6YX1 | pdb_00006yx1

Crystal structure of SHANK1 PDZ in complex with a peptide-small molecule hybrid

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
B	d6yx1b1	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d6yx1b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d6yx1a1	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d6yx1a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
B		e6yx1B1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: DNA_topoisoIV	F:	ECOD (20:10:01)
A		e6yx1A1	A: Family A G protein-coupled receptor-like	X: Family A G protein-coupled receptor-like	H: Family A G protein-coupled receptor-like	T: DNA_topoisoIV	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (utative)
A	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF17820	PDZ domain (PDZ_6)	PDZ domain	This entry represents the PDZ domain from a wide variety of proteins.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	SH3 and multiple ankyrin repeat domains protein 1	structural constituent of postsynapse structural molecule activity structural constituent of postsynaptic density structural constituent of synapse structural constituent of postsynaptic specialization somatostatin receptor binding protein binding binding signaling receptor binding G protein-coupled receptor binding neuropeptide receptor binding SH3 domain binding protein domain specific binding signaling receptor complex adaptor activity structural constituent of postsynapse structural molecule activity structural constituent of postsynaptic density structural constituent of synapse structural constituent of postsynaptic specialization somatostatin receptor binding protein binding binding signaling receptor binding G protein-coupled receptor binding neuropeptide receptor binding SH3 domain binding protein domain specific binding signaling receptor complex adaptor activity protein-macromolecule adaptor activity synaptic receptor adaptor activity molecular adaptor activity signaling adaptor activity protein-containing complex binding identical protein binding ankyrin repeat binding scaffold protein binding ionotropic glutamate receptor binding glutamate receptor 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 cytoskeleton organization regulation of cellular component organization regulation of actin filament-based process negative regulation of biological process regulation of actin filament bundle assembly cellular component organization cellular component biogenesis cellular component assembly actin filament bundle organization negative regulation of cellular process actin filament-based process negative regulation of supramolecular fiber organization cellular component organization or biogenesis regulation of actin filament organization negative regulation of cellular component organization actin cytoskeleton organization negative regulation of cytoskeleton organization actin filament organization negative regulation of actin filament bundle assembly regulation of cellular component biogenesis regulation of organelle organization organelle organization negative regulation of organelle organization regulation of actin cytoskeleton organization actin filament bundle assembly regulation of supramolecular fiber organization supramolecular fiber organization cytoskeleton organization sensory perception sensory processing determination of affect cognition behavior learning learning or memory nonassociative learning habituation regulation of developmental process cellular developmental process cell projection organization 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 plasma membrane bounded cell projection organization nervous system development generation of neurons neuron development plasma membrane bounded cell projection morphogenesis cell morphogenesis cell projection morphogenesis neuron projection morphogenesis dendritic spine morphogenesis synapse organization dendritic spine organization postsynapse organization dendrite morphogenesis cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis cell junction organization neuron projection organization developmental maturation synapse maturation olfactory behavior response to chemical chemosensory behavior protein-containing complex organization protein-containing complex assembly reflex response to external stimulus righting reflex adult behavior localization protein localization to synapse macromolecule localization intracellular protein localization protein localization to cell junction neuromuscular process neuromuscular process controlling balance long-term memory memory biological process involved in intraspecies interaction between organisms social behavior ligand-gated ion channel signaling pathway ionotropic glutamate receptor signaling pathway glutamate receptor signaling pathway AMPA selective glutamate receptor signaling pathway associative learning vocalization behavior	cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane intracellular anatomical structure cytoplasm cytosol somatodendritic compartment cell periphery postsynapse cellular anatomical structure postsynaptic membrane synapse cell junction membrane plasma membrane plasma membrane region synaptic membrane intracellular anatomical structure cytoplasm cytosol somatodendritic compartment cell projection dendrite dendritic tree neuron projection plasma membrane bounded cell projection glutamatergic synapse neuron spine dendritic spine excitatory synapse postsynaptic density neuron to neuron synapse postsynaptic specialization organelle asymmetric synapse Schaffer collateral - CA1 synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR051569	SHANK	Unknown
A, B	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A, B	IPR002110	Ankyrin repeat	Repeat
A, B	IPR001452	SH3 domain	Domain
A, B	IPR001660	Sterile alpha motif domain	Domain
A, B	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
A, B	IPR013761	Sterile alpha motif/pointed domain superfamily	Homologous Superfamily
A, B	IPR041489	PDZ domain 6	Domain
A, B	IPR036034	PDZ superfamily	Homologous Superfamily
A, B	IPR001478	PDZ domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: Q9Y566	renal cell carcinoma papillary renal cell carcinoma collecting duct carcinoma developmental coordination disorder chromophobe renal cell carcinoma sarcomatoid renal cell carcinoma autism primitive neuroectodermal tumor renal carcinoma schizophrenia anxiety disorder Anxiety States, Neurotic large cell medulloblastoma Phelan-McDermid syndrome psoriasis renal cell carcinoma papillary renal cell carcinoma collecting duct carcinoma developmental coordination disorder chromophobe renal cell carcinoma sarcomatoid renal cell carcinoma autism primitive neuroectodermal tumor renal carcinoma schizophrenia anxiety disorder Anxiety States, Neurotic large cell medulloblastoma Phelan-McDermid syndrome psoriasis atypical teratoid rhabdoid tumor colorectal cancer glioblastoma malignant ependymoma pilocytic astrocytoma clear cell renal carcinoma intellectual disability malignant glioma

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.