9EXY | pdb_00009exy

Crystal structure of the PWWP1 domain of NSD2 bound by compound 34.

External Resource: Annotation

Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	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	Histone-lysine N-methyltransferase NSD2	histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups protein methyltransferase activity histone modifying activity transferase activity methyltransferase activity catalytic activity histone methyltransferase activity protein-lysine N-methyltransferase activity histone H3K36 dimethyltransferase activity S-adenosylmethionine-dependent methyltransferase activity histone H3K36 methyltransferase activity lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups protein methyltransferase activity histone modifying activity transferase activity methyltransferase activity catalytic activity histone methyltransferase activity protein-lysine N-methyltransferase activity histone H3K36 dimethyltransferase activity S-adenosylmethionine-dependent methyltransferase activity histone H3K36 methyltransferase activity lysine N-methyltransferase activity N-methyltransferase activity sequence-specific DNA binding DNA binding binding nucleic acid binding histone H3K36 trimethyltransferase activity cation binding ion binding metal ion binding small molecule binding histone H4 methyltransferase activity histone H4K20 methyltransferase activity chromatin binding	developmental process heart development multicellular organismal process cardiac atrium morphogenesis cardiac chamber morphogenesis atrial septum secundum morphogenesis animal organ development heart morphogenesis cardiac atrium development circulatory system development multicellular organism development anatomical structure morphogenesis cardiac septum development cardiac septum morphogenesis cardiac chamber development developmental process heart development multicellular organismal process cardiac atrium morphogenesis cardiac chamber morphogenesis atrial septum secundum morphogenesis animal organ development heart morphogenesis cardiac atrium development circulatory system development multicellular organism development anatomical structure morphogenesis cardiac septum development cardiac septum morphogenesis cardiac chamber development anatomical structure development atrial septum morphogenesis animal organ morphogenesis septum secundum development atrial septum development system development protein localization regulation of localization establishment of protein localization cellular localization regulation of biological process regulation of cellular process regulation of protein localization regulation of establishment of protein localization biological regulation establishment of localization localization regulation of cellular localization cellular macromolecule localization macromolecule localization cellular process methylation metabolic process skeletal system development bone development ventricular septum development ventricular septum morphogenesis membranous septum morphogenesis cardiac ventricle development 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 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 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 cellular response to stimulus regulation of double-strand break repair response to stimulus regulation of cellular response to stress cellular response to stress response to stress regulation of response to stress regulation of double-strand break repair via nonhomologous end joining DNA repair double-strand break repair double-strand break repair via nonhomologous end joining DNA metabolic process regulation of DNA repair DNA damage response regulation of response to stimulus regulation of DNA metabolic process septum primum development atrial septum primum morphogenesis adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte activation regulation of cell activation B cell activation involved in immune response positive regulation of macromolecule biosynthetic process positive regulation of immune response regulation of immune system process positive regulation of macromolecule metabolic process positive regulation of isotype switching to IgA isotypes positive regulation of DNA recombination positive regulation of immunoglobulin mediated immune response immune response DNA recombination immune effector process positive regulation of DNA metabolic process B cell mediated immunity positive regulation of production of molecular mediator of immune response immunoglobulin production regulation of developmental process positive regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains somatic cell DNA recombination somatic diversification of immunoglobulins involved in immune response positive regulation of lymphocyte activation somatic recombination of immunoglobulin gene segments positive regulation of biosynthetic process regulation of immunoglobulin mediated immune response leukocyte activation involved in immune response regulation of B cell activation positive regulation of isotype switching positive regulation of immune effector process positive regulation of cellular process production of molecular mediator of immune response positive regulation of immunoglobulin production regulation of isotype switching cell activation isotype switching to IgA isotypes positive regulation of gene expression immune system process somatic diversification of immune receptors via germline recombination within a single locus regulation of lymphocyte activation lymphocyte mediated immunity regulation of immune effector process regulation of DNA recombination positive regulation of leukocyte mediated immunity cell activation involved in immune response positive regulation of developmental process positive regulation of cell activation positive regulation of metabolic process positive regulation of leukocyte activation leukocyte mediated immunity somatic diversification of immune receptors positive regulation of adaptive immune response positive regulation of immune system process somatic recombination of immunoglobulin genes involved in immune response positive regulation of nucleobase-containing compound metabolic process regulation of adaptive immune response regulation of B cell mediated immunity somatic diversification of immunoglobulins regulation of leukocyte mediated immunity regulation of immune response positive regulation of multicellular organismal process regulation of production of molecular mediator of immune response isotype switching immune system development immunoglobulin production involved in immunoglobulin-mediated immune response positive regulation of lymphocyte mediated immunity regulation of isotype switching to IgA isotypes positive regulation of biological process lymphocyte activation positive regulation of B cell mediated immunity leukocyte activation positive regulation of response to stimulus regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of multicellular organismal process lymphocyte activation involved in immune response B cell activation immunoglobulin mediated immune response adaptive immune response positive regulation of B cell activation regulation of lymphocyte mediated immunity regulation of immunoglobulin production	cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle nucleolus intracellular organelle lumen organelle lumen nuclear lumen nucleoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001965	Zinc finger, PHD-type	Domain
A, B	IPR046341	SET domain superfamily	Homologous Superfamily
A, B	IPR047441	Nuclear SET domain-containing protein 2, third PHD finger	Domain
A, B	IPR001214	SET domain	Domain
A, B	IPR000313	PWWP domain	Domain
A, B	IPR047426	Histone-lysine N-methyltransferase NSD1 / NSD2, first PHD finger	Domain
A, B	IPR047442	Nuclear SET domain-containing protein 2, fifth PHD finger	Domain
A, B	IPR003616	Post-SET domain	Domain
A, B	IPR055198	Histone-lysine N-methyltransferase NSD-like, PHD zinc finger	Domain
A, B	IPR047434	Nuclear SET domain-containing protein 2, first PWWP domain	Domain
A, B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B	IPR001841	Zinc finger, RING-type	Domain
A, B	IPR036910	High mobility group box domain superfamily	Homologous Superfamily
A, B	IPR006560	AWS domain	Domain
A, B	IPR055197	Histone-lysine N-methyltransferase NSD-like, variant PHD zinc finger	Domain
A, B	IPR041306	NSD, Cys-His rich domain	Domain
A, B	IPR050777	SET2 Histone-Lysine N-Methyltransferase	Family
A, B	IPR019787	Zinc finger, PHD-finger	Domain
A, B	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, B	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, B	IPR047443	Nuclear SET domain-containing protein 2, HMG box	Domain
A, B	IPR047437	Nuclear SET domain-containing protein 2, SET domain	Domain
A, B	IPR047439	Nuclear SET domain-containing protein 2, second PHD finger	Domain
A, B	IPR047435	Nuclear SET domain-containing protein 2, second PWWP domain	Domain
A, B	IPR009071	High mobility group box domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: O96028	Wolf-Hirschhorn syndrome breast carcinoma breast cancer Malignant neoplasm of breast medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma adrenal cortex carcinoma pituitary cancer bone marrow disease primitive neuroectodermal tumor cancer ductal breast carcinoma in situ invasive ductal breast carcinoma lung adenocarcinoma Wolf-Hirschhorn syndrome breast carcinoma breast cancer Malignant neoplasm of breast medulloblastoma osteosarcoma pancreatic intraductal papillary-mucinous carcinoma adrenal cortex carcinoma pituitary cancer bone marrow disease primitive neuroectodermal tumor cancer ductal breast carcinoma in situ invasive ductal breast carcinoma lung adenocarcinoma malignant glioma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm atopic eczema subependymal giant cell astrocytoma gastric carcinoma large cell medulloblastoma lung cancer malignant mesothelioma non-small cell lung carcinoma pancreatic ductal adenocarcinoma pilocytic astrocytoma atypical teratoid rhabdoid tumor childhood acute lymphoblastic leukemia glioblastoma malignant ependymoma