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Open data
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Basic information
Entry | Database: PDB / ID: 3rap | ||||||
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Title | The small G protein Rap2 in a non catalytic complex with GTP | ||||||
![]() | PROTEIN (G protein RAP2A) | ||||||
![]() | SIGNALING PROTEIN / G PROTEIN / RAS / GTPASE / RAP2 | ||||||
Function / homology | ![]() Rap protein signal transduction / microvillus assembly / regulation of synapse assembly / regulation of dendrite morphogenesis / regulation of postsynaptic membrane neurotransmitter receptor levels / regulation of JNK cascade / positive regulation of protein autophosphorylation / negative regulation of cell migration / small monomeric GTPase / G protein activity ...Rap protein signal transduction / microvillus assembly / regulation of synapse assembly / regulation of dendrite morphogenesis / regulation of postsynaptic membrane neurotransmitter receptor levels / regulation of JNK cascade / positive regulation of protein autophosphorylation / negative regulation of cell migration / small monomeric GTPase / G protein activity / synaptic membrane / protein localization to plasma membrane / Schaffer collateral - CA1 synapse / establishment of protein localization / protein localization / recycling endosome / recycling endosome membrane / GDP binding / cellular response to xenobiotic stimulus / midbody / actin cytoskeleton organization / positive regulation of protein phosphorylation / GTPase activity / GTP binding / magnesium ion binding / plasma membrane / cytosol Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Menetrey, J. / Cherfils, J. | ||||||
![]() | ![]() Title: Structure of the small G protein Rap2 in a non-catalytic complex with GTP. Authors: Menetrey, J. / Cherfils, J. #1: ![]() Title: Crystal Structures of the Small G Protein Rap2A in Complex with its Substrate GTP, with GDP and with GTPgS Authors: Cherfils, J. / Menetrey, J. / Lebras, G. / Lebras, G. / Janoueix-Lerosey, I. / De Gunzburg, J. / Garel, J.R. / Auzat, I. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 83.2 KB | Display | ![]() |
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PDB format | ![]() | 62.3 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1004.2 KB | Display | ![]() |
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Full document | ![]() | 1010.1 KB | Display | |
Data in XML | ![]() | 15.6 KB | Display | |
Data in CIF | ![]() | 20.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2rapS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 18945.562 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() #2: Chemical | #3: Chemical | #4: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.2 Å3/Da / Density % sol: 44.05 % | |||||||||||||||||||||||||||||||||||
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Crystal grow | pH: 8 / Details: PEG 8000 20-25% TRIS-HCL 100MM PH 8 100MM MGCL2 | |||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9798 Å / Relative weight: 1 |
Reflection | Resolution: 2.2→16 Å / Num. obs: 16388 / % possible obs: 97.5 % / Redundancy: 4 % / Biso Wilson estimate: 24.5 Å2 / Rsym value: 0.072 / Net I/σ(I): 15 |
Reflection | *PLUS Num. measured all: 144323 / Rmerge(I) obs: 0.072 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: RAP2A-GTP HEXAGONAL FORM (PDB 2RAP) Resolution: 2.2→16 Å / σ(F): 2
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Displacement parameters | Biso mean: 25 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.2→16 Å
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Refine LS restraints |
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