3OOI | pdb_00003ooi

Crystal Structure of Human Histone-Lysine N-methyltransferase NSD1 SET domain in Complex with S-adenosyl-L-methionine

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
Pharos: Disease Associations

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3ooia1	Membrane and cell surface proteins and peptides	SNF-like	SNF-like	Amino acid antiporter-like	Histone H3 K36-specific methyltransferase NSD1	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3ooia2	Artifacts	Tags	Tags	Tags	N-terminal Tags	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PRDM2_PR	e3ooiA2	A: alpha bundles	X: Subtilisin-like	H: Subtilisin-like	T: Subtilisin-like	F: PRDM2_PR	ECOD (develop294)
A	Ribosomal_L24e	e3ooiA3	A: alpha bundles	X: ssDNA-binding transcriptional regulator domain-like	H: ssDNA-binding transcriptional regulator domain	T: ssDNA-binding transcriptional regulator domain	F: Ribosomal_L24e	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.170.270.10	Mainly Beta	Beta Complex	Beta-clip-like	SET domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00856	SET domain (SET)	SET domain	-	Family
A	PF17907	AWS domain (AWS)	AWS domain	This entry represents the AWS (associated with SET domain) domain [1]. This is a zinc binding domain. The full AWS domain contains 8 cysteines. This entry represents the N-terminal part of the domain, with the C-terminal part interwoven with the SET ...	This entry represents the AWS (associated with SET domain) domain [1]. This is a zinc binding domain. The full AWS domain contains 8 cysteines. This entry represents the N-terminal part of the domain, with the C-terminal part interwoven with the SET domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Histone-lysine N-methyltransferase, H3 lysine-36 and H4 lysine-20 specific	protein-lysine N-methyltransferase activity histone H4 methyltransferase activity histone H4K20 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity protein-lysine N-methyltransferase activity histone H4 methyltransferase activity histone H4K20 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity histone H3 methyltransferase activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding nuclear thyroid hormone receptor binding protein binding binding DNA-binding transcription factor binding DNA binding sequence-specific DNA binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding chromatin binding histone H3K36 dimethyltransferase activity histone H3K36 methyltransferase activity nuclear retinoic acid receptor binding nuclear androgen receptor binding transcription corepressor activity nuclear retinoid X receptor binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding nuclear estrogen receptor binding	regulation of molecular function regulation of DNA binding regulation of binding regulation of transcription regulatory region DNA binding biological regulation regulation of RNA polymerase II regulatory region sequence-specific DNA binding methylation metabolic process cellular process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process regulation of molecular function regulation of DNA binding regulation of binding regulation of transcription regulatory region DNA binding biological regulation regulation of RNA polymerase II regulatory region sequence-specific DNA binding methylation metabolic process cellular process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process regulation of protein modification process regulation of protein phosphorylation regulation of peptidyl-serine phosphorylation peptidyl-serine modification peptidyl-serine phosphorylation phosphate-containing compound metabolic process peptidyl-amino acid modification protein metabolic process protein modification process phosphorus metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process macromolecule modification regulation of phosphorylation regulation of phosphorus metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process negative regulation of biological process negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006560	AWS domain	Domain
A	IPR047428	Nuclear receptor-binding SET domain-containing protein 1, second PHD finger	Domain
A	IPR001965	Zinc finger, PHD-type	Domain
A	IPR046341	SET domain superfamily	Homologous Superfamily
A	IPR055197	Histone-lysine N-methyltransferase NSD-like, variant PHD zinc finger	Domain
A	IPR001214	SET domain	Domain
A	IPR000313	PWWP domain	Domain
A	IPR047429	Nuclear receptor-binding SET domain-containing protein 1, third PHD finger	Domain
A	IPR041306	NSD, Cys-His rich domain	Domain
A	IPR047426	Histone-lysine N-methyltransferase NSD1 / NSD2, first PHD finger	Domain
A	IPR050777	SET2 Histone-Lysine N-Methyltransferase	Family
A	IPR019787	Zinc finger, PHD-finger	Domain
A	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A	IPR047433	Nuclear receptor-binding SET domain-containing protein 1, SET domain	Domain
A	IPR047430	Nuclear receptor-binding SET domain-containing protein 1, fourth PHD finger	Domain
A	IPR003616	Post-SET domain	Domain
A	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A	IPR055198	Histone-lysine N-methyltransferase NSD-like, PHD zinc finger	Domain
A	IPR047423	Nuclear receptor-binding SET domain-containing protein 1, second PWWP domain	Domain
A	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A	IPR059153	Histone-lysine N-methyltransferase NSD-like, PHD zinc finger 1	Domain
A	IPR047432	Nuclear receptor-binding SET domain-containing protein 1, fifth PHD finger	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q96L73	Sotos syndrome Weaver syndrome Beckwith-Wiedemann syndrome intellectual disability Sotos syndrome 1 5q35 microduplication syndrome salivary gland adenoid cystic carcinoma acute myeloid leukemia adenoid cystic carcinoma nephrolithiasis Pick disease rheumatoid arthritis Alzheimer disease Autistic Disorder Crohn disease Sotos syndrome Weaver syndrome Beckwith-Wiedemann syndrome intellectual disability Sotos syndrome 1 5q35 microduplication syndrome salivary gland adenoid cystic carcinoma acute myeloid leukemia adenoid cystic carcinoma nephrolithiasis Pick disease rheumatoid arthritis Alzheimer disease Autistic Disorder Crohn disease inflammatory bowel disease osteosarcoma ulcerative colitis atypical teratoid rhabdoid tumor chronic kidney disease ovarian cancer progressive supranuclear palsy autism cancer cleft lip hydrocephalus macrocephaly/megalencephaly syndrome, autosomal recessive