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Yorodumi- PDB-1oy2: Coupling of Folding and Binding in the PTB Domain of the Signalin... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1oy2 | ||||||
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Title | Coupling of Folding and Binding in the PTB Domain of the Signaling Protein Shc | ||||||
Components | SHC transforming protein | ||||||
Keywords | SIGNALING PROTEIN / Free Protein / Structure Disorder / Beta Sandwich | ||||||
Function / homology | Function and homology information Shc-EGFR complex / regulation of superoxide metabolic process / epidermal growth factor binding / positive regulation of cell proliferation in bone marrow / XBP1(S) activates chaperone genes / neurotrophin TRKA receptor binding / transmembrane receptor protein tyrosine kinase adaptor activity / Interleukin-15 signaling / Interleukin-2 signaling / Signaling by LTK ...Shc-EGFR complex / regulation of superoxide metabolic process / epidermal growth factor binding / positive regulation of cell proliferation in bone marrow / XBP1(S) activates chaperone genes / neurotrophin TRKA receptor binding / transmembrane receptor protein tyrosine kinase adaptor activity / Interleukin-15 signaling / Interleukin-2 signaling / Signaling by LTK / epidermal growth factor receptor binding / Signaling by ALK / RET signaling / Activated NTRK3 signals through RAS / Activated NTRK2 signals through RAS / Interleukin-3, Interleukin-5 and GM-CSF signaling / SHC1 events in ERBB4 signaling / SHC1 events in EGFR signaling / Signalling to RAS / SHC-related events triggered by IGF1R / Role of LAT2/NTAL/LAB on calcium mobilization / Interleukin receptor SHC signaling / Signal attenuation / SHC1 events in ERBB2 signaling / SHC-mediated cascade:FGFR3 / MET activates RAS signaling / negative regulation of angiogenesis / SHC-mediated cascade:FGFR2 / SHC-mediated cascade:FGFR4 / Erythropoietin activates RAS / SHC-mediated cascade:FGFR1 / Signaling by CSF3 (G-CSF) / Tie2 Signaling / insulin-like growth factor receptor binding / ephrin receptor binding / phosphotyrosine residue binding / Integrin signaling / Constitutive Signaling by Overexpressed ERBB2 / FCERI mediated Ca+2 mobilization / Insulin receptor signalling cascade / insulin-like growth factor receptor signaling pathway / Signaling by ERBB2 TMD/JMD mutants / Constitutive Signaling by EGFRvIII / Signaling by ERBB2 ECD mutants / Signaling by ERBB2 KD Mutants / epidermal growth factor receptor signaling pathway / FCERI mediated MAPK activation / cell-cell adhesion / insulin receptor binding / phospholipid binding / receptor tyrosine kinase binding / cellular response to growth factor stimulus / Signaling by CSF1 (M-CSF) in myeloid cells / GPER1 signaling / Constitutive Signaling by Ligand-Responsive EGFR Cancer Variants / Signaling by ALK fusions and activated point mutants / insulin receptor signaling pathway / DAP12 signaling / heart development / RAF/MAP kinase cascade / actin cytoskeleton organization / angiogenesis / Extra-nuclear estrogen signaling / positive regulation of ERK1 and ERK2 cascade / positive regulation of MAPK cascade / intracellular signal transduction / mitochondrial matrix / defense response to bacterium / focal adhesion / negative regulation of DNA-templated transcription / positive regulation of cell population proliferation / positive regulation of DNA-templated transcription / negative regulation of apoptotic process / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / distance geometry, simulated annealing, molecular dynamics | ||||||
Authors | Farooq, A. / Zeng, L. / Yan, K.S. / Ravichandran, K.S. / Zhou, M.-M. | ||||||
Citation | Journal: Structure / Year: 2003 Title: Coupling of Folding and Binding in the PTB Domain of the Signaling Protein Shc Authors: Farooq, A. / Zeng, L. / Yan, K.S. / Ravichandran, K.S. / Zhou, M.-M. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1oy2.cif.gz | 70 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1oy2.ent.gz | 51.8 KB | Display | PDB format |
PDBx/mmJSON format | 1oy2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1oy2_validation.pdf.gz | 246.7 KB | Display | wwPDB validaton report |
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Full document | 1oy2_full_validation.pdf.gz | 246.5 KB | Display | |
Data in XML | 1oy2_validation.xml.gz | 6 KB | Display | |
Data in CIF | 1oy2_validation.cif.gz | 7.6 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/oy/1oy2 ftp://data.pdbj.org/pub/pdb/validation_reports/oy/1oy2 | HTTPS FTP |
-Related structure data
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 22657.021 Da / Num. of mol.: 1 / Fragment: PTB Domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: SHC / Plasmid: pET15B / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: P29353 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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NMR details | Text: The structure was determined using triple-resonance NMR spectroscopy. |
-Sample preparation
Details | Contents: 0.5mM Shc PTB Domain, 50mM Sodium phosphate, 20mM DTT-d10 Solvent system: 90% D2O, 10% D2O |
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Sample conditions | Ionic strength: 200mM / pH: 6.5 / Pressure: 1 atm / Temperature: 308 K |
-NMR measurement
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M | |||||||||||||||
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Radiation wavelength | Relative weight: 1 | |||||||||||||||
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: distance geometry, simulated annealing, molecular dynamics Software ordinal: 1 | ||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 200 / Conformers submitted total number: 1 |