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Yorodumi- PDB-3oir: Crystal structure of sulfate transporter family protein from Woli... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3oir | ||||||
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Title | Crystal structure of sulfate transporter family protein from Wolinella succinogenes | ||||||
Components | SULFATE TRANSPORTER SULFATE TRANSPORTER FAMILY PROTEIN | ||||||
Keywords | TRANSPORT PROTEIN / PSI-2 / Midwest Center for Structural Genomics / Protein Structure Initiative / MCSG / SULFATE TRANSPORTER | ||||||
Function / homology | Function and homology information inorganic anion transmembrane transport / monoatomic anion transmembrane transporter activity / membrane Similarity search - Function | ||||||
Biological species | Wolinella succinogenes (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.85 Å | ||||||
Authors | Chang, C. / Tesar, C. / Bearden, J. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: To be Published Title: Crystal structure of sulfate transporter family protein from Wolinella succinogenes Authors: Chang, C. / Tesar, C. / Bearden, J. / Joachimiak, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3oir.cif.gz | 117.3 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3oir.ent.gz | 98.7 KB | Display | PDB format |
PDBx/mmJSON format | 3oir.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/oi/3oir ftp://data.pdbj.org/pub/pdb/validation_reports/oi/3oir | 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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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 15217.916 Da / Num. of mol.: 2 / Fragment: sequence database residues 434-565 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Wolinella succinogenes (bacteria) / Gene: YCHM, WS0651 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)magic / References: UniProt: Q7M9V0 #2: Chemical | ChemComp-FMT / #3: Chemical | #4: Water | ChemComp-HOH / | |
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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: 2.34 Å3/Da / Density % sol: 47.53 % |
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Crystal grow | Temperature: 277 K / Method: vapor diffusion, sitting drop / pH: 7 Details: 60% Tacsimate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 19-ID / Wavelength: 0.97924 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Jul 28, 2010 |
Radiation | Monochromator: Si(111)double crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97924 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→50 Å / Num. all: 25303 / Num. obs: 25294 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 14 % / Biso Wilson estimate: 21.6 Å2 / Rmerge(I) obs: 0.104 / Net I/σ(I): 47.6 |
Reflection shell | Resolution: 1.85→1.88 Å / Redundancy: 14.4 % / Rmerge(I) obs: 0.52 / Mean I/σ(I) obs: 7.5 / Num. unique all: 1255 / % possible all: 100 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.85→50 Å / Cor.coef. Fo:Fc: 0.957 / Cor.coef. Fo:Fc free: 0.94 / Occupancy max: 1 / Occupancy min: 0.35 / SU B: 6.175 / SU ML: 0.087 / Cross valid method: THROUGHOUT / σ(F): 0 / ESU R: 0.278 / ESU R Free: 0.132 Stereochemistry target values: MAXIMUM LIKELIHOOD WITH PHASES Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso max: 91.92 Å2 / Biso mean: 24.7931 Å2 / Biso min: 5.22 Å2
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Refinement step | Cycle: LAST / Resolution: 1.85→50 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.847→1.895 Å / Total num. of bins used: 20
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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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