9LP4 | pdb_00009lp4

Structural insights into the Tumor suppressor ZMYND11 reveal diverse recognition mechanisms

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, C	PF24324	ZMYND11/ZMYD8, MYND zinc finger (MYND_ZMYND11_ZMYD8)	ZMYND11/ZMYD8, MYND zinc finger	This entry represents the MYND zinc finger from ZMYND11 and ZMYND8 from human and relates sequences. These are chromatin readers that recognise methylated histones; ZMYND11 recognises H3.3 trimethylated at 'Lys-36' (H3.3K36me3) and regulates RNA poly ...	This entry represents the MYND zinc finger from ZMYND11 and ZMYND8 from human and relates sequences. These are chromatin readers that recognise methylated histones; ZMYND11 recognises H3.3 trimethylated at 'Lys-36' (H3.3K36me3) and regulates RNA polymerase II elongation. ZMYND8 recognises histone H3.1 dimethylated at 'Lys-36' and histone H4 acetylated at 'Lys-16' and histone H3 methylated at 'Lys-4' and histone H4 acetylated at 'Lys-14' [2-4].	Domain
A, C	PF23461	ZMYND11 protein coiled-coil (ZMYND11_CC)	ZMYND11 protein coiled-coil	-	Coiled-coil

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Zinc finger MYND domain-containing protein 11	transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding double-stranded DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity DNA binding double-stranded DNA binding binding nucleic acid binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding histone reader activity histone H3 reader activity chromatin-protein adaptor activity histone H3K36me3 reader activity	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular response to stimulus regulation of signaling response to stimulus signaling regulation of signal transduction cell communication regulation of response to stimulus regulation of cell communication signal transduction negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of canonical NF-kappaB signal transduction intracellular signal transduction negative regulation of cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of response to stimulus negative regulation of signal transduction canonical NF-kappaB signal transduction regulation of canonical NF-kappaB signal transduction transcription elongation by RNA polymerase II transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II DNA-templated transcription elongation negative regulation of JNK cascade JNK cascade regulation of JNK cascade regulation of MAPK cascade MAPK cascade negative regulation of MAPK cascade regulation of programmed cell death extrinsic apoptotic signaling pathway negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway cell surface receptor signaling pathway negative regulation of programmed cell death regulation of apoptotic process cell death regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process apoptotic process programmed cell death regulation of apoptotic signaling pathway biological process involved in interspecies interaction between organisms defense response to virus defense response response to other organism response to stress response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus	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 chromosome
B, D	Early E1A protein	cation binding transition metal ion binding zinc ion binding ion binding binding metal ion binding small molecule binding	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 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 cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process symbiont-mediated perturbation of host cellular process symbiont-mediated suppression of host gene expression biological process involved in interspecies interaction between organisms symbiont-mediated perturbation of host process symbiont-mediated perturbation of host gene expression modulation of process of another organism biological process involved in interaction with host biological process involved in symbiotic interaction symbiont-mediated perturbation of host ubiquitin-like protein modification symbiont-mediated suppression of host JAK-STAT cascade symbiont-mediated suppression of host signal transduction pathway symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT activity symbiont-mediated suppression of host JAK-STAT cascade via inhibition of STAT1 activity symbiont-mediated perturbation of host signal transduction pathway viral gene expression DNA-templated viral transcription viral process viral transcription symbiont-mediated activation of host programmed cell death symbiont-mediated activation of host apoptosis symbiont-mediated perturbation of host programmed cell death regulation of killing of cells of another organism disruption of cell in another organism regulation of cell killing symbiont-mediated perturbation of host apoptosis disruption of anatomical structure in another organism symbiont-mediated killing of host cell killing of cells of another organism cell killing symbiont-mediated perturbation of host cell cycle progression symbiont-mediated perturbation of host cell cycle G1/S transition checkpoint symbiont-mediated suppression of host interferon-mediated signaling pathway symbiont-mediated suppression of host type I interferon-mediated signaling pathway symbiont-mediated perturbation of host defense response symbiont-mediated suppression of host cGAS-STING signal transduction symbiont-mediated suppression of host pathogen-associated molecular pattern receptor signaling pathway symbiont-mediated perturbation of host immune response symbiont-mediated suppression of host immune response symbiont-mediated suppression of host innate immune response symbiont-mediated perturbation of host innate immune response symbiont-mediated suppression of cytoplasmic pattern recognition receptor signaling pathway	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR047269	Zinc finger MYND domain-containing protein 11	Family
A, C	IPR001965	Zinc finger, PHD-type	Domain
A, C	IPR057053	ZMYND11/ZMYD8, MYND zinc finger	Domain
A, C	IPR001487	Bromodomain	Domain
A, C	IPR000313	PWWP domain	Domain
A, C	IPR019787	Zinc finger, PHD-finger	Domain
A, C	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, C	IPR047268	Zinc finger MYND domain-containing protein 11, PWWP domain	Domain
A, C	IPR048589	SAM domain-containing protein 1-like, WH domain	Domain
A, C	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, C	IPR057054	ZMYND11, coiled-coil	Domain
A, C	IPR002893	Zinc finger, MYND-type	Domain
A, C	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, C	IPR036427	Bromodomain-like superfamily	Homologous Superfamily
B, D	IPR014410	Adenovirus early E1A protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	Pharos: Q15326	intellectual disability, autosomal dominant 30 intellectual disability adenoma Autistic Disorder Down syndrome malignant glioma ovarian cancer psoriasis atypical teratoid rhabdoid tumor breast cancer glioblastoma large cell medulloblastoma medulloblastoma Pick disease ulcerative colitis intellectual disability, autosomal dominant 30 intellectual disability adenoma Autistic Disorder Down syndrome malignant glioma ovarian cancer psoriasis atypical teratoid rhabdoid tumor breast cancer glioblastoma large cell medulloblastoma medulloblastoma Pick disease ulcerative colitis autism cancer malignant ependymoma oligodendroglioma progressive supranuclear palsy

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.