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- PDB-2qmu: Structure of an archaeal heterotrimeric initiation factor 2 revea... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2qmu | ||||||
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Title | Structure of an archaeal heterotrimeric initiation factor 2 reveals a nucleotide state between the GTP and the GDP states | ||||||
![]() | (Translation initiation factor 2 ...) x 3 | ||||||
![]() | TRANSLATION / initiation of translation / GTP-binding / Initiation factor / Nucleotide-binding / Protein biosynthesis / RNA-binding | ||||||
Function / homology | ![]() selenocysteine metabolic process / selenocysteine incorporation / protein-synthesizing GTPase / formation of cytoplasmic translation initiation complex / selenocysteine insertion sequence binding / formation of translation preinitiation complex / translation elongation factor activity / translation initiation factor binding / translational initiation / translation initiation factor activity ...selenocysteine metabolic process / selenocysteine incorporation / protein-synthesizing GTPase / formation of cytoplasmic translation initiation complex / selenocysteine insertion sequence binding / formation of translation preinitiation complex / translation elongation factor activity / translation initiation factor binding / translational initiation / translation initiation factor activity / ribosome binding / tRNA binding / GTPase activity / mRNA binding / GTP binding / RNA binding / metal ion binding / cytosol Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Yatime, L. / Mechulam, Y. / Blanquet, S. / Schmitt, E. | ||||||
![]() | ![]() Title: Structure of an archaeal heterotrimeric initiation factor 2 reveals a nucleotide state between the GTP and the GDP states. Authors: Yatime, L. / Mechulam, Y. / Blanquet, S. / Schmitt, E. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 138.1 KB | Display | ![]() |
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PDB format | ![]() | 106.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 808.4 KB | Display | ![]() |
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Full document | ![]() | 851 KB | Display | |
Data in XML | ![]() | 29.8 KB | Display | |
Data in CIF | ![]() | 40.3 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2qn6C ![]() 2ahoS C: citing same article ( 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
-Translation initiation factor 2 ... , 3 types, 3 molecules ABC
#1: Protein | Mass: 45718.035 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Protein | Mass: 10440.162 Da / Num. of mol.: 1 / Fragment: aif2-alpha3 domain Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
#3: Protein | Mass: 15811.545 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
-Non-polymers , 4 types, 4 molecules ![](data/chem/img/PO4.gif)
![](data/chem/img/GDP.gif)
![](data/chem/img/ZN.gif)
![](data/chem/img/HOH.gif)
![](data/chem/img/GDP.gif)
![](data/chem/img/ZN.gif)
![](data/chem/img/HOH.gif)
#4: Chemical | ChemComp-PO4 / |
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#5: Chemical | ChemComp-GDP / |
#6: Chemical | ChemComp-ZN / |
#7: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.52 Å3/Da / Density % sol: 72.77 % |
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Crystal grow | Temperature: 297 K / Method: vapor diffusion, sitting drop / pH: 7.5 Details: 1.6M ammonium citrate, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 297K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Jun 23, 2006 |
Radiation | Monochromator: CRYSTAL / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.007 Å / Relative weight: 1 |
Reflection | Resolution: 3.2→50 Å / Num. all: 21823 / Num. obs: 21823 / % possible obs: 98.7 % / Redundancy: 4.3 % / Biso Wilson estimate: 66 Å2 / Rsym value: 0.111 / Net I/σ(I): 8.9 |
Reflection shell | Resolution: 3.2→3.3 Å / Redundancy: 4.5 % / Mean I/σ(I) obs: 3.6 / Num. unique all: 1900 / Rsym value: 0.338 / % possible all: 99.9 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: chain A from 2AHO Resolution: 3.2→50 Å / Isotropic thermal model: isotropic / Cross valid method: THROUGHOUT / σ(F): 2 / Stereochemistry target values: Engh & Huber
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Displacement parameters | Biso mean: 66.3 Å2
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Refinement step | Cycle: LAST / Resolution: 3.2→50 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 3.2→3.25 Å /
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