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- PDB-1xdv: Experimentally Phased Structure of Human the Son of Sevenless pro... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1xdv | ||||||
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Title | Experimentally Phased Structure of Human the Son of Sevenless protein at 4.1 Ang. | ||||||
![]() | Son of sevenless protein homolog 1 | ||||||
![]() | SIGNALING PROTEIN / nucleotide exchange factor / Ras / Cdc25 / Ras exchanger motif (Rem) / Dbl homology(DH) / pleckstrin homology (PH) | ||||||
Function / homology | ![]() midbrain morphogenesis / regulation of pro-B cell differentiation / vitellogenesis / pericardium morphogenesis / cardiac atrium morphogenesis / heart trabecula morphogenesis / regulation of T cell differentiation in thymus / GTPase complex / positive regulation of small GTPase mediated signal transduction / Interleukin-15 signaling ...midbrain morphogenesis / regulation of pro-B cell differentiation / vitellogenesis / pericardium morphogenesis / cardiac atrium morphogenesis / heart trabecula morphogenesis / regulation of T cell differentiation in thymus / GTPase complex / positive regulation of small GTPase mediated signal transduction / Interleukin-15 signaling / Activation of RAC1 / blood vessel morphogenesis / positive regulation of epidermal growth factor receptor signaling pathway / Regulation of KIT signaling / epidermal growth factor receptor binding / leukocyte migration / regulation of T cell proliferation / NRAGE signals death through JNK / roof of mouth development / eyelid development in camera-type eye / Fc-epsilon receptor signaling pathway / GRB2:SOS provides linkage to MAPK signaling for Integrins / B cell homeostasis / neurotrophin TRK receptor signaling pathway / SOS-mediated signalling / RET signaling / Activated NTRK3 signals through RAS / Activated NTRK2 signals through RAS / hair follicle development / SHC1 events in ERBB4 signaling / Signalling to RAS / fibroblast growth factor receptor signaling pathway / SHC-related events triggered by IGF1R / 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 / Signaling by PDGFRA transmembrane, juxtamembrane and kinase domain mutants / Signaling by PDGFRA extracellular domain mutants / Schwann cell development / SHC-mediated cascade:FGFR2 / SHC-mediated cascade:FGFR4 / Signaling by FGFR4 in disease / SHC-mediated cascade:FGFR1 / Erythropoietin activates RAS / FRS-mediated FGFR3 signaling / Signaling by FLT3 ITD and TKD mutants / FRS-mediated FGFR2 signaling / FRS-mediated FGFR4 signaling / Signaling by FGFR3 in disease / Tie2 Signaling / FRS-mediated FGFR1 signaling / Signaling by FGFR2 in disease / GRB2 events in EGFR signaling / SHC1 events in EGFR signaling / RAC1 GTPase cycle / EGFR Transactivation by Gastrin / Signaling by FLT3 fusion proteins / FLT3 Signaling / Signaling by FGFR1 in disease / GRB2 events in ERBB2 signaling / myelination / NCAM signaling for neurite out-growth / SHC1 events in ERBB2 signaling / Downstream signal transduction / Constitutive Signaling by Overexpressed ERBB2 / FCERI mediated Ca+2 mobilization / Insulin receptor signalling cascade / GTPase activator activity / guanyl-nucleotide exchange factor activity / insulin-like growth factor receptor signaling pathway / Signaling by phosphorylated juxtamembrane, extracellular and kinase domain KIT mutants / molecular condensate scaffold activity / Antigen activates B Cell Receptor (BCR) leading to generation of second messengers / response to ischemia / FCERI mediated MAPK activation / Signaling by ERBB2 TMD/JMD mutants / axon guidance / B cell receptor signaling pathway / Constitutive Signaling by EGFRvIII / Signaling by ERBB2 ECD mutants / Signaling by ERBB2 KD Mutants / epidermal growth factor receptor signaling pathway / multicellular organism growth / Signaling by SCF-KIT / cytokine-mediated signaling pathway / SH3 domain binding / Signaling by CSF1 (M-CSF) in myeloid cells / G alpha (12/13) signalling events / Constitutive Signaling by Ligand-Responsive EGFR Cancer Variants / insulin receptor signaling pathway / DAP12 signaling / regulation of cell population proliferation / RAF/MAP kinase cascade / Potential therapeutics for SARS / Ras protein signal transduction / protein heterodimerization activity / neuronal cell body Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Sondermann, H. / Soisson, S.M. / Boykevisch, S. / Yang, S.S. / Bar-Sagi, D. / Kuriyan, J. | ||||||
![]() | ![]() Title: Structural analysis of autoinhibition in the ras activator son of sevenless. Authors: Sondermann, H. / Soisson, S.M. / Boykevisch, S. / Yang, S.S. / Bar-Sagi, D. / Kuriyan, J. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 282.4 KB | Display | ![]() |
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PDB format | ![]() | 217 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 448.8 KB | Display | ![]() |
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Full document | ![]() | 529.4 KB | Display | |
Data in XML | ![]() | 58.8 KB | Display | |
Data in CIF | ![]() | 78.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1xd2C ![]() 1xd4C ![]() 1bkdS ![]() 1dbhS S: Starting model for refinement C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 98886.367 Da / Num. of mol.: 2 / Fragment: residues 198-1044 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.1 Å3/Da / Density % sol: 60.27 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion / pH: 7.5 Details: PEG 4000, HEPES, pH 7.5, VAPOR DIFFUSION, temperature 298K |
-Data collection
Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||
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Detector | Date: Dec 15, 1999 | |||||||||||||||
Radiation | Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||
Radiation wavelength |
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Reflection | Resolution: 4.1→49.4 Å / Num. obs: 19738 / % possible obs: 96 % |
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Processing
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Refinement | Method to determine structure: rigid body refinement of previously determined domains positioned in MAD map. Starting model: 1DBH and 1BKD Resolution: 4.1→8 Å / σ(F): 2 / Stereochemistry target values: Engh & Huber Details: The four domains of each molecule in this structure are derived from the structures 1BKD and 1DBH; two very well-refined structures. The poor R-value of this preliminary structure reflect ...Details: The four domains of each molecule in this structure are derived from the structures 1BKD and 1DBH; two very well-refined structures. The poor R-value of this preliminary structure reflect the fact that it is at such low resolution, and was not able to be refined due to that serious limitation.
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Refinement step | Cycle: LAST / Resolution: 4.1→8 Å
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