1CKB | pdb_00001ckb

STRUCTURAL BASIS FOR THE SPECIFIC INTERACTION OF LYSINE-CONTAINING PROLINE-RICH PEPTIDES WITH THE N-TERMINAL SH3 DOMAIN OF C-CRK

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)
A	d1ckba_	All beta proteins	SH3-like barrel	SH3-domain	SH3-domain	C-Crk, N-terminal SH3 domain	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	SH3-domain	8041561	3000153	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	SH3_1	e1ckbA1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: SH3_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.30.30.40	Mainly Beta	Roll	SH3 type barrels.	SH3 Domains	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00018	SH3 domain (SH3_1)	SH3 domain	SH3 (Src homology 3) domains are often indicative of a protein involved in signal transduction related to cytoskeletal organisation. First described in the Src cytoplasmic tyrosine kinase Swiss:P12931. The structure is a partly opened beta barrel.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	C-CRK N-TERMINAL SH3 DOMAIN	cytoskeletal protein binding protein binding binding phosphoprotein binding phosphotyrosine residue binding protein phosphorylated amino acid binding SH3 domain binding protein domain specific binding signaling receptor binding ephrin receptor binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding protein tyrosine kinase binding cytoskeletal protein binding protein binding binding phosphoprotein binding phosphotyrosine residue binding protein phosphorylated amino acid binding SH3 domain binding protein domain specific binding signaling receptor binding ephrin receptor binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding protein tyrosine kinase binding kinase binding protein kinase binding insulin-like growth factor receptor binding protein-macromolecule adaptor activity molecular adaptor activity signaling adaptor activity SH2 domain binding scaffold protein binding signaling receptor complex adaptor activity	cellular response to stimulus cellular response to nitrogen compound response to stimulus response to endogenous stimulus response to peptide hormone cellular response to peptide hormone stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular process cellular response to stimulus cellular response to nitrogen compound response to stimulus response to endogenous stimulus response to peptide hormone cellular response to peptide hormone stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical cellular process cellular response to insulin-like growth factor stimulus cellular response to hormone stimulus regulation of localization cellular localization regulation of cellular process regulation of protein localization positive regulation of biological process cellular component organization localization neuromuscular junction development receptor clustering synapse organization cellular component organization or biogenesis intracellular protein localization regulation of skeletal muscle acetylcholine-gated channel clustering regulation of receptor clustering postsynaptic membrane organization regulation of protein localization to membrane positive regulation of cellular process membrane organization regulation of biological process postsynapse organization positive regulation of receptor clustering skeletal muscle acetylcholine-gated channel clustering biological regulation positive regulation of protein localization to membrane localization within membrane protein localization to membrane positive regulation of skeletal muscle acetylcholine-gated channel clustering cell junction organization regulation of cellular localization macromolecule localization positive regulation of protein localization response to peptide biological process involved in interspecies interaction between organisms response to other organism response to yeast response to external stimulus response to fungus response to external biotic stimulus response to biotic stimulus cell population proliferation cell surface receptor signaling pathway signaling cell surface receptor protein tyrosine kinase signaling pathway cell communication signal transduction enzyme-linked receptor protein signaling pathway ephrin receptor signaling pathway wound healing regulation of response to external stimulus negative regulation of response to stimulus negative regulation of wound healing negative regulation of biological process negative regulation of response to wounding regulation of response to wounding regulation of response to stimulus response to stress regulation of response to stress negative regulation of response to external stimulus regulation of wound healing response to wounding establishment of cell polarity establishment or maintenance of cell polarity positive regulation of substrate adhesion-dependent cell spreading regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of substrate adhesion-dependent cell spreading regulation of cell adhesion cell-substrate adhesion cell adhesion positive regulation of cell-substrate adhesion substrate adhesion-dependent cell spreading organelle organization actin cytoskeleton organization actin filament-based process cytoskeleton organization positive regulation of locomotion regulation of cell motility positive regulation of smooth muscle cell migration regulation of smooth muscle cell migration positive regulation of cell migration smooth muscle cell migration muscle cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion cellular response to growth factor stimulus cellular response to nerve growth factor stimulus response to nerve growth factor response to growth factor positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction intracellular signal transduction positive regulation of response to stimulus positive regulation of JNK cascade regulation of intracellular signal transduction JNK cascade intracellular signaling cassette regulation of signaling positive regulation of MAPK cascade regulation of JNK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade regulation of cell communication positive regulation of signaling developmental process multicellular organismal process head development forebrain development animal organ development brain development nervous system development pallium development cerebral cortex development multicellular organism development central nervous system development anatomical structure development telencephalon development system development cell chemotaxis chemotaxis taxis helper T cell diapedesis helper T cell extravasation T cell extravasation lymphocyte migration leukocyte migration diapedesis immune system process mononuclear cell migration cellular extravasation T cell migration reelin-mediated signaling pathway response to hepatocyte growth factor regulation of molecular function regulation of catalytic activity regulation of hydrolase activity regulation of GTPase activity response to hydrogen peroxide response to oxidative stress response to reactive oxygen species regulation of leukocyte migration regulation of immune system process cellular response to nitric oxide response to nitric oxide cellular response to reactive nitrogen species small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction Rac protein signal transduction regulation of Rac protein signal transduction positive regulation of Rac protein signal transduction positive regulation of small GTPase mediated signal transduction hippocampus development limbic system development organelle assembly postsynaptic specialization assembly postsynapse assembly cellular component biogenesis cellular component assembly cell junction assembly postsynaptic specialization organization synapse assembly cell adhesion mediated by integrin regulation of cell adhesion mediated by integrin response to cholecystokinin response to transforming growth factor beta cellular response to transforming growth factor beta stimulus regulation of cytoskeleton organization regulation of cellular component organization regulation of actin filament-based process regulation of organelle organization regulation of actin cytoskeleton organization regulation of neuron projection development regulation of developmental process cellular developmental process cell projection organization cell development neuron projection development neurogenesis neuron differentiation dendrite development cell differentiation plasma membrane bounded cell projection organization regulation of cell projection organization generation of neurons regulation of dendrite development neuron development regulation of plasma membrane bounded cell projection organization primary metabolic process metabolic process lipid metabolic process negative regulation of locomotion negative regulation of cellular process negative regulation of cell motility regulation of immune effector process lymphocyte mediated immunity negative regulation of lymphocyte mediated immunity negative regulation of natural killer cell mediated immunity leukocyte mediated immunity natural killer cell mediated immunity regulation of natural killer cell mediated immunity immune response regulation of innate immune response negative regulation of immune response negative regulation of immune effector process leukocyte mediated cytotoxicity immune effector process regulation of leukocyte mediated immunity defense response to other organism negative regulation of defense response natural killer cell mediated cytotoxicity regulation of immune response regulation of cell killing negative regulation of natural killer cell mediated cytotoxicity regulation of defense response regulation of response to biotic stimulus regulation of natural killer cell mediated cytotoxicity negative regulation of response to biotic stimulus negative regulation of leukocyte mediated cytotoxicity innate immune response negative regulation of cell killing defense response regulation of leukocyte mediated cytotoxicity defense response to symbiont regulation of lymphocyte mediated immunity negative regulation of immune system process negative regulation of leukocyte mediated immunity cell killing negative regulation of innate immune response regulation of cell shape cell morphogenesis regulation of cell morphogenesis anatomical structure morphogenesis regulation of biological quality regulation of anatomical structure morphogenesis cellular response to endothelin response to endothelin regulation of lymphocyte migration regulation of T cell migration regulation of mononuclear cell migration central nervous system neuron development cerebellar neuron development central nervous system neuron differentiation metencephalon development cerebellum development hindbrain development neuron migration	cellular anatomical structure membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm neuromuscular junction synapse cell junction cell periphery cellular anatomical structure membrane intracellular organelle intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm neuromuscular junction synapse cell junction cell periphery plasma membrane protein-containing complex
B	SOS PEPTIDE (PRO-PRO-PRO-VAL-PRO-PRO-ARG-ARG-ARG-ARG)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR001452	SH3 domain	Domain
A	IPR036860	SH2 domain superfamily	Homologous Superfamily
A	IPR000980	SH2 domain	Domain
A	IPR035457	CRK, N-terminal SH3 domain	Domain
A	IPR051184	Tyrosine-phosphorylated adapter molecule	Family
A	IPR035458	CRK, C-terminal SH3 domain	Domain

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.