3QJN | pdb_00003qjn

Structural flexibility of Shank PDZ domain is important for its binding to different ligands

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
H	d3qjnh_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
G	d3qjng_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
F	d3qjnf_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
E	d3qjne_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
D	d3qjnd_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
C	d3qjnc_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
B	d3qjnb_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)
A	d3qjna_	All beta proteins	PDZ domain-like	PDZ domain-like	PDZ domain	Shank1, PDZ domain	rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PDZ domain-like	8039618	3000388	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PDZ domain-like	8039618	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)
H	Globin	e3qjnH1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
G	Globin	e3qjnG1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
F	Globin	e3qjnF1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
E	Globin	e3qjnE1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
D	Globin	e3qjnD1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
C	Globin	e3qjnC1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
B	Globin	e3qjnB1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)
A	Globin	e3qjnA1	A: alpha arrays	X: Alpha-beta plaits	H: Phage tail protein-like	T: Transmembrane protein 14A	F: Globin	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
G	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
F	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
E	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
D	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
C	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
B	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)
A	2.30.42.10	Mainly Beta	Roll	Pdz3 Domain	PDZ domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H	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
I, J, K, L, M I, J, K, L, M, N, O, P	Beta-PIX	protein binding binding ATP-dependent protein binding cytoskeletal protein binding gamma-tubulin binding tubulin binding kinase binding enzyme binding protein kinase binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	developmental process multicellular organismal process cellular developmental process glial cell migration nervous system development neurogenesis multicellular organism development gliogenesis cell differentiation anatomical structure development astrocyte cell migration cellular process cell migration cell motility developmental process multicellular organismal process cellular developmental process glial cell migration nervous system development neurogenesis multicellular organism development gliogenesis cell differentiation anatomical structure development astrocyte cell migration cellular process cell migration cell motility animal gross anatomical part developmental process system development lamellipodium assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component organization cellular component biogenesis cellular component assembly lamellipodium organization cellular component organization or biogenesis cell projection assembly actin cytoskeleton organization postsynapse organization postsynaptic cytoskeleton organization organelle organization cell junction organization postsynaptic actin cytoskeleton organization actin filament-based process synapse organization cytoskeleton organization positive regulation of molecular function regulation of molecular function positive regulation of hydrolase activity regulation of catalytic activity regulation of hydrolase activity biological regulation positive regulation of catalytic activity regulation of GTPase activity positive regulation of GTPase activity regulation of biological process positive regulation of programmed cell death regulation of cellular process regulation of apoptotic process positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process apoptotic process programmed cell death positive regulation of cellular process regulation of cytoskeleton organization regulation of microtubule polymerization or depolymerization regulation of cellular component organization microtubule cytoskeleton organization negative regulation of biological process regulation of protein-containing complex assembly microtubule polymerization or depolymerization protein-containing complex assembly negative regulation of cellular process negative regulation of microtubule nucleation negative regulation of protein polymerization negative regulation of supramolecular fiber organization protein polymerization negative regulation of cellular component organization negative regulation of microtubule polymerization or depolymerization protein-containing complex organization negative regulation of cytoskeleton organization regulation of microtubule-based process negative regulation of microtubule polymerization microtubule polymerization regulation of cellular component biogenesis regulation of microtubule nucleation regulation of organelle organization negative regulation of protein-containing complex assembly microtubule nucleation negative regulation of organelle organization regulation of microtubule polymerization regulation of protein polymerization regulation of supramolecular fiber organization microtubule-based process supramolecular fiber organization regulation of microtubule cytoskeleton organization hemopoiesis cell development hematopoietic progenitor cell differentiation cellular response to stimulus small GTPase-mediated signal transduction response to stimulus signaling Rho protein signal transduction intracellular signal transduction cell communication intracellular signaling cassette signal transduction positive regulation of cell communication regulation of localization regulation of hormone secretion nitrogen compound transport regulation of peptide secretion transport positive regulation of secretion by cell hormone secretion localization peptide secretion regulation of secretion by cell secretion by cell positive regulation of hormone secretion positive regulation of secretion signal release regulation of biological quality regulation of peptide hormone secretion positive regulation of peptide secretion regulation of signaling growth hormone secretion regulation of transport secretion regulation of hormone levels regulation of growth hormone secretion regulation of peptide transport positive regulation of peptide hormone secretion export from cell cell-cell signaling establishment of localization regulation of secretion peptide transport positive regulation of growth hormone secretion positive regulation of transport peptide hormone secretion regulation of cell communication hormone transport positive regulation of signaling Golgi organization endomembrane system organization presynapse organization presynaptic actin cytoskeleton organization presynaptic cytoskeleton organization	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery cell cortex intracellular anatomical structure cytoplasm intracellular organelle cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium cell periphery cell cortex intracellular anatomical structure cytoplasm intracellular organelle centrosome microtubule organizing center cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytosol plasma membrane membrane growth cone axon distal axon neuron projection site of polarized growth protein-containing complex GABA-ergic synapse synapse ruffle storage vacuole membrane-bounded organelle vacuole intracellular membrane-bounded organelle somatodendritic compartment cell body neuronal cell body mitotic spindle spindle mitotic spindle pole spindle pole postsynapse
A, B, C, D, E A, B, C, D, E, F, G, H	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 animal gross anatomical part developmental process 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
I, J, K, L, M I, J, K, L, M, N, O, P	IPR001849	Pleckstrin homology domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR000219	Dbl homology domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR035789	Rho guanine nucleotide exchange factor 7, SH3 domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR036028	SH3-like domain superfamily	Homologous Superfamily
I, J, K, L, M I, J, K, L, M, N, O, P	IPR032409	Rho guanine nucleotide exchange factor 6/7, coiled-coil domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR011993	PH-like domain superfamily	Homologous Superfamily
I, J, K, L, M I, J, K, L, M, N, O, P	IPR001331	Guanine-nucleotide dissociation stimulator, CDC24, conserved site	Conserved Site
I, J, K, L, M I, J, K, L, M, N, O, P	IPR001452	SH3 domain	Domain
I, J, K, L, M I, J, K, L, M, N, O, P	IPR035899	Dbl homology (DH) domain superfamily	Homologous Superfamily
I, J, K, L, M I, J, K, L, M, N, O, P	IPR046376	RhoGEF 6/7, PH domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR002110	Ankyrin repeat	Repeat
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001452	SH3 domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001660	Sterile alpha motif domain	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036770	Ankyrin repeat-containing domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR013761	Sterile alpha motif/pointed domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR041489	PDZ domain 6	Domain
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036034	PDZ superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR001478	PDZ domain	Domain