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Yorodumi- PDB-1aze: NMR STRUCTURE OF THE COMPLEX BETWEEN THE C32S-Y7V MUTANT OF THE N... -
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-Basic information
Entry | Database: PDB / ID: 1aze | ||||||
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Title | NMR STRUCTURE OF THE COMPLEX BETWEEN THE C32S-Y7V MUTANT OF THE NSH3 DOMAIN OF GRB2 WITH A PEPTIDE FROM SOS, 10 STRUCTURES | ||||||
Components |
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Keywords | COMPLEX (ADAPTOR PROTEIN/PEPTIDE) / COMPLEX (ADAPTOR PROTEIN-PEPTIDE) / SH3 DOMAIN / GUANINE-NUCLEOTIDE RELEASING FACTOR / COMPLEX (ADAPTOR PROTEIN-PEPTIDE) complex | ||||||
Function / homology | Function and homology information : / : / NRAGE signals death through JNK / G alpha (12/13) signalling events / rhabdomere microvillus membrane / guanyl-nucleotide exchange factor activity => GO:0005085 / guanyl-nucleotide exchange factor activity => GO:0005085 / photoreceptor cell fate determination / SOS-mediated signalling / Signaling by SCF-KIT ...: / : / NRAGE signals death through JNK / G alpha (12/13) signalling events / rhabdomere microvillus membrane / guanyl-nucleotide exchange factor activity => GO:0005085 / guanyl-nucleotide exchange factor activity => GO:0005085 / photoreceptor cell fate determination / SOS-mediated signalling / Signaling by SCF-KIT / Regulation of KIT signaling / Signalling to RAS / DAP12 signaling / SHC-related events triggered by IGF1R / Role of LAT2/NTAL/LAB on calcium mobilization / FCERI mediated Ca+2 mobilization / SHC-mediated cascade:FGFR1 / FRS-mediated FGFR1 signaling / SHC-mediated cascade:FGFR2 / FRS-mediated FGFR2 signaling / SHC-mediated cascade:FGFR3 / FRS-mediated FGFR3 signaling / FRS-mediated FGFR4 signaling / SHC-mediated cascade:FGFR4 / Signal attenuation / Insulin receptor signalling cascade / FCERI mediated MAPK activation / SHC1 events in ERBB4 signaling / GRB2 events in EGFR signaling / SHC1 events in EGFR signaling / GRB2 events in ERBB2 signaling / EGFR Transactivation by Gastrin / torso signaling pathway / RAF/MAP kinase cascade / tracheal outgrowth, open tracheal system / R7 cell fate commitment / sevenless signaling pathway / epithelial cell migration, open tracheal system / imaginal disc-derived leg morphogenesis / guanyl-nucleotide exchange factor adaptor activity / Grb2-EGFR complex / branching involved in labyrinthine layer morphogenesis / STAT5 Activation / COP9 signalosome / neurotrophin TRKA receptor binding / Activated NTRK2 signals through PI3K / vesicle membrane / MET receptor recycling / transmembrane receptor protein tyrosine kinase adaptor activity / Signaling by cytosolic FGFR1 fusion mutants / Interleukin-15 signaling / positive regulation of Ras protein signal transduction / axon midline choice point recognition / MET activates PTPN11 / MET activates RAP1 and RAC1 / Costimulation by the CD28 family / CD28 dependent Vav1 pathway / MET activates PI3K/AKT signaling / Signal regulatory protein family interactions / Regulation of KIT signaling / epidermal growth factor receptor binding / negative regulation of G1/S transition of mitotic cell cycle / small GTPase-mediated signal transduction / positive regulation of actin filament polymerization / PI-3K cascade:FGFR3 / STAT5 activation downstream of FLT3 ITD mutants / PI-3K cascade:FGFR2 / PI-3K cascade:FGFR4 / PI-3K cascade:FGFR1 / endodermal cell differentiation / positive regulation of Rac protein signal transduction / regulation of MAPK cascade / GRB2:SOS provides linkage to MAPK signaling for Integrins / RHOU GTPase cycle / PI3K events in ERBB2 signaling / positive regulation of cell size / SOS-mediated signalling / RET signaling / Activated NTRK3 signals through RAS / Activated NTRK2 signals through RAS / insulin receptor substrate binding / Interleukin-3, Interleukin-5 and GM-CSF signaling / PI3K Cascade / SHC1 events in ERBB4 signaling / Signalling to RAS / RHO GTPases Activate WASPs and WAVEs / fibroblast growth factor receptor signaling pathway / signal transduction in response to DNA damage / SHC-related events triggered by IGF1R / GAB1 signalosome / Activated NTRK2 signals through FRS2 and FRS3 / Role of LAT2/NTAL/LAB on calcium mobilization / Interleukin receptor SHC signaling / Signal attenuation / SHC-mediated cascade:FGFR3 / MET activates RAS signaling / vascular endothelial growth factor receptor signaling pathway / Signaling by PDGFRA transmembrane, juxtamembrane and kinase domain mutants / Signaling by PDGFRA extracellular domain mutants / Schwann cell development Similarity search - Function | ||||||
Biological species | Homo sapiens (human) Drosophila melanogaster (fruit fly) | ||||||
Method | SOLUTION NMR / SIMULATED ANNEALING ENERGY MINIMIZATION | ||||||
Authors | Vidal, M. / Gincel, E. / Goudreau, N. / Cornille, F. / Parker, F. / Duchesne, M. / Tocque, B. / Garbay, C. / Roques, B.P. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1999 Title: Molecular and cellular analysis of Grb2 SH3 domain mutants: interaction with Sos and dynamin. Authors: Vidal, M. / Goudreau, N. / Cornille, F. / Cussac, D. / Gincel, E. / Garbay, C. #1: Journal: Nat.Struct.Biol. / Year: 1994 Title: NMR Structure of the N-Terminal SH3 Domain of Grb2 and its Complex with a Proline-Rich Peptide from SOS Authors: Goudreau, N. / Cornille, F. / Duchesne, M. / Parker, F. / Tocque, B. / Garbay, C. / Roques, B.P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1aze.cif.gz | 215.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1aze.ent.gz | 177.3 KB | Display | PDB format |
PDBx/mmJSON format | 1aze.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1aze_validation.pdf.gz | 363 KB | Display | wwPDB validaton report |
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Full document | 1aze_full_validation.pdf.gz | 449.4 KB | Display | |
Data in XML | 1aze_validation.xml.gz | 11 KB | Display | |
Data in CIF | 1aze_validation.cif.gz | 18.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/az/1aze ftp://data.pdbj.org/pub/pdb/validation_reports/az/1aze | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 6477.309 Da / Num. of mol.: 1 / Fragment: N-TERMINAL SH3 DOMAIN, RESIDUES 1 - 55 / Mutation: Y7V, C32S Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: GRB2 / Organ: FRUIT / References: UniProt: P62993 |
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#2: Protein/peptide | Mass: 1173.432 Da / Num. of mol.: 1 / Fragment: BINDING SITE IN H-SOS, PEPTIDE VPPPVPPRRR Source method: isolated from a genetically manipulated source Source: (gene. exp.) Drosophila melanogaster (fruit fly) / References: UniProt: P26675 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||
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NMR experiment |
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-Sample preparation
Details | Contents: H2O, PHOSPHATE BUFFER 20MM, NACL 100MM |
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Sample conditions | Ionic strength: NACL 100mM / pH: 6.0 / Pressure: 1 atm / Temperature: 293 K |
Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer | Type: Bruker AMX600 / Manufacturer: Bruker / Model: AMX600 / Field strength: 600 MHz |
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-Processing
NMR software |
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Refinement | Method: SIMULATED ANNEALING ENERGY MINIMIZATION / Software ordinal: 1 | ||||||||||||
NMR ensemble | Conformer selection criteria: BEST ENERGY, LEAST RESTRAINT VIOLATION Conformers calculated total number: 50 / Conformers submitted total number: 10 | ||||||||||||
Refinement | *PLUS | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |