Annotations: 8VCF

Crystal structure of Superbinder Src SH2 domain with Cysteine to Serine mutations

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	SH2 domain	8037200	3000197	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	SdrD_B	e8vcfA01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: SdrD_B	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00017	SH2 domain (SH2)	SH2 domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Isoform 3 of Proto-oncogene tyrosine-protein kinase Src	protein tyrosine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding protein tyrosine kinase activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding non-membrane spanning protein tyrosine kinase activity cell adhesion molecule binding cadherin binding protein binding signaling receptor binding ephrin receptor binding scaffold protein binding BMP receptor binding receptor serine/threonine kinase binding transmembrane receptor protein serine/threonine kinase binding tetrapyrrole binding heme binding connexin binding protein tyrosine kinase activator activity enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity phosphoprotein binding ATPase binding enzyme binding phospholipase binding SH2 domain binding protein domain specific binding ionotropic glutamate receptor binding glutamate receptor binding transmembrane transporter binding protein-containing complex binding integrin binding phospholipase activator activity lipase activator activity signaling receptor regulator activity signaling receptor activator 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 hormone stimulus regulation of biological process regulation of cellular process regulation of mitochondrial depolarization negative regulation of membrane depolarization biological regulation negative regulation of biological process mitochondrial depolarization regulation of membrane depolarization regulation of mitochondrial membrane potential membrane depolarization regulation of biological quality negative regulation of mitochondrial depolarization regulation of membrane potential biological process involved in interspecies interaction between organisms symbiont entry into host cell viral process symbiont entry into host viral life cycle biological process involved in interaction with host biological process involved in symbiotic interaction cell adhesion substrate adhesion-dependent cell spreading cell-substrate adhesion negative regulation of programmed cell death regulation of apoptotic process regulation of anoikis regulation of programmed cell death cell death negative regulation of anoikis negative regulation of apoptotic process anoikis negative regulation of cellular process apoptotic process programmed cell death cell-cell adhesion regulation of cell adhesion regulation of cell-cell adhesion multicellular organismal process regulation of body fluid levels wound healing cell activation hemostasis blood coagulation response to stress coagulation response to wounding platelet activation regulation of cellular component organization cell projection organization regulation of cell projection assembly regulation of cell projection organization regulation of cellular component biogenesis cellular component biogenesis cellular component organization cellular component assembly cellular component organization or biogenesis cell projection assembly cellular response to stress response to fluid shear stress cellular response to fluid shear stress negative regulation of telomere maintenance regulation of telomere maintenance telomere organization regulation of primary metabolic process nucleobase-containing compound metabolic process negative regulation of chromosome organization negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of cellular component organization negative regulation of metabolic process chromosome organization primary metabolic process regulation of chromosome organization regulation of macromolecule metabolic process DNA metabolic process regulation of organelle organization nucleic acid metabolic process telomere maintenance organelle organization negative regulation of organelle organization negative regulation of DNA metabolic process metabolic process macromolecule metabolic process regulation of metabolic process regulation of DNA metabolic process developmental process anatomical structure morphogenesis odontogenesis anatomical structure development animal organ development animal organ morphogenesis epithelium development digestive system development cellular developmental process intestinal epithelial cell differentiation tube development intestinal epithelial cell development cell development tissue development digestive tract development epithelial cell differentiation multicellular organism development epithelial cell development columnar/cuboidal epithelial cell development cell differentiation columnar/cuboidal epithelial cell differentiation system development regulation of defense response regulation of response to external stimulus negative regulation of inflammatory response inflammatory response to antigenic stimulus regulation of response to stress regulation of immune system process negative regulation of inflammatory response to antigenic stimulus defense response immune response negative regulation of response to stimulus negative regulation of immune response regulation of inflammatory response to antigenic stimulus response to external stimulus regulation of inflammatory response regulation of response to stimulus negative regulation of immune system process immune system process negative regulation of response to external stimulus negative regulation of defense response regulation of immune response inflammatory response branching involved in mammary gland duct morphogenesis mammary gland morphogenesis mammary gland development branching morphogenesis of an epithelial tube gland development tube morphogenesis gland morphogenesis epithelial tube morphogenesis morphogenesis of an epithelium mammary gland duct morphogenesis tissue morphogenesis mammary gland epithelium development morphogenesis of a branching structure morphogenesis of a branching epithelium signaling negative regulation of signaling regulation of signal transduction extrinsic apoptotic signaling pathway negative regulation of cell communication negative regulation of extrinsic apoptotic signaling pathway cell communication negative regulation of apoptotic signaling pathway signal transduction regulation of signaling cell surface receptor signaling pathway negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway regulation of cell communication regulation of apoptotic signaling pathway myeloid leukocyte differentiation hemopoiesis osteoclast development skeletal system development myeloid cell differentiation bone cell development osteoclast differentiation myeloid cell development bone development leukocyte differentiation RNA metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process regulation of cell motility epithelium migration tissue migration regulation of locomotion ameboidal-type cell migration regulation of cell migration cell migration regulation of multicellular organismal process epithelial cell migration cell motility regulation of epithelial cell migration locomotion protein-containing complex organization signal complex assembly protein-containing complex assembly positive regulation of phosphorus metabolic process positive regulation of dephosphorylation regulation of dephosphorylation dephosphorylation positive regulation of biological process positive regulation of phosphate metabolic process positive regulation of metabolic process phosphate-containing compound metabolic process regulation of phosphorus metabolic process phosphorus metabolic process positive regulation of cellular process positive regulation of response to biotic stimulus pattern recognition receptor signaling pathway response to biotic stimulus intracellular signal transduction immune response-activating signaling pathway positive regulation of immune response positive regulation of immune system process innate immune response-activating signaling pathway response to other organism regulation of innate immune response defense response to other organism regulation of pattern recognition receptor signaling pathway positive regulation of defense response activation of innate immune response activation of immune response cytoplasmic pattern recognition receptor signaling pathway regulation of response to biotic stimulus intracellular receptor signaling pathway regulation of cytoplasmic pattern recognition receptor signaling pathway positive regulation of response to stimulus positive regulation of response to external stimulus endolysosomal toll-like receptor signaling pathway immune response-regulating signaling pathway regulation of intracellular signal transduction innate immune response response to external biotic stimulus regulation of toll-like receptor 3 signaling pathway positive regulation of innate immune response defense response to symbiont toll-like receptor 3 signaling pathway cellular response to growth factor stimulus cell surface receptor protein serine/threonine kinase signaling pathway cellular response to transforming growth factor beta stimulus response to transforming growth factor beta transforming growth factor beta receptor signaling pathway response to growth factor transforming growth factor beta receptor superfamily signaling pathway enzyme-linked receptor protein signaling pathway ribonucleotide catabolic process pyridine nucleotide catabolic process aerobic respiration oxoacid metabolic process carbohydrate catabolic process carbohydrate derivative metabolic process organophosphate catabolic process regulation of generation of precursor metabolites and energy nucleoside phosphate catabolic process organic acid metabolic process regulation of ATP metabolic process regulation of purine nucleotide catabolic process positive regulation of nucleotide catabolic process regulation of small molecule metabolic process glycolytic process regulation of nucleotide metabolic process pyridine-containing compound metabolic process small molecule metabolic process purine ribonucleotide catabolic process nucleoside phosphate metabolic process nicotinamide nucleotide metabolic process pyruvate metabolic process regulation of carbohydrate catabolic process purine nucleoside diphosphate metabolic process purine-containing compound catabolic process nucleotide metabolic process regulation of purine nucleotide metabolic process nucleobase-containing compound catabolic process positive regulation of ATP metabolic process nucleoside diphosphate metabolic process purine nucleoside diphosphate catabolic process nucleoside diphosphate catabolic process regulation of nucleotide catabolic process positive regulation of carbohydrate metabolic process nucleoside triphosphate metabolic process monocarboxylic acid metabolic process purine ribonucleotide metabolic process pyridine-containing compound catabolic process ribose phosphate metabolic process cellular respiration ATP metabolic process catabolic process energy derivation by oxidation of organic compounds positive regulation of nucleotide metabolic process positive regulation of purine nucleotide catabolic process purine nucleotide metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process purine ribonucleoside triphosphate metabolic process ribonucleoside diphosphate metabolic process ribonucleoside diphosphate catabolic process regulation of carbohydrate metabolic process nucleotide catabolic process purine nucleoside triphosphate metabolic process carbohydrate metabolic process purine nucleotide catabolic process carbohydrate derivative catabolic process positive regulation of glycolytic process ADP catabolic process carboxylic acid metabolic process generation of precursor metabolites and energy regulation of catabolic process regulation of glycolytic process purine-containing compound metabolic process positive regulation of purine nucleotide metabolic process positive regulation of catabolic process ADP metabolic process organophosphate metabolic process purine ribonucleoside diphosphate metabolic process positive regulation of small molecule metabolic process purine ribonucleoside diphosphate catabolic process sexual reproduction reproductive process oogenesis multicellular organismal reproductive process cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation gamete generation germ cell development positive regulation of cell communication positive regulation of signal transduction positive regulation of ERK1 and ERK2 cascade intracellular signaling cassette positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade MAPK cascade ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling regulation of localization cellular localization transport regulation of transport intracellular transport regulation of vesicle-mediated transport establishment of localization vesicle-mediated transport endosomal transport vesicle-mediated transport between endosomal compartments regulation of early endosome to late endosome transport localization intercellular transport early endosome to late endosome transport regulation of cellular localization establishment of localization in cell regulation of intracellular transport neutrophil activation regulation of leukocyte activation regulation of neutrophil activation negative regulation of neutrophil activation regulation of cell activation myeloid leukocyte activation leukocyte activation negative regulation of cell activation negative regulation of multicellular organismal process negative regulation of leukocyte activation granulocyte activation positive regulation of cellular component organization positive regulation of cellular component biogenesis positive regulation of protein-containing complex assembly regulation of protein-containing complex assembly regulation of integrin activation integrin activation positive regulation of integrin activation reproductive system development uterus development reproductive structure development head development forebrain development brain development nervous system development central nervous system development macroautophagy autophagy process utilizing autophagic mechanism interleukin-6-mediated signaling pathway response to interleukin-6 cellular response to interleukin-6 response to cytokine cytokine-mediated signaling pathway response to peptide cellular response to cytokine stimulus leukocyte migration regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway positive regulation of Wnt signaling pathway Wnt signaling pathway positive regulation of canonical Wnt signaling pathway regulation of Wnt signaling pathway small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction positive regulation of small GTPase mediated signal transduction cell surface receptor protein tyrosine kinase signaling pathway vascular endothelial growth factor receptor signaling pathway import into cell immune response-regulating cell surface receptor signaling pathway Fc-gamma receptor signaling pathway involved in phagocytosis Fc receptor signaling pathway phagocytosis Fc-gamma receptor signaling pathway immune response-activating cell surface receptor signaling pathway Fc receptor mediated stimulatory signaling pathway endocytosis positive regulation of locomotion positive regulation of cell migration positive regulation of epithelial cell migration positive regulation of cell motility protein destabilization regulation of protein stability response to ketone response to lipid response to progesterone cellular response to progesterone stimulus response to steroid hormone cellular response to lipid cellular response to ketone cellular response to steroid hormone stimulus ephrin receptor signaling pathway actomyosin structure organization actin cytoskeleton organization actin filament organization actin filament bundle organization contractile actin filament bundle assembly actin filament-based process actin filament bundle assembly stress fiber assembly supramolecular fiber organization cytoskeleton organization regulation of vascular permeability system process circulatory system process vascular process in circulatory system blood circulation response to angiotensin angiotensin-activated signaling pathway cellular response to angiotensin G protein-coupled receptor signaling pathway negative regulation of protein-containing complex assembly homeostatic process regulation of bone remodeling tissue homeostasis regulation of tissue remodeling regulation of bone resorption bone resorption multicellular organismal-level homeostasis tissue remodeling bone remodeling anatomical structure homeostasis ERBB signaling pathway epidermal growth factor receptor signaling pathway hippo signaling negative regulation of intracellular signal transduction negative regulation of hippo signaling regulation of hippo signaling focal adhesion assembly cell-substrate junction assembly cell junction organization cell-matrix adhesion cell junction assembly cell-substrate junction organization progesterone receptor signaling pathway hormone-mediated signaling pathway nuclear receptor-mediated steroid hormone signaling pathway steroid hormone receptor signaling pathway nuclear receptor-mediated signaling pathway positive regulation of leukocyte cell-cell adhesion lymphocyte activation leukocyte cell-cell adhesion positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation T cell activation positive regulation of leukocyte activation positive regulation of T cell activation positive regulation of cell adhesion regulation of T cell activation lymphocyte costimulation regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process T cell costimulation regulation of lymphocyte activation positive regulation of organelle organization positive regulation of podosome assembly membraneless organelle assembly regulation of podosome assembly organelle assembly podosome assembly regulation of organelle assembly positive regulation of organelle assembly heart process regulation of heart contraction regulation of system process regulation of blood circulation cardiac conduction regulation of heart rate by cardiac conduction heart contraction regulation of heart rate Rac protein signal transduction regulation of Rac protein signal transduction positive regulation of Rac protein signal transduction regulation of protein localization positive regulation of protein localization to nucleus regulation of protein localization to nucleus protein localization to nucleus macromolecule localization protein localization to organelle positive regulation of protein localization intracellular protein localization negative regulation of cell-substrate junction organization negative regulation of cell-matrix adhesion negative regulation of cell adhesion negative regulation of cell junction assembly regulation of cell-substrate junction organization regulation of cell-substrate adhesion negative regulation of focal adhesion assembly regulation of cell junction assembly regulation of cell-matrix adhesion negative regulation of cell-substrate adhesion regulation of focal adhesion assembly regulation of cell-substrate junction assembly cellular response to platelet-derived growth factor stimulus response to platelet-derived growth factor regulation of platelet-derived growth factor receptor signaling pathway positive regulation of platelet-derived growth factor receptor-beta signaling pathway positive regulation of platelet-derived growth factor receptor signaling pathway platelet-derived growth factor receptor-beta signaling pathway platelet-derived growth factor receptor signaling pathway regulation of platelet-derived growth factor receptor-beta signaling pathway regulation of intracellular estrogen receptor signaling pathway regulation of intracellular steroid hormone receptor signaling pathway estrogen receptor signaling pathway integrin-mediated signaling pathway caveolin-mediated endocytosis regulation of caveolin-mediated endocytosis regulation of endocytosis response to interleukin-1 regulation of protein maturation positive regulation of protein maturation positive regulation of protein metabolic process positive regulation of macromolecule biosynthetic process positive regulation of protein processing protein maturation regulation of proteolysis positive regulation of biosynthetic process proteolysis positive regulation of macromolecule metabolic process protein metabolic process regulation of protein metabolic process positive regulation of gene expression positive regulation of proteolysis regulation of protein processing protein processing response to lectin cellular response to lectin innate immune response activating cell surface receptor signaling pathway stimulatory C-type lectin receptor signaling pathway regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of intrinsic apoptotic signaling pathway intrinsic apoptotic signaling pathway negative regulation of intrinsic apoptotic signaling pathway positive regulation of TORC1 signaling positive regulation of TOR signaling regulation of TORC1 signaling TOR signaling regulation of TOR signaling TORC1 signaling regulation of tube diameter regulation of tube size blood vessel diameter maintenance vasodilation regulation of anatomical structure size cellular response to oxidative stress cellular response to chemical stress cellular response to hydrogen peroxide response to reactive oxygen species response to hydrogen peroxide response to oxidative stress cellular response to reactive oxygen species ERBB2 signaling pathway protein phosphorylation phosphorylation peptidyl-tyrosine modification macromolecule modification peptidyl-amino acid modification peptidyl-tyrosine phosphorylation protein modification process regulation of developmental process plasma membrane bounded cell projection morphogenesis cell morphogenesis regulation of cell morphogenesis positive regulation of developmental process cell projection morphogenesis regulation of lamellipodium organization regulation of lamellipodium morphogenesis positive regulation of cell projection organization regulation of anatomical structure morphogenesis plasma membrane bounded cell projection organization positive regulation of lamellipodium morphogenesis positive regulation of lamellipodium organization lamellipodium organization lamellipodium morphogenesis regulation of plasma membrane bounded cell projection organization Notch signaling pathway regulation of Notch signaling pathway positive regulation of Notch signaling pathway glucose catabolic process to pyruvate hexose catabolic process hexose metabolic process glucose catabolic process monosaccharide catabolic process small molecule catabolic process monosaccharide metabolic process canonical glycolysis glycolytic process through glucose-6-phosphate glycolytic process through fructose-6-phosphate glucose metabolic process	cell-cell junction cellular anatomical structure anchoring junction cell junction intracellular organelle intracellular anatomical structure podosome cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol cell-cell junction cellular anatomical structure anchoring junction cell junction intracellular organelle intracellular anatomical structure podosome cytoskeleton organelle membraneless organelle intracellular membraneless organelle actin cytoskeleton cytoplasm cytosol polymeric cytoskeletal fiber actin filament supramolecular fiber supramolecular polymer supramolecular complex membrane-bounded organelle mitochondrial membrane organelle inner membrane mitochondrion membrane intracellular membrane-bounded organelle mitochondrial inner membrane organelle envelope mitochondrial envelope organelle membrane focal adhesion cell-substrate junction ruffle cell leading edge plasma membrane leading edge membrane plasma membrane bounded cell projection cell periphery cell projection ruffle membrane plasma membrane region cell projection membrane membrane microdomain membrane raft plasma membrane raft caveola lytic vacuole vacuole lysosome endosome intracellular vesicle endomembrane system cytoplasmic vesicle late endosome vesicle extracellular exosome extracellular vesicle extracellular organelle extracellular region extracellular membrane-bounded organelle perinuclear region of cytoplasm nucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR020635	Tyrosine-protein kinase, catalytic domain	Domain
A	IPR000719	Protein kinase domain	Domain
A	IPR017441	Protein kinase, ATP binding site	Binding Site
A	IPR036860	SH2 domain superfamily	Homologous Superfamily
A	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
A	IPR008266	Tyrosine-protein kinase, active site	Active Site
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR001452	SH3 domain	Domain
A	IPR000980	SH2 domain	Domain
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A	IPR050198	Non-receptor tyrosine kinases involved in cell signaling	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	: P12931	urinary bladder cancer autosomal recessive polycystic kidney disease thrombocytopenia 6 status epilepticus colorectal cancer breast carcinoma Neoplasm Invasiveness malignant colon neoplasm cancer colitis hematologic disease lung disease autosomal dominant polycystic kidney disease medulloblastoma osteosarcoma urinary bladder cancer autosomal recessive polycystic kidney disease thrombocytopenia 6 status epilepticus colorectal cancer breast carcinoma Neoplasm Invasiveness malignant colon neoplasm cancer colitis hematologic disease lung disease autosomal dominant polycystic kidney disease medulloblastoma osteosarcoma psoriasis chronic obstructive pulmonary disease colon carcinoma colorectal carcinoma intestinal disease lymphatic system disease ovarian cancer bone disease breast disease urinary bladder neoplasm colonic neoplasm liver disease benign colon neoplasm breast cancer prostate disease tuberculosis

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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.