6G3P | pdb_00006g3p

X-ray structure of seleno-methionine labelled NSD3-PWWP1

External Resource: Annotation

Domain Annotation: ECOD Classification
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	TrbI	e6g3pD1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: TrbI	ECOD (v294.1)
C	TrbI	e6g3pC1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: TrbI	ECOD (v294.1)
B	TrbI	e6g3pB1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: TrbI	ECOD (v294.1)
A	Peptidase_C1, Peptidase_C1_2	e6g3pA1	A: a/b three-layered sandwiches	X: Ten stranded beta/alpha barrel	H: Ten stranded beta/alpha barrel	T: Ten stranded beta/alpha barrel	F: Peptidase_C1, Peptidase_C1_2	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00855	PWWP domain (PWWP)	PWWP domain	The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif [1]. The domain binds to Histone-4 methylated at lysine-20, H4K20me, suggesting that it is methyl-lysine recognition motif. Removal of two conserved aromatic residues in a hydrophobic c ...	The PWWP domain is named after a conserved Pro-Trp-Trp-Pro motif [1]. The domain binds to Histone-4 methylated at lysine-20, H4K20me, suggesting that it is methyl-lysine recognition motif. Removal of two conserved aromatic residues in a hydrophobic cavity created by this domain within the full-length protein, Pdp1, abolishes the interaction o f the protein with H4K20me3. In fission yeast, Set9 is the sole enzyme that catalyses all three states of H4K20me, and Set9-mediated H4K20me is required for efficient recruitment of checkpoint protein Crb2 to sites of DNA damage. The methylation of H4K20 is involved in a diverse array of cellular processes, such as organising higher-order chromatin, maintaining genome stability, and regulating cell-cycle progression [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	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 transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule 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 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 biological regulation 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 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	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, B, C, D	IPR006560	AWS domain	Domain
A, B, C, D	IPR047453	Histone-lysine N-methyltransferase NSD3, second PWWP domain	Domain
A, B, C, D	IPR001965	Zinc finger, PHD-type	Domain
A, B, C, D	IPR046341	SET domain superfamily	Homologous Superfamily
A, B, C, D	IPR055197	Histone-lysine N-methyltransferase NSD-like, variant PHD zinc finger	Domain
A, B, C, D	IPR001214	SET domain	Domain
A, B, C, D	IPR000313	PWWP domain	Domain
A, B, C, D	IPR041306	NSD, Cys-His rich domain	Domain
A, B, C, D	IPR050777	SET2 Histone-Lysine N-Methyltransferase	Family
A, B, C, D	IPR047527	Histone-lysine N-methyltransferase NSD3, fifth PHD finger	Domain
A, B, C, D	IPR019787	Zinc finger, PHD-finger	Domain
A, B, C, D	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, B, C, D	IPR003616	Post-SET domain	Domain
A, B, C, D	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, B, C, D	IPR055198	Histone-lysine N-methyltransferase NSD-like, PHD zinc finger	Domain
A, B, C, D	IPR047461	Histone-lysine N-methyltransferase NSD3, SET domain	Domain
A, B, C, D	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B, C, D	IPR047456	Histone-lysine N-methyltransferase NSD3, second PHD finger	Domain
A, B, C, D	IPR047451	Histone-lysine N-methyltransferase NSD3, first PWWP domain	Domain
A, B, C, D	IPR059153	Histone-lysine N-methyltransferase NSD-like, PHD zinc finger 1	Domain
A, B, C, D	IPR047458	Histone-lysine N-methyltransferase NSD3, fourth PHD finger	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	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