6IBO | pdb_00006ibo

Catalytic deficiency of O-GlcNAc transferase leads to X-linked intellectual disability

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)
A		e6iboA1	A: Ten stranded beta/alpha barrel	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: bCoV_S1_N	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.11380	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (utative)
A	3.30.720.150	Alpha Beta	2-Layer Sandwich	Signal recognition particle alu RNA binding heterodimer, srp9/1		CATH (utative)
A	3.40.50.2000	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Glycogen Phosphorylase B	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF13844	Glycosyl transferase family 41 (Glyco_transf_41)	Glycosyl transferase family 41	-	Family
A	PF13414	TPR repeat (TPR_11)	TPR repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth C]	ALA-VAL-SER-ARG-ALA	-	-	-
A	UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110 kDa subunit	UDP-glycosyltransferase activity glycosyltransferase activity acetylglucosaminyltransferase activity transferase activity hexosyltransferase activity catalytic activity catalytic activity, acting on a protein protein O-acetylglucosaminyltransferase activity DNA binding binding chromatin binding nucleic acid binding chromatin DNA binding ion binding UDP-glycosyltransferase activity glycosyltransferase activity acetylglucosaminyltransferase activity transferase activity hexosyltransferase activity catalytic activity catalytic activity, acting on a protein protein O-acetylglucosaminyltransferase activity DNA binding binding chromatin binding nucleic acid binding chromatin DNA binding ion binding phosphatidylinositol-3,4,5-trisphosphate binding anion binding phospholipid binding lipid binding phosphatidylinositol phosphate binding phosphatidylinositol binding small molecule binding	cellular response to stimulus regulation of biological process regulation of signaling small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling regulation of small GTPase mediated signal transduction Rac protein signal transduction biological regulation regulation of signal transduction intracellular signal transduction regulation of Rac protein signal transduction cell communication regulation of intracellular signal transduction cellular response to stimulus regulation of biological process regulation of signaling small GTPase-mediated signal transduction regulation of cellular process response to stimulus signaling regulation of small GTPase mediated signal transduction Rac protein signal transduction biological regulation regulation of signal transduction intracellular signal transduction regulation of Rac protein signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette regulation of cell communication cellular process signal transduction negative regulation of post-translational protein modification regulation of protein modification process negative regulation of biological process regulation of protein ubiquitination regulation of primary metabolic process protein ubiquitination negative regulation of protein modification process negative regulation of cellular process protein metabolic process negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal protein modification process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification regulation of protein metabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process macromolecule modification metabolic process macromolecule metabolic process post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal apoptotic process cell death programmed cell death developmental process cellular developmental process hemopoiesis cell differentiation anatomical structure development cell development ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process organophosphate catabolic process carbohydrate derivative metabolic process regulation of generation of precursor metabolites and energy nucleoside phosphate catabolic process organic acid metabolic process regulation of ATP metabolic process nucleobase-containing compound metabolic process regulation of purine nucleotide catabolic process regulation of small molecule metabolic process glycolytic process regulation of nucleotide metabolic process phosphate-containing compound metabolic process pyridine-containing compound metabolic process small molecule metabolic process regulation of nucleobase-containing compound metabolic process purine ribonucleotide catabolic process phosphorus metabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process regulation of carbohydrate catabolic process pyruvate metabolic process purine nucleoside diphosphate metabolic process purine-containing compound catabolic process nucleotide metabolic process regulation of purine nucleotide metabolic process nucleobase-containing compound catabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process regulation of nucleotide catabolic process regulation of phosphorus metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process cellular respiration catabolic process ATP metabolic process energy derivation by oxidation of organic compounds purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process regulation of carbohydrate metabolic process nucleotide catabolic process purine nucleoside triphosphate metabolic process purine nucleotide catabolic process carbohydrate metabolic process carbohydrate derivative catabolic process ADP catabolic process carboxylic acid metabolic process regulation of catabolic process generation of precursor metabolites and energy regulation of glycolytic process purine-containing compound metabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process purine ribonucleoside diphosphate catabolic process regulation of biosynthetic process rhythmic process circadian regulation of gene expression circadian rhythm gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process negative regulation of protein catabolic process modification-dependent macromolecule catabolic process negative regulation of ubiquitin-dependent protein catabolic process negative regulation of catabolic process negative regulation of proteasomal ubiquitin-dependent protein catabolic process proteasomal protein catabolic process protein catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process negative regulation of proteasomal protein catabolic process regulation of proteasomal protein catabolic process ubiquitin-dependent protein catabolic process regulation of protein catabolic process positive regulation of protein metabolic process positive regulation of biological process positive regulation of metabolic process regulation of proteolysis proteolysis positive regulation of proteolysis positive regulation of macromolecule metabolic process positive regulation of cellular process negative regulation of transforming growth factor beta receptor signaling pathway cell surface receptor protein serine/threonine kinase signaling pathway cellular response to growth factor stimulus negative regulation of signaling cellular response to transforming growth factor beta stimulus regulation of transmembrane receptor protein serine/threonine kinase signaling pathway negative regulation of cell communication regulation of transforming growth factor beta receptor signaling pathway cellular response to endogenous stimulus enzyme-linked receptor protein signaling pathway cell surface receptor signaling pathway negative regulation of response to stimulus regulation of cellular response to transforming growth factor beta stimulus response to endogenous stimulus regulation of cellular response to growth factor stimulus negative regulation of signal transduction response to transforming growth factor beta transforming growth factor beta receptor signaling pathway response to growth factor transforming growth factor beta receptor superfamily signaling pathway negative regulation of transmembrane receptor protein serine/threonine kinase signaling pathway negative regulation of locomotion regulation of cell motility regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion necroptotic process programmed necrotic cell death regulation of programmed cell death regulation of necroptotic process regulation of programmed necrotic cell death multicellular organismal process regulation of cellular component organization cellular component organization cellular component biogenesis multicellular organism development cellular component assembly cell junction assembly regulation of synapse structure or activity regulation of synapse assembly synapse organization cellular component organization or biogenesis regulation of biological quality system development nervous system development regulation of cellular component biogenesis regulation of cell junction assembly regulation of synapse organization cell junction organization synapse assembly regulation of developmental process negative regulation of developmental process regulation of stem cell population maintenance stem cell population maintenance negative regulation of stem cell population maintenance regulation of multicellular organismal process maintenance of cell number negative regulation of multicellular organismal process regulation of transcription from RNA polymerase II promoter by glucose carbon catabolite regulation of transcription positive regulation of macromolecule biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of transcription by glucose regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process cellular response to nutrient levels carbon catabolite regulation of transcription from RNA polymerase II promoter carbon catabolite activation of transcription from RNA polymerase II promoter response to chemical regulation of DNA-templated transcription carbon catabolite activation of transcription response to nutrient levels positive regulation of DNA-templated transcription RNA metabolic process positive regulation of transcription from RNA polymerase II promoter by glucose RNA biosynthetic process nucleic acid biosynthetic process positive regulation of biosynthetic process regulation of RNA biosynthetic process response to nutrient nucleobase-containing compound biosynthetic process nucleic acid metabolic process cellular response to chemical stimulus positive regulation of RNA biosynthetic process cellular response to nutrient regulation of transcription by glucose negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process carbohydrate derivative biosynthetic process glycoprotein biosynthetic process glycoprotein metabolic process protein O-linked glycosylation chromatin organization monosaccharide metabolic process gluconeogenesis regulation of glucose metabolic process small molecule biosynthetic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process hexose biosynthetic process regulation of gluconeogenesis regulation of carbohydrate biosynthetic process glucose metabolic process homeostatic process response to oxygen-containing compound cellular response to glucose stimulus intracellular glucose homeostasis cellular response to oxygen-containing compound response to hexose cellular response to carbohydrate stimulus cellular homeostasis response to monosaccharide response to carbohydrate chemical homeostasis response to glucose glucose homeostasis carbohydrate homeostasis cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway response to biotic stimulus non-canonical inflammasome complex assembly immune response-activating signaling pathway inflammasome-mediated signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process innate immune response-activating signaling pathway negative regulation of non-canonical inflammasome complex assembly negative regulation of cellular component organization immune response response to other organism regulation of innate immune response response to external stimulus regulation of inflammasome-mediated signaling pathway negative regulation of protein-containing complex assembly defense response to other organism regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response regulation of immune response inflammatory response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of defense response regulation of response to biotic stimulus biological process involved in interspecies interaction between organisms regulation of response to external stimulus intracellular receptor signaling pathway negative regulation of cytoplasmic pattern recognition receptor signaling pathway negative regulation of intracellular signal transduction regulation of cytoplasmic pattern recognition receptor signaling pathway positive regulation of response to stimulus regulation of protein-containing complex assembly positive regulation of response to external stimulus immune response-regulating signaling pathway regulation of response to stress response to stress innate immune response protein-containing complex assembly response to external biotic stimulus positive regulation of innate immune response defense response protein-containing complex organization defense response to symbiont negative regulation of immune system process immune system process negative regulation of inflammasome-mediated signaling pathway positive regulation of developmental process positive regulation of stem cell population maintenance positive regulation of multicellular organismal process protein maturation protein processing regulation of lipid metabolic process lipid biosynthetic process positive regulation of lipid biosynthetic process positive regulation of lipid metabolic process regulation of lipid biosynthetic process lipid metabolic process cellular response to nitrogen compound response to peptide hormone insulin receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway response to hormone cellular response to hormone stimulus regulation of insulin receptor signaling pathway cellular response to peptide hormone stimulus response to nitrogen compound response to insulin cellular response to insulin stimulus positive regulation of cell communication positive regulation of signal transduction positive regulation of TORC1 signaling positive regulation of TOR signaling regulation of TORC1 signaling TOR signaling regulation of TOR signaling positive regulation of intracellular signal transduction TORC1 signaling positive regulation of signaling positive regulation of translation protein biosynthetic process post-transcriptional regulation of gene expression translation positive regulation of gene expression regulation of translation adaptive thermogenesis multicellular organismal-level homeostasis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis regulation of localization cellular localization protein localization to synapse regulation of protein localization regulation of neurotransmitter receptor localization to postsynaptic specialization membrane regulation of protein localization to synapse neurotransmitter receptor localization to postsynaptic specialization membrane localization intracellular protein localization regulation of protein localization to membrane regulation of receptor localization to synapse protein localization to postsynaptic specialization membrane protein localization to cell periphery protein localization to postsynaptic membrane regulation of protein localization to cell periphery localization within membrane protein localization to membrane protein-containing complex localization regulation of postsynaptic membrane neurotransmitter receptor levels regulation of cellular localization macromolecule localization protein localization to organelle protein localization to postsynapse protein localization to cell junction receptor localization to synapse mitophagy macroautophagy autophagy autophagy of mitochondrion process utilizing autophagic mechanism	membrane-bounded organelle mitochondrial membrane intracellular anatomical structure mitochondrion membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane cytosol membrane-bounded organelle mitochondrial membrane intracellular anatomical structure mitochondrion membrane intracellular membrane-bounded organelle intracellular organelle organelle envelope cellular anatomical structure organelle mitochondrial envelope cytoplasm organelle membrane cytosol synapse cell junction glutamatergic synapse protein-containing complex catalytic complex intracellular membraneless organelle chromatin chromosome transferase complex histone acetyltransferase complex acetyltransferase complex membraneless organelle protein acetyltransferase complex intracellular protein-containing complex Sin3-type complex nucleus membrane-enclosed lumen nuclear protein-containing complex nuclear chromosome intracellular organelle lumen histone deacetylase complex nucleoplasm organelle lumen nuclear lumen cell periphery plasma membrane NSL complex H4 histone acetyltransferase complex protein N-acetylglucosaminyltransferase complex cell projection

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR019734	Tetratricopeptide repeat	Repeat
A	IPR037919	UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110kDa subunit	Family
A	IPR011990	Tetratricopeptide-like helical domain superfamily	Homologous Superfamily
A	IPR029489	O-GlcNAc transferase, C-terminal	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O15294	Pick disease subependymal giant cell astrocytoma Alzheimer disease B-cell chronic lymphocytic leukemia glioblastoma intellectual disability, X-linked 106 medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma progressive supranuclear palsy astrocytic tumor cystic fibrosis hereditary spastic paraplegia malignant colon neoplasm MENTAL RETARDATION, X-LINKED 106 Pick disease subependymal giant cell astrocytoma Alzheimer disease B-cell chronic lymphocytic leukemia glioblastoma intellectual disability, X-linked 106 medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma progressive supranuclear palsy astrocytic tumor cystic fibrosis hereditary spastic paraplegia malignant colon neoplasm MENTAL RETARDATION, X-LINKED 106 ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis atypical teratoid rhabdoid tumor dermatomyositis intellectual disability malignant ependymoma oligodendroglioma pancreatic ductal adenocarcinoma

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.