5GGF | pdb_00005ggf

Crystal structure of human protein O-mannose beta-1,2-N-acetylglucosaminyltransferase form II

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	FAM3B/PANDER-like	8055726	3002300	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	FAM3B/PANDER-like	8055726	3002300	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	FAM3B/PANDER-like	8055726	3002300	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)
C	7tm_1	e5ggfC1	A: alpha bundles	X: omega toxin-like	H: omega toxin-related	T: omega toxin-related	F: 7tm_1	ECOD (develop294)
B	GNT-I	e5ggfB1	A: alpha bundles	X: Repetitive alpha hairpins	H: ARM repeat	T: ARM repeat	F: GNT-I	ECOD (develop294)
A	7tm_1	e5ggfA1	A: alpha bundles	X: omega toxin-like	H: omega toxin-related	T: omega toxin-related	F: 7tm_1	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

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

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C	PF03071	GNT-I family (GNT-I)	GNT-I family	-	Family
A, B, C	PF15711	Interleukin-like EMT inducer (ILEI)	Interleukin-like EMT inducer	ILEI is a family of proteins found in vertebrates. It is heavily involved in the process of the transition from epithelial to mesenchymal tissue - EMT - during all of embryonic development, cancer progression, metastasis, and chronic inflammation/fib ...	ILEI is a family of proteins found in vertebrates. It is heavily involved in the process of the transition from epithelial to mesenchymal tissue - EMT - during all of embryonic development, cancer progression, metastasis, and chronic inflammation/fibrosis. ILEI is upregulated exclusively at the level of translation, and abnormal ILEI expression, ie cytoplasmic over-expression instead of vesicular localisation, is associated with EMT in human cancerous tissue [1]. In order to induce and maintain the EMT of hepatocytes in a TGF-beta-independent fashion ILEI needs the cooperation of oncogenic Ras [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C	Protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1	binding carbohydrate binding UDP-glycosyltransferase activity beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity glycosyltransferase activity catalytic activity, acting on a protein catalytic activity, acting on a glycoprotein acetylglucosaminyltransferase activity transferase activity hexosyltransferase activity catalytic activity cation binding manganese ion binding transition metal ion binding binding carbohydrate binding UDP-glycosyltransferase activity beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity glycosyltransferase activity catalytic activity, acting on a protein catalytic activity, acting on a glycoprotein acetylglucosaminyltransferase activity transferase activity hexosyltransferase activity catalytic activity cation binding manganese ion binding transition metal ion binding ion binding metal ion binding small molecule binding	biosynthetic process metabolic process cellular process macromolecule metabolic process gene expression macromolecule biosynthetic process carbohydrate derivative biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process protein O-linked glycosylation protein O-linked glycosylation via N-acetyl-galactosamine protein metabolic process biosynthetic process metabolic process cellular process macromolecule metabolic process gene expression macromolecule biosynthetic process carbohydrate derivative biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process protein O-linked glycosylation protein O-linked glycosylation via N-acetyl-galactosamine protein metabolic process localization localization of cell multicellular organismal process system process sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus protein O-linked glycosylation via mannose developmental process head development forebrain development animal organ development brain development nervous system development dentate gyrus development pallium development multicellular organism development central nervous system development anatomical structure development telencephalon development hippocampus development limbic system development system development myelination axon ensheathment ensheathment of neurons response to stimulus defense response response to stress reactive gliosis inflammatory response neuroinflammatory response cellular component organization extracellular matrix organization cellular component organization or biogenesis basement membrane organization extracellular structure organization external encapsulating structure organization	cellular anatomical structure membrane membrane-bounded organelle Golgi membrane intracellular anatomical structure Golgi apparatus intracellular membrane-bounded organelle endomembrane system intracellular organelle bounding membrane of organelle organelle cytoplasm organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C	IPR039477	ILEI/PANDER domain	Domain
A, B, C	IPR004139	Glycosyl transferase, family 13	Family
A, B, C	IPR029044	Nucleotide-diphospho-sugar transferases	Homologous Superfamily
A, B, C	IPR039474	Protein O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase 1, PANDER-like domain	Domain
A, B, C	IPR052463	O-linked-mannose beta-1,2-N-acetylglucosaminyltransferase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C	Pharos: Q8WZA1	autosomal recessive limb-girdle muscular dystrophy type 2O limb-girdle muscular dystrophy retinitis pigmentosa muscular dystrophy-dystroglycanopathy, type A muscular dystrophy-dystroglycanopathy (congenital with brain and eye anomalies), type A3 congenital muscular dystrophy muscular dystrophy-dystroglycanopathy (congenital with intellectual disability), type B3 retinitis pigmentosa 76 lissencephaly spectrum disorders malignant glioma muscle tissue disease muscular dystrophy MUSCULAR DYSTROPHY, LIMB-GIRDLE, TYPE 2K retinal degeneration cerebrovascular disorder autosomal recessive limb-girdle muscular dystrophy type 2O limb-girdle muscular dystrophy retinitis pigmentosa muscular dystrophy-dystroglycanopathy, type A muscular dystrophy-dystroglycanopathy (congenital with brain and eye anomalies), type A3 congenital muscular dystrophy muscular dystrophy-dystroglycanopathy (congenital with intellectual disability), type B3 retinitis pigmentosa 76 lissencephaly spectrum disorders malignant glioma muscle tissue disease muscular dystrophy MUSCULAR DYSTROPHY, LIMB-GIRDLE, TYPE 2K retinal degeneration cerebrovascular disorder hydrocephalus medulloblastoma muscle-eye-brain disease muscular dystrophy-dystroglycanopathy myopathy arthrogryposis cataract cone-rod dystrophy intellectual disability malignant ependymoma muscular disease muscular dystrophy-dystroglycanopathy (congenital with brain and eye anomalies), type A, 4 osteosarcoma atypical teratoid rhabdoid tumor congenital disorder of glycosylation glioblastoma large cell medulloblastoma lung carcinoma

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.