[English] 日本語
![](img/lk-miru.gif)
- PDB-7vmx: The Crystal Structure of EF-Tu and EF-Ts complex from Mycobacteri... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 7vmx | ||||||
---|---|---|---|---|---|---|---|
Title | The Crystal Structure of EF-Tu and EF-Ts complex from Mycobacterium tuberculosis | ||||||
![]() |
| ||||||
![]() | Elongation Factor / Mycobacterium tuberculosis / Protein translation / TRANSLATION | ||||||
Function / homology | ![]() translation elongation factor activity / GTPase activity / GTP binding / cytoplasm Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Zhan, B.W. / Li, J.X. | ||||||
Funding support | ![]()
| ||||||
![]() | ![]() Title: Structural insights of the elongation factor EF-Tu complexes in protein translation of Mycobacterium tuberculosis. Authors: Zhan, B. / Gao, Y. / Gao, W. / Li, Y. / Li, Z. / Qi, Q. / Lan, X. / Shen, H. / Gan, J. / Zhao, G. / Li, J. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 131.8 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 100.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 445.6 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 456.8 KB | Display | |
Data in XML | ![]() | 23.5 KB | Display | |
Data in CIF | ![]() | 31.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7vokC ![]() 1efcS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data | Similarity search - Function & homology ![]() |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: Protein | Mass: 28794.732 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: tsf, C0094_15805, DSI38_05510, E5M05_16495, E5M52_15015, E5M78_14905, ERS007663_01361, ERS007665_01339, ERS007670_03302, ERS007688_01011, ERS013471_00410, ERS023446_00764, ERS024276_02208, ...Gene: tsf, C0094_15805, DSI38_05510, E5M05_16495, E5M52_15015, E5M78_14905, ERS007663_01361, ERS007665_01339, ERS007670_03302, ERS007688_01011, ERS013471_00410, ERS023446_00764, ERS024276_02208, ERS027646_02463, ERS027659_03596, ERS027661_01399, ERS094182_02070, F6W99_01501, GCL30_16350, SAMEA2683035_02109 Production host: ![]() ![]() | ||||||
---|---|---|---|---|---|---|---|
#2: Protein | Mass: 43649.426 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() Gene: tuf_1, tuf, C0094_03695, DSI38_24795, E5M05_06550, E5M52_05390, E5M78_06185, ERS007657_00720, ERS007663_01319, ERS007670_02372, ERS007703_04298, ERS007720_00657, ERS007722_02966, ERS013471_ ...Gene: tuf_1, tuf, C0094_03695, DSI38_24795, E5M05_06550, E5M52_05390, E5M78_06185, ERS007657_00720, ERS007663_01319, ERS007670_02372, ERS007703_04298, ERS007720_00657, ERS007722_02966, ERS013471_00592, ERS023446_00428, ERS024276_01766, ERS027646_00039, ERS027659_02599, ERS027661_00652, ERS094182_01322, F6W99_03360, GCL30_03260, SAMEA2683035_02505 Production host: ![]() ![]() | ||||||
#3: Chemical | ChemComp-ZN / #4: Chemical | ChemComp-MG / | #5: Water | ChemComp-HOH / | Has ligand of interest | N | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 5.68 Å3/Da / Density % sol: 78.36 % |
---|---|
Crystal grow | Temperature: 291 K / Method: vapor diffusion, hanging drop / pH: 9 Details: 100 mM TRIS hydrochloride pH 9.0, 8% PEG 6000, 2mM Zinc chloride |
-Data collection
Diffraction | Mean temperature: 80 K / Serial crystal experiment: N | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction source | Source: ![]() ![]() ![]() | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS3 6M / Detector: PIXEL / Date: May 27, 2021 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Radiation wavelength | Wavelength: 0.9793 Å / Relative weight: 1 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection twin | Operator: -l,-k,-h / Fraction: 0.07 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection | Resolution: 2.8→30 Å / Num. obs: 41642 / % possible obs: 98.9 % / Redundancy: 13.4 % / Rmerge(I) obs: 0.141 / Rpim(I) all: 0.036 / Rrim(I) all: 0.145 / Χ2: 1.003 / Net I/σ(I): 5 / Num. measured all: 557995 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
|
-
Processing
Software |
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 1EFC Resolution: 2.8→29.86 Å / SU ML: 0.44 / Cross valid method: THROUGHOUT / σ(F): 1.52 / Phase error: 25.61 / Stereochemistry target values: ML
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 160.33 Å2 / Biso mean: 50.1884 Å2 / Biso min: 12.43 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 2.8→29.86 Å
| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / Total num. of bins used: 13
|