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Yorodumi- PDB-2fg1: Structure of a Protein of Unknown Function from Bacteroides theta... -
+Open data
-Basic information
Entry | Database: PDB / ID: 2fg1 | ||||||
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Title | Structure of a Protein of Unknown Function from Bacteroides thetaiotaomicron. | ||||||
Components | conserved hypothetical protein BT1257 | ||||||
Keywords | STRUCTURAL GENOMICS / UNKNOWN FUNCTION / Bacteroides thetaiotaomicron / PSI / Protein Structure Initiative / Midwest Center for Structural Genomics / MCSG | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Bacteroides thetaiotaomicron (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MAD / Resolution: 1.25 Å | ||||||
Authors | Cuff, M.E. / Bigelow, L. / Abdullah, J. / Collart, F. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: To be Published Title: Structure of a hypothetical protein from Bacteroides thetaiotaomicron. Authors: Cuff, M.E. / Bigelow, L. / Abdullah, J. / Collart, F. / Joachimiak, A. | ||||||
History |
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Remark 300 | BIOMOLECULE: THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 1 CHAIN(S). ... BIOMOLECULE: THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT WHICH CONSISTS OF 1 CHAIN(S). THE AUTHORS STATE THE BIOLOGICAL UNIT IS UNKNOWN. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 2fg1.cif.gz | 51 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2fg1.ent.gz | 39.8 KB | Display | PDB format |
PDBx/mmJSON format | 2fg1.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/fg/2fg1 ftp://data.pdbj.org/pub/pdb/validation_reports/fg/2fg1 | 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: 17916.094 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bacteroides thetaiotaomicron (bacteria) Strain: VPI-5482 / Plasmid: pMCSG7 / Species (production host): Escherichia coli / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21 (DE3) / References: UniProt: Q8A8B0 |
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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: 1.97 Å3/Da / Density % sol: 37.51 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 6.5 Details: 0.01M Cobalous Chloride hexahydrate, 0.1 M MES, 1.8M Ammonium Sulfate, 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: 0.97928, 0.97940 | |||||||||
Detector | Type: ADSC QUANTUM 315 / Detector: CCD / Date: Dec 5, 2005 | |||||||||
Radiation | Monochromator: SAGITALLY FOCUSED Si(111) / Protocol: MAD / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
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Reflection | Resolution: 1.25→50 Å / Num. all: 38567 / Num. obs: 38567 / % possible obs: 99.4 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 | |||||||||
Reflection shell | Resolution: 1.25→1.282 Å / % possible all: 95.27 |
-Processing
Software |
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Refinement | Method to determine structure: MAD / Resolution: 1.25→50 Å / Cor.coef. Fo:Fc: 0.972 / Cor.coef. Fo:Fc free: 0.967 / SU B: 1.543 / SU ML: 0.034 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.051 / ESU R Free: 0.05 Stereochemistry target values: MAXIMUM LIKELIHOOD WITH PHASES Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 22.338 Å2
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Refinement step | Cycle: LAST / Resolution: 1.25→50 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.25→1.282 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Origin x: 10.2979 Å / Origin y: 19.6918 Å / Origin z: 31.0515 Å
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