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Yorodumi- PDB-3zzt: Crystal structure of Staphylococcus aureus elongation factor G wi... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3zzt | ||||||
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Title | Crystal structure of Staphylococcus aureus elongation factor G with a fusidic-acid-resistant mutation F88L | ||||||
Components | ELONGATION FACTOR GEF-G | ||||||
Keywords | TRANSLATION | ||||||
Function / homology | Function and homology information translation elongation factor activity / GTPase activity / GTP binding / cytoplasm Similarity search - Function | ||||||
Biological species | STAPHYLOCOCCUS AUREUS (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.95 Å | ||||||
Authors | Koripella, R.K. / Chen, Y. / Selmer, M. / Sanyal, S. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2012 Title: Mechanism of Elongation Factor-G-Mediated Fusidic Acid Resistance and Fitness Compensation in Staphylococcus Aureus. Authors: Koripella, R.K. / Chen, Y. / Peisker, K. / Koh, C.S. / Selmer, M. / Sanyal, S. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3zzt.cif.gz | 234.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3zzt.ent.gz | 192 KB | Display | PDB format |
PDBx/mmJSON format | 3zzt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/zz/3zzt ftp://data.pdbj.org/pub/pdb/validation_reports/zz/3zzt | HTTPS FTP |
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-Related structure data
Related structure data | 3zz0C 3zzuC 1fnmS C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-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: 76665.273 Da / Num. of mol.: 2 / Mutation: YES Source method: isolated from a genetically manipulated source Source: (gene. exp.) STAPHYLOCOCCUS AUREUS (bacteria) / Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P68790 #2: Water | ChemComp-HOH / | Compound details | ENGINEERED | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.65 Å3/Da / Density % sol: 54 % / Description: NONE |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID23-1 / Wavelength: 0.9538 |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Sep 6, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9538 Å / Relative weight: 1 |
Reflection | Resolution: 2.95→47.4 Å / Num. obs: 32339 / % possible obs: 90.2 % / Observed criterion σ(I): 1.64 / Redundancy: 3.76 % / Biso Wilson estimate: 77.8 Å2 / Rmerge(I) obs: 0.08 / Net I/σ(I): 14.57 |
Reflection shell | Resolution: 2.95→3 Å / Redundancy: 3.79 % / Rmerge(I) obs: 0.95 / Mean I/σ(I) obs: 1.64 / % possible all: 72.4 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1FNM Resolution: 2.95→47.402 Å / SU ML: 1.03 / σ(F): 2.35 / Phase error: 36.73 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.95 Å / VDW probe radii: 1.2 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 54.463 Å2 / ksol: 0.264 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 93.8 Å2
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Refinement step | Cycle: LAST / Resolution: 2.95→47.402 Å
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Refine LS restraints |
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LS refinement shell |
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