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Open data
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Basic information
Entry | Database: PDB / ID: 7eze | ||||||||||||
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Title | Thorarchaeota Rab GTP-gamma-S/Mg2+ (soak) | ||||||||||||
![]() | Thorarchaeota Rab | ||||||||||||
![]() | SIGNALING PROTEIN / Rab / Small GTPase | ||||||||||||
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 | ![]() | 170.5 KB | Display | ![]() |
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PDB format | ![]() | 127.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1.5 MB | Display | ![]() |
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Full document | ![]() | 1.5 MB | Display | |
Data in XML | ![]() | 18.3 KB | Display | |
Data in CIF | ![]() | 25.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7ezbSC ![]() 7ezdC 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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2 | ![]()
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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 | ChemComp-MG / | #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: 2.21 Å3/Da / Density % sol: 44.35 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop Details: 100 mM MES, pH 5.5, 250 mM NaCl, 13% PEG 8000, 5 mM GTP soaked with 10 mM GTP gamma-S, 15 mM MgCl2 (1 h) |
-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: Feb 16, 2021 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.95→20 Å / Num. obs: 25510 / % possible obs: 97.8 % / Redundancy: 5.4 % / Rmerge(I) obs: 0.087 / Rpim(I) all: 0.041 / Rrim(I) all: 0.096 / Net I/σ(I): 16.7 |
Reflection shell | Resolution: 1.95→1.98 Å / Rmerge(I) obs: 0.82 / Mean I/σ(I) obs: 1.2 / Num. unique obs: 1304 / CC1/2: 0.507 / Rpim(I) all: 0.498 / Rrim(I) all: 0.964 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 7EZB Resolution: 1.95→19.96 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 34.25 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.95→19.96 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.95→2.02 Å
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