4GND

Crystal Structure of NSD3 tandem PHD5-C5HCH domains

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	PHD_5	e4gndA3	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: FYVE/PHD zinc finger	F: PHD_5	ECOD (1.6)
A	zf-AN1_like	e4gndA4	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: FYVE/PHD zinc finger	F: zf-AN1_like	ECOD (1.6)
B [auth C]	PHD_5	e4gndC3	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: FYVE/PHD zinc finger	F: PHD_5	ECOD (1.6)
B [auth C]	zf-AN1_like	e4gndC4	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: FYVE/PHD zinc finger	F: zf-AN1_like	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.40.10	Alpha Beta	2-Layer Sandwich	Herpes Virus-1	Zinc/RING finger domain, C3HC4 (zinc finger)	CATH (4.3.0)
B [auth C]	3.30.40.10	Alpha Beta	2-Layer Sandwich	Herpes Virus-1	Zinc/RING finger domain, C3HC4 (zinc finger)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C]	PF17982	NSD Cys-His rich domain (C5HCH)	NSD Cys-His rich domain	This is an NSD-specific Cys-His rich region (C5HCH) domain. Family members include NSD3 (nuclear receptor SET domain-containing) proteins. This domain is located on the C-terminal of NSD1, 2 and 3 proteins. C5HCH domain lies adjacent to the fifth pla ...	This is an NSD-specific Cys-His rich region (C5HCH) domain. Family members include NSD3 (nuclear receptor SET domain-containing) proteins. This domain is located on the C-terminal of NSD1, 2 and 3 proteins. C5HCH domain lies adjacent to the fifth plant homeodomain (PHD5). The PHD5-C5HCH module of NSD3 (PHD5-C5HCHNSD3) recognises the H3 N-terminal peptide containing unmodified K4 and trimethylated K9. Moreover, it has been reported that the PHD5-C5HCH module of NSD1 (PHD5-C5HCH) was the sole region required for tight binding of the NUP98-NSD1 fusion protein to the HoxA9 gene promoter, implicating that PHD5-C5HCH might have chromatin targeting ability [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C]	Histone-lysine N-methyltransferase NSD3	protein-lysine N-methyltransferase activity histone H3K27 trimethyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone H3K27 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 H3K27 trimethyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone H3K27 methyltransferase activity histone methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity molecular function activator activity molecular function regulator activity transcription regulator activator activity histone H3K27 dimethyltransferase activity histone H3K4 methyltransferase activity histone H3K4 dimethyltransferase activity histone H3K36 methyltransferase activity cation binding ion binding binding metal ion binding small molecule binding	methylation metabolic process regulation of cellular process cellular biosynthetic 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 methylation metabolic process regulation of cellular process cellular biosynthetic 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 cellular metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of cellular metabolic 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 nucleobase-containing compound metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromatin membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle cellular anatomical entity intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C]	IPR006560	AWS domain	Domain
A, B [auth C]	IPR047453	Histone-lysine N-methyltransferase NSD3, second PWWP domain	Domain
A, B [auth C]	IPR001965	Zinc finger, PHD-type	Domain
A, B [auth C]	IPR046341	SET domain superfamily	Homologous Superfamily
A, B [auth C]	IPR001214	SET domain	Domain
A, B [auth C]	IPR000313	PWWP domain	Domain
A, B [auth C]	IPR041306	NSD, Cys-His rich domain	Domain
A, B [auth C]	IPR050777	SET2 Histone-Lysine N-Methyltransferase	Family
A, B [auth C]	IPR047527	Histone-lysine N-methyltransferase NSD3, fifth PHD finger	Domain
A, B [auth C]	IPR019787	Zinc finger, PHD-finger	Domain
A, B [auth C]	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, B [auth C]	IPR003616	Post-SET domain	Domain
A, B [auth C]	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, B [auth C]	IPR047461	Histone-lysine N-methyltransferase NSD3, SET domain	Domain
A, B [auth C]	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B [auth C]	IPR047456	Histone-lysine N-methyltransferase NSD3, second PHD finger	Domain
A, B [auth C]	IPR047451	Histone-lysine N-methyltransferase NSD3, first PWWP domain	Domain
A, B [auth C]	IPR047458	Histone-lysine N-methyltransferase NSD3, fourth PHD finger	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B [auth C]	Pharos: Q9BZ95	pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor Tourette syndrome acute myeloid leukemia autism spectrum disorder cleft lip juvenile dermatomyositis malignant mesothelioma non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis attention deficit hyperactivity disorder, inattentive type breast cancer glioblastoma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor Tourette syndrome acute myeloid leukemia autism spectrum disorder cleft lip juvenile dermatomyositis malignant mesothelioma non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis attention deficit hyperactivity disorder, inattentive type breast cancer glioblastoma large cell medulloblastoma medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma Pick disease spina bifida atypical teratoid rhabdoid tumor cancer hypertensive disorder malignant glioma myopathy ovarian cancer

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.