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Yorodumi- PDB-3tt2: Crystal Structure of GCN5-related N-Acetyltransferase from Sphaer... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3tt2 | ||||||
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Title | Crystal Structure of GCN5-related N-Acetyltransferase from Sphaerobacter thermophilus | ||||||
Components | GCN5-related N-acetyltransferase | ||||||
Keywords | TRANSFERASE / Structural Genomics / PSI-Biology / Midwest Center for Structural Genomics / MCSG / alpha-beta sandwich | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Sphaerobacter thermophilus (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 2.73 Å | ||||||
Authors | Kim, Y. / Li, H. / Clancy, S. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: To be Published Title: Crystal Structure of GCN5-related N-Acetyltransferase from Sphaerobacter thermophilus Authors: Kim, Y. / Li, H. / Clancy, S. / Joachimiak, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3tt2.cif.gz | 139.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3tt2.ent.gz | 117.7 KB | Display | PDB format |
PDBx/mmJSON format | 3tt2.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/tt/3tt2 ftp://data.pdbj.org/pub/pdb/validation_reports/tt/3tt2 | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 37108.902 Da / Num. of mol.: 1 / Fragment: GNAT / Mutation: full-legth Source method: isolated from a genetically manipulated source Source: (gene. exp.) Sphaerobacter thermophilus (bacteria) / Strain: DSM 20745 / Gene: Sthe_1008 / Plasmid: pMCSG7 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3) magic / References: UniProt: D1C2H7 | ||||||
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#2: Chemical | ChemComp-SO4 / #3: Chemical | ChemComp-GOL / #4: Chemical | #5: Water | ChemComp-HOH / | |
-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION / Number of used crystals: 1 |
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-Sample preparation
Crystal | Density Matthews: 2.76 Å3/Da / Density % sol: 55.47 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 1.6 M magnesium sulphate, 0.1 M MES pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.97912 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Dec 11, 2010 / Details: mirrors |
Radiation | Monochromator: Si(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97912 Å / Relative weight: 1 |
Reflection | Resolution: 2.73→50 Å / Num. all: 11422 / Num. obs: 11422 / % possible obs: 100 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 7.1 % / Biso Wilson estimate: 60.55 Å2 / Rsym value: 0.089 / Net I/σ(I): 9.1 |
Reflection shell | Resolution: 2.73→2.79 Å / Redundancy: 7.2 % / Mean I/σ(I) obs: 2.6 / Num. unique all: 552 / Rsym value: 0.723 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 2.73→32.31 Å / SU ML: 0.47 / Isotropic thermal model: mixed / Cross valid method: THROUGHOUT / σ(F): 0 / Phase error: 25.45 / Stereochemistry target values: MLHL
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 59.985 Å2 / ksol: 0.351 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 83.6 Å2
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Refinement step | Cycle: LAST / Resolution: 2.73→32.31 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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