6LCB

Crystal structure of human Dishevelled1 PDZ domain with its inhibitor NPL3009

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d6lcba_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	PDZ domain-like	8102102	3000388	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	PDZ	e6lcbA1	A: beta barrels	X: PDZ domain (From Topology)	H: PDZ domain (From Topology)	T: PDZ domain	F: PDZ	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00595	PDZ domain (PDZ)	PDZ domain	PDZ domains are found in diverse signaling proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Segment polarity protein dishevelled homolog DVL-1	small GTPase binding protein binding binding enzyme binding GTPase binding signaling receptor binding G protein-coupled receptor binding frizzled binding identical protein binding kinase binding protein kinase binding beta-catenin binding	cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cellular response to stimulus positive regulation of cell communication multicellular organismal process regulation of postsynaptic membrane potential system process regulation of cellular process positive regulation of signal transduction response to stimulus signaling modulation of chemical synaptic transmission regulation of system process positive regulation of excitatory postsynaptic potential positive regulation of biological process regulation of signal transduction chemical synaptic transmission, postsynaptic cell communication positive regulation of response to stimulus synaptic signaling modulation of excitatory postsynaptic potential regulation of multicellular organismal process signal transduction regulation of biological quality positive regulation of cellular process 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 positive regulation of signaling regulation of protein stability protein stabilization canonical Wnt signaling pathway Wnt signaling pathway embryonic epithelial tube formation tube formation multicellular organism development epithelial tube formation tube morphogenesis primary neural tube formation establishment of tissue polarity anatomical structure development animal organ morphogenesis non-canonical Wnt signaling pathway system development developmental process epithelium development establishment of planar polarity regulation of animal organ morphogenesis planar cell polarity pathway involved in neural tube closure embryonic morphogenesis nervous system development tissue development neural tube closure neural tube formation tube closure regulation of developmental process chordate embryonic development Wnt signaling pathway, planar cell polarity pathway embryo development embryo development ending in birth or egg hatching establishment of planar polarity of embryonic epithelium morphogenesis of a polarized epithelium regulation of establishment of planar polarity involved in neural tube closure epithelial tube morphogenesis regulation of anatomical structure morphogenesis morphogenesis of embryonic epithelium neural tube development tube development animal organ development morphogenesis of an epithelium establishment of planar polarity involved in neural tube closure regulation of establishment of planar polarity anatomical structure morphogenesis tissue morphogenesis anatomical structure formation involved in morphogenesis regulation of protein modification process regulation of protein phosphorylation negative regulation of biological process negative regulation of phosphate metabolic process negative regulation of cellular metabolic process regulation of primary metabolic process organic substance metabolic process regulation of phosphate metabolic process phosphate-containing compound metabolic process negative regulation of protein modification process negative regulation of cellular process protein metabolic process protein modification process phosphorus metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process organonitrogen compound metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process negative regulation of protein phosphorylation macromolecule modification negative regulation of phosphorus metabolic process metabolic process regulation of phosphorylation regulation of phosphorus metabolic process macromolecule metabolic process negative regulation of phosphorylation regulation of metabolic process positive regulation of proteasomal protein catabolic process catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process positive regulation of metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis positive regulation of macromolecule metabolic process organonitrogen compound catabolic process proteasomal protein catabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process ubiquitin-dependent protein catabolic process organic substance catabolic process regulation of protein catabolic process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cellular developmental process cell projection organization cell development neuron projection development cellular component organization neurogenesis neuron differentiation positive regulation of neuron projection development cell differentiation positive regulation of cell projection organization cellular component organization or biogenesis plasma membrane bounded cell projection organization regulation of cell projection organization generation of neurons neuron development regulation of plasma membrane bounded cell projection organization startle response regulation of response to external stimulus neuromuscular process negative regulation of response to stimulus prepulse inhibition response to external stimulus negative regulation of response to external stimulus protein localization to microtubule cytoskeleton protein localization protein localization to microtubule localization cellular localization protein localization to cytoskeleton protein localization to organelle cellular macromolecule localization macromolecule localization cellular biosynthetic process RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription plasma membrane bounded cell projection morphogenesis cell morphogenesis cell projection morphogenesis neuron projection morphogenesis dendrite development dendritic spine morphogenesis synapse organization dendritic spine development dendritic spine organization postsynapse organization dendrite morphogenesis cell morphogenesis involved in neuron differentiation cell junction organization neuron projection organization neural plate development convergent extension involved in gastrulation convergent extension involved in organogenesis morphogenesis of an epithelial sheet gastrulation convergent extension involved in neural plate elongation neural plate elongation convergent extension neural plate morphogenesis axon extension axonogenesis developmental growth cell growth neuron projection extension developmental cell growth growth axon development developmental growth involved in morphogenesis regulated exocytosis transport synaptic vesicle cycle synaptic vesicle exocytosis vesicle-mediated transport vesicle-mediated transport in synapse secretion by cell signal release establishment of localization in cell neurotransmitter secretion secretion export from cell neurotransmitter transport establishment of localization signal release from synapse exocytosis regulation of neuron projection arborization regulation of cell morphogenesis positive regulation of developmental process positive regulation of neuron projection arborization neuron projection arborization receptor clustering localization within membrane protein localization to membrane positive regulation of macromolecule biosynthetic process transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process regulation of postsynapse organization regulation of synapse organization regulation of synapse structure or activity regulation of localization regulation of regulated secretory pathway regulation of secretion by cell regulation of transport regulation of neurotransmitter transport regulation of synaptic vesicle exocytosis regulation of vesicle-mediated transport regulation of secretion regulation of neurotransmitter secretion regulation of exocytosis membrane organization skeletal muscle acetylcholine-gated channel clustering neuromuscular junction development postsynaptic membrane organization heart morphogenesis pattern specification process embryonic heart tube development embryonic heart tube morphogenesis heart looping determination of bilateral symmetry embryonic organ development determination of left/right symmetry specification of symmetry embryonic organ morphogenesis heart development determination of heart left/right asymmetry regionalization circulatory system development left/right pattern formation presynapse organization cellular component biogenesis cellular component assembly cell junction assembly synapse assembly presynapse assembly regulation of protein localization to presynapse protein localization to synapse regulation of protein localization positive regulation of protein localization to synapse positive regulation of protein localization to presynapse regulation of protein localization to synapse protein localization to presynapse regulation of cellular localization positive regulation of protein localization protein localization to cell junction collateral sprouting organelle organization microtubule cytoskeleton organization microtubule-based process cytoplasmic microtubule organization supramolecular fiber organization cytoskeleton organization ear morphogenesis ear development sensory organ development sensory organ morphogenesis inner ear development cochlea development inner ear morphogenesis cochlea morphogenesis axon guidance neuron projection guidance behavior biological process involved in intraspecies interaction between organisms social behavior positive regulation of phosphorylation positive regulation of phosphate metabolic process positive regulation of protein modification process positive regulation of protein phosphorylation positive regulation of phosphorus metabolic process intracellular signal transduction protein localization to nucleus outflow tract morphogenesis	membrane-bounded organelle intracellular anatomical structure dense core granule intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle membrane-bounded organelle intracellular anatomical structure dense core granule intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle cytoplasmic vesicle organelle secretory granule secretory vesicle cytoplasm vesicle neuronal dense core vesicle cytosol synapse cell junction glutamatergic synapse cell projection neuron projection plasma membrane bounded cell projection neuron spine dendritic spine somatodendritic compartment postsynapse dendrite dendritic tree cell body neuronal cell body polymeric cytoskeletal fiber cytoskeleton intracellular non-membrane-bounded organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton non-membrane-bounded organelle clathrin-coated vesicle coated vesicle presynapse growth cone axon distal axon site of polarized growth protein-containing complex Wnt signalosome postsynaptic density neuron to neuron synapse postsynaptic specialization asymmetric synapse Schaffer collateral - CA1 synapse cell periphery plasma membrane membrane lateral plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000591	DEP domain	Domain
A	IPR008339	Dishevelled family	Family
A	IPR024580	Dishevelled C-terminal	Domain
A	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
A	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
A	IPR015506	Dishevelled-related protein	Family
A	IPR038207	DIX domain superfamily	Homologous Superfamily
A	IPR003351	Dishevelled protein domain	Domain
A	IPR001158	DIX domain	Domain
A	IPR036034	PDZ superfamily	Homologous Superfamily
A	IPR001478	PDZ domain	Domain
A	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O14640	Robinow syndrome autosomal dominant Robinow syndrome 2 malignant glioma spina bifida inflammatory bowel disease pancreatic ductal adenocarcinoma ulcerative colitis intellectual disability

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.