5MQ4 | pdb_00005mq4

Crystal Structure of the leucine zipper of human PRKCBP1

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)
F	zf-MYND	e5mq4F1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: HIT/MYND zinc finger-like (From Topology)	T: HIT/MYND zinc finger-like	F: zf-MYND	ECOD (1.6)
E	zf-MYND	e5mq4E1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: HIT/MYND zinc finger-like (From Topology)	T: HIT/MYND zinc finger-like	F: zf-MYND	ECOD (1.6)
D	zf-MYND	e5mq4D1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: HIT/MYND zinc finger-like (From Topology)	T: HIT/MYND zinc finger-like	F: zf-MYND	ECOD (1.6)
C	zf-MYND	e5mq4C1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: HIT/MYND zinc finger-like (From Topology)	T: HIT/MYND zinc finger-like	F: zf-MYND	ECOD (1.6)
B	zf-MYND	e5mq4B1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: HIT/MYND zinc finger-like (From Topology)	T: HIT/MYND zinc finger-like	F: zf-MYND	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	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, B, C, D, E A, B, C, D, E, F	PF23460	ZMYND8 protein coiled-coil (ZMYND8_CC)	ZMYND8 protein coiled-coil	-	Coiled-coil

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Protein kinase C-binding protein 1	protein binding binding protein domain specific binding histone H3K14ac reader activity histone reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity transcription corepressor activity transcription regulator activity transcription coregulator activity transcription factor binding DNA-binding transcription factor binding protein binding binding protein domain specific binding histone H3K14ac reader activity histone reader activity histone H3 reader activity chromatin-protein adaptor activity protein-macromolecule adaptor activity molecular adaptor activity transcription corepressor activity transcription regulator activity transcription coregulator activity transcription factor binding DNA-binding transcription factor binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding histone H3K4me1 reader activity	cellular response to stimulus multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process response to stimulus signaling modulation of chemical synaptic transmission regulation of system process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication synaptic signaling modulation of excitatory postsynaptic potential cellular response to stimulus multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process response to stimulus signaling modulation of chemical synaptic transmission regulation of system process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality trans-synaptic signaling regulation of biological process regulation of signaling cell surface receptor signaling pathway nervous system process biological regulation cell-cell signaling chemical synaptic transmission regulation of nervous system process regulation of trans-synaptic signaling regulation of response to stimulus anterograde trans-synaptic signaling regulation of cell communication cellular process excitatory postsynaptic potential regulation of membrane potential localization protein localization to chromatin protein localization to chromosome protein localization to organelle macromolecule localization intracellular protein localization regulation of cellular component organization dendritic spine maintenance positive regulation of cellular component organization cell projection organization cellular component maintenance positive regulation of biological process regulation of dendritic spine maintenance cellular component organization positive regulation of dendritic spine maintenance regulation of synapse structure or activity positive regulation of cell projection organization cellular component organization or biogenesis synapse organization positive regulation of cellular process plasma membrane bounded cell projection organization dendritic spine organization postsynapse organization regulation of cell projection organization regulation of postsynapse organization regulation of synapse organization cell junction organization neuron projection organization regulation of plasma membrane bounded cell projection organization regulation of developmental process cellular developmental process positive regulation of dendritic spine development cell development regulation of dendritic spine development neuron projection development positive regulation of developmental process neurogenesis multicellular organism development neuron differentiation dendrite development cell differentiation anatomical structure development system development developmental process dendritic spine development nervous system development generation of neurons neuron development regulation of localization cellular localization regulation of protein localization postsynaptic density protein 95 clustering regulation of postsynaptic density protein 95 clustering postsynaptic density organization regulation of postsynaptic density organization regulation of protein localization to membrane postsynaptic membrane organization membrane organization localization within membrane protein localization to membrane regulation of organelle organization organelle organization regulation of cellular localization postsynaptic specialization organization double-strand break repair DNA recombination primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress recombinational repair metabolic process macromolecule metabolic process double-strand break repair via homologous recombination DNA repair negative regulation of locomotion regulation of cell motility negative regulation of biological process regulation of locomotion negative regulation of cellular process regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion filopodium assembly regulation of filopodium assembly plasma membrane bounded cell projection assembly cellular component biogenesis cellular component assembly positive regulation of filopodium assembly positive regulation of cellular component biogenesis regulation of cell projection assembly regulation of cellular component biogenesis regulation of plasma membrane bounded cell projection assembly cell projection assembly positive regulation of plasma membrane bounded cell projection assembly transcription elongation by RNA polymerase II positive regulation of DNA-templated transcription positive regulation of transcription elongation by RNA polymerase II RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process positive regulation of metabolic process regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of DNA-templated transcription, elongation positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II regulation of DNA-templated transcription elongation regulation of transcription elongation by RNA polymerase II regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression positive regulation of transcription by RNA polymerase II macromolecule biosynthetic process positive regulation of RNA metabolic process regulation of gene expression DNA-templated transcription elongation biosynthetic process positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process 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 membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen cytoplasm nucleoplasm chromatin chromosome somatodendritic compartment cell projection dendrite dendritic tree neuron projection dendritic shaft plasma membrane bounded cell projection neuron spine synapse dendritic spine postsynapse cell junction site of DNA damage

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR001965	Zinc finger, PHD-type	Domain
A, B, C, D, E A, B, C, D, E, F	IPR057053	ZMYND11/ZMYD8, MYND zinc finger	Domain
A, B, C, D, E A, B, C, D, E, F	IPR001487	Bromodomain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR000313	PWWP domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR019787	Zinc finger, PHD-finger	Domain
A, B, C, D, E A, B, C, D, E, F	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR021931	MYND-type zinc finger-containing chromatin reader ZMYND8	Family
A, B, C, D, E A, B, C, D, E, F	IPR019786	Zinc finger, PHD-type, conserved site	Conserved Site
A, B, C, D, E A, B, C, D, E, F	IPR002893	Zinc finger, MYND-type	Domain
A, B, C, D, E A, B, C, D, E, F	IPR044075	PRKCBP1, PHD finger	Domain
A, B, C, D, E A, B, C, D, E, F	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR036427	Bromodomain-like superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR037967	ZMYND8, Bromo domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR056987	ZMYND8, coiled-coil	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D, E A, B, C, D, E, F	Pharos: Q9ULU4	astrocytic tumor invasive ductal breast carcinoma lung cancer osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor bipolar disorder juvenile dermatomyositis lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis endogenous depression large cell medulloblastoma malignant mesothelioma astrocytic tumor invasive ductal breast carcinoma lung cancer osteosarcoma pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor bipolar disorder juvenile dermatomyositis lung carcinoma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis endogenous depression large cell medulloblastoma malignant mesothelioma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

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.