation of biological process fibroblast proliferation cell population proliferation regulation of cellular process biological regulation negative regulation of biological process regulation of fibroblast proliferation regulation of cell population proliferation negative regulation of cellular process negative regulation of fibroblast proliferation cellular component organization cellular component organization or biogenesis supramolecular fiber organization dermatan sulfate proteoglycan metabolic process heparan sulfate proteoglycan biosynthetic process heparin proteoglycan biosynthetic process glycosaminoglycan-protein linkage region biosynthetic process dermatan sulfate proteoglycan biosynthetic process heparan sulfate proteoglycan metabolic process chondroitin sulfate proteoglycan metabolic process protein O-linked glycosylation via xylose protein O-linked glycosylation chondroitin sulfate proteoglycan biosynthetic process heparin proteoglycan metabolic process	cellular anatomical structure membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane bounding membrane of organelle organelle membrane Golgi cisterna membrane cellular anatomical structure membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane bounding membrane of organelle organelle membrane Golgi cisterna membrane Golgi apparatus subcompartment organelle subcompartment Golgi cisterna Golgi stack

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR027995	Galactosyltransferase, N-terminal	Domain
A, B, C, D	IPR027791	Galactosyltransferase, C-terminal	Domain
A, B, C, D	IPR029044	Nucleotide-diphospho-sugar transferases	Homologous Superfamily
A, B, C, D	IPR003859	Beta-1,4-galactosyltransferase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	Pharos: Q9UBV7	Ehlers-Danlos syndrome Ehlers-Danlos syndrome progeroid type Craniofacial Abnormalities Ehlers-Danlos syndrome, progeroid type 1 intellectual disability ovarian cancer congenital disorder of glycosylation Larsen-like syndrome, B3GAT3 type psoriasis osteogenesis imperfecta

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.