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Yorodumi- PDB-2es9: Crystal structure of Q8ZRJ2 from salmonella typhimurium. NESG TAR... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2es9 | ||||||
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Title | Crystal structure of Q8ZRJ2 from salmonella typhimurium. NESG TARGET STR65 | ||||||
Components | putative cytoplasmic proteinCytoplasm | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / PSI / PROTEIN STRUCTURE INITIATIVE / NORTHEAST STRUCTURAL GENOMICS CONSORTIUM / NESG | ||||||
Function / homology | AhpD-like - #30 / Protein of unknown function DUF1889 / YoaC-like superfamily / Domain of unknown function (DUF1889) / AhpD-like / Up-down Bundle / Mainly Alpha / Cytoplasmic protein Function and homology information | ||||||
Biological species | Salmonella typhimurium (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 2 Å | ||||||
Authors | Benach, J. / Abashidze, M. / Jayaraman, S. / Janjua, H. / Cooper, B. / Rong, X. / Acton, T.B. / Montelione, G.T. / Tong, L. / Hunt, J.F. / Northeast Structural Genomics Consortium (NESG) | ||||||
Citation | Journal: To be Published Title: Crystal structure of Q8ZRJ2 from Salmonella typhimurium NESG TARGET STR65. Authors: Benach, J. / AbashidzE, M. / Jayaraman, S. / Rong, X. / Acton, T.B. / Montelione, G.T. / Tong, L. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2es9.cif.gz | 35.6 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2es9.ent.gz | 23.9 KB | Display | PDB format |
PDBx/mmJSON format | 2es9.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/es/2es9 ftp://data.pdbj.org/pub/pdb/validation_reports/es/2es9 | 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: 13178.196 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Salmonella typhimurium (bacteria) / Strain: LT2 / Plasmid: pE21 / Production host: Escherichia coli (E. coli) / References: UniProt: Q8ZRJ2 |
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#2: 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: 2.17 Å3/Da / Density % sol: 43.34 % |
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Crystal grow | Method: vapor diffusion, hanging drop / Details: VAPOR DIFFUSION, HANGING DROP |
-Data collection
Diffraction | Mean temperature: 100 K | ||||||||||||
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Diffraction source | Source: SYNCHROTRON / Site: NSLS / Beamline: X4A / Wavelength: 0.97915, 0.97944, 0.96801 | ||||||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Sep 1, 2005 | ||||||||||||
Radiation | Monochromator: SI 111 CHANNEL / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||
Radiation wavelength |
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Reflection | Resolution: 1.9→30 Å / Num. obs: 9163 / % possible obs: 99.8 % / Observed criterion σ(I): -3 / Redundancy: 42.8 % / Biso Wilson estimate: 19 Å2 / Rmerge(I) obs: 0.097 | ||||||||||||
Reflection shell | Resolution: 1.9→1.97 Å / Redundancy: 40 % / Rmerge(I) obs: 0.56 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 2→18.81 Å / Rfactor Rfree error: 0.007 / Data cutoff high absF: 677899.28 / Data cutoff low absF: 0 / Isotropic thermal model: RESTRAINED / Cross valid method: THROUGHOUT / σ(F): 2
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 39.3352 Å2 / ksol: 0.288248 e/Å3 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 38.4 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2→18.81 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2→2.13 Å / Rfactor Rfree error: 0.023 / Total num. of bins used: 6
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Xplor file |
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