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Open data
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Basic information
Entry | Database: PDB / ID: 7c3k | ||||||
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Title | Crystal Structure of mIRGB10 | ||||||
![]() | Immunity-related GTPase family member b10 | ||||||
![]() | IMMUNE SYSTEM / mIRGB | ||||||
Function / homology | ![]() defense response to other organism / cellular response to interferon-beta / GTPase activity / endoplasmic reticulum membrane / GTP binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Ha, H.J. / Jeong, J.H. / Kim, Y.G. / Park, H.H. | ||||||
![]() | ![]() Title: Molecular basis of IRGB10 oligomerization and membrane association for pathogen membrane disruption. Authors: Ha, H.J. / Chun, H.L. / Lee, S.Y. / Jeong, J.H. / Kim, Y.G. / Park, H.H. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 169.1 KB | Display | ![]() |
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PDB format | ![]() | 131.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 1 MB | Display | ![]() |
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Full document | ![]() | 1 MB | Display | |
Data in XML | ![]() | 28.7 KB | Display | |
Data in CIF | ![]() | 38.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1tpaS 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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1 | ![]()
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2 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 46705.172 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: Irgb10 / Production host: ![]() ![]() #2: Chemical | #3: Water | ChemComp-HOH / | Has ligand of interest | N | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.5 Å3/Da / Density % sol: 50.89 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / Details: PEG 8,000, HEPES |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() |
Detector | Type: DECTRIS EIGER2 X 9M / Detector: PIXEL / Date: Jul 14, 2019 / Details: Vertical focusing toroidal, rhodium coated |
Radiation | Monochromator: DCM Si (111) Crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9779 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→29.14 Å / Num. obs: 28239 / % possible obs: 99.82 % / Redundancy: 7 % / Biso Wilson estimate: 44.99 Å2 / CC1/2: 0.999 / CC star: 1 / Rmerge(I) obs: 0.07632 / Rpim(I) all: 0.03095 / Rrim(I) all: 0.08245 / Net I/σ(I): 17.57 |
Reflection shell | Resolution: 2.6→2.693 Å / Redundancy: 7.3 % / Rmerge(I) obs: 0.4301 / Mean I/σ(I) obs: 3.95 / Num. unique obs: 2784 / CC1/2: 0.96 / CC star: 0.99 / Rpim(I) all: 0.1699 / Rrim(I) all: 0.4628 / % possible all: 99.82 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1tpA Resolution: 2.6→29.14 Å / Cross valid method: FREE R-VALUE Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Displacement parameters | Biso mean: 54.32 Å2 | ||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.6→29.14 Å
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Refine LS restraints |
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