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Yorodumi- PDB-3mt0: The crystal structure of a functionally unknown protein PA1789 fr... -
+Open data
-Basic information
Entry | Database: PDB / ID: 3mt0 | ||||||
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Title | The crystal structure of a functionally unknown protein PA1789 from Pseudomonas aeruginosa PAO1 | ||||||
Components | uncharacterized protein PA1789 | ||||||
Keywords | structural genomics / unknown function / PSI-2 / protein structure initiative / midwest center for structural genomics / MCSG | ||||||
Function / homology | Rossmann fold - #12370 / UspA / Universal stress protein family / Rossmann fold / 3-Layer(aba) Sandwich / Alpha Beta / Usp domain-containing protein Function and homology information | ||||||
Biological species | Pseudomonas aeruginosa (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.582 Å | ||||||
Authors | Tan, K. / Chang, C. / Tesar, C. / Bearden, J. / Joachimiak, A. / Midwest Center for Structural Genomics (MCSG) | ||||||
Citation | Journal: To be Published Title: The crystal structure of a functionally unknown protein PA1789 from Pseudomonas aeruginosa PAO1 Authors: Tan, K. / 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 | 3mt0.cif.gz | 123.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3mt0.ent.gz | 101.1 KB | Display | PDB format |
PDBx/mmJSON format | 3mt0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 3mt0_validation.pdf.gz | 421.6 KB | Display | wwPDB validaton report |
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Full document | 3mt0_full_validation.pdf.gz | 424.5 KB | Display | |
Data in XML | 3mt0_validation.xml.gz | 14.3 KB | Display | |
Data in CIF | 3mt0_validation.cif.gz | 20.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mt/3mt0 ftp://data.pdbj.org/pub/pdb/validation_reports/mt/3mt0 | HTTPS FTP |
-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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Details | Experimentally unknown. It is likely the molecule is monomeric. |
-Components
#1: Protein | Mass: 31724.561 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Pseudomonas aeruginosa (bacteria) / Strain: PAO1 / Gene: PA1789 / Plasmid: pMCSG7 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21 / References: UniProt: Q9I2V3 | ||
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#2: Chemical | #3: 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: 2.05 Å3/Da / Density % sol: 39.97 % |
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Crystal grow | Temperature: 289 K / Method: vapor diffusion, sitting drop / pH: 8.5 Details: 0.2M MgCl2, 0.1M Tris, 20%(v/v) PEG8000, pH 8.5, 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: 0.97931 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Apr 27, 2010 / Details: mirror |
Radiation | Monochromator: Si 111 crystal / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97931 Å / Relative weight: 1 |
Reflection | Resolution: 1.58→35 Å / Num. all: 34184 / Num. obs: 34184 / % possible obs: 97.6 % / Observed criterion σ(F): 0 / Observed criterion σ(I): 0 / Redundancy: 3.5 % / Rmerge(I) obs: 0.089 / Net I/σ(I): 28.5 |
Reflection shell | Resolution: 1.58→1.61 Å / Redundancy: 2.7 % / Rmerge(I) obs: 0.462 / Mean I/σ(I) obs: 2.45 / Num. unique all: 1613 / % possible all: 92.9 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.582→34.324 Å / SU ML: 0.17 / σ(F): 0.07 / σ(I): 0 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL / Bsol: 41.919 Å2 / ksol: 0.352 e/Å3 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.582→34.324 Å
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Refine LS restraints |
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LS refinement shell |
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Refinement TLS params. | Method: refined / Origin x: 9.7683 Å / Origin y: 4.8838 Å / Origin z: 33.3832 Å
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Refinement TLS group | Selection details: chain A |