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Open data
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Basic information
Entry | Database: PDB / ID: 7ezb | ||||||||||||
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Title | Thorarchaeota Rab bound to GDP | ||||||||||||
![]() | Thorarchaeota Rab | ||||||||||||
![]() | ![]() ![]() | ||||||||||||
Function / homology | ![]() | ||||||||||||
Biological species | ![]() | ||||||||||||
Method | ![]() ![]() ![]() | ||||||||||||
![]() | Robinson, R.C. / Tran, L.T. | ||||||||||||
Funding support | ![]() ![]()
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![]() | ![]() Title: Structure of Thor-Rab Authors: Robinson, R.C. / Tran, L.T. | ||||||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 168.1 KB | Display | ![]() |
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PDB format | ![]() | 132.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
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-Related structure data
Related structure data | ![]() 7ezdC ![]() 7ezeC ![]() 3bfkS S: Starting model for refinement C: citing same article ( |
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Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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1 |
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Unit cell |
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Components
#1: Protein | Mass: 20887.570 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: AM325_13980 / Production host: ![]() ![]() ![]() #2: Chemical | ![]() #3: Chemical | #4: Water | ChemComp-HOH / | ![]() Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.17 Å3/Da / Density % sol: 43.31 % |
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Crystal grow![]() | Temperature: 293 K / Method: vapor diffusion Details: 100 mM MES, pH 5.5, 250 mM NaCl, 13% PEG 8000, 5 mM GTP |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: RAYONIX MX-300 / Detector: CCD / Date: May 28, 2019 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength![]() |
Reflection | Resolution: 1.5→20 Å / Num. obs: 56552 / % possible obs: 100 % / Redundancy: 5.4 % / Rmerge(I) obs: 0.103 / Net I/σ(I): 11.4 |
Reflection shell | Resolution: 1.5→1.53 Å / Redundancy: 3.8 % / Rmerge(I) obs: 1.012 / Mean I/σ(I) obs: 1.9 / Num. unique obs: 4850 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure![]() ![]() Starting model: 3BFK Resolution: 1.5→17.2 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GEOSTD + MONOMER LIBRARY + CDL V1.2
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Displacement parameters | Biso mean: 23.62 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.5→17.2 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.5→1.554 Å
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