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Yorodumi- PDB-4uoc: Competence or damage-inducible protein CinA from Thermus thermophilus -
+Open data
-Basic information
Entry | Database: PDB / ID: 4uoc | ||||||
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Title | Competence or damage-inducible protein CinA from Thermus thermophilus | ||||||
Components | CINA | ||||||
Keywords | UNKNOWN FUNCTION / COMPETENCE / DAMAGE / NAD RECYCLING | ||||||
Function / homology | Function and homology information | ||||||
Biological species | THERMUS THERMOPHILUS (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.46 Å | ||||||
Authors | Derrick, J. / Karuppiah, V. | ||||||
Citation | Journal: J.Biol.Chem. / Year: 2014 Title: Structure and Mechanism of the Bifunctional Cina Enzyme from Thermus Thermophilus Authors: Karuppiah, V. / Thistlethwaite, A. / Dajani, R. / Warwicker, J. / Derrick, J.P. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4uoc.cif.gz | 161.5 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4uoc.ent.gz | 128.5 KB | Display | PDB format |
PDBx/mmJSON format | 4uoc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/uo/4uoc ftp://data.pdbj.org/pub/pdb/validation_reports/uo/4uoc | HTTPS FTP |
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-Related structure data
Related structure data | 4ct8SC 4ctaC 4uuwC 4uuxC S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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-Components
#1: Protein | Mass: 43043.359 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) THERMUS THERMOPHILUS (bacteria) / Strain: HB8 / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21 / References: UniProt: Q5SHB0 #2: Chemical | #3: 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: 2.61 Å3/Da / Density % sol: 53 % / Description: NONE |
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Crystal grow | Details: 0.2 M SODIUM SULFATE 0.1 M BIS-TRIS PROPANE 20 % (W/V) PEG 3350 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 0.98 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.98 Å / Relative weight: 1 |
Reflection | Resolution: 2.46→93 Å / Num. obs: 31049 / % possible obs: 93.4 % / Observed criterion σ(I): 2 / Redundancy: 3.5 % / Rmerge(I) obs: 0.12 / Net I/σ(I): 7.9 |
Reflection shell | Resolution: 2.46→2.52 Å / Redundancy: 3.4 % / Rmerge(I) obs: 0.7 / Mean I/σ(I) obs: 2 / % possible all: 95.9 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 4CT8 Resolution: 2.46→93 Å / Cor.coef. Fo:Fc: 0.943 / Cor.coef. Fo:Fc free: 0.896 / SU B: 8.804 / SU ML: 0.2 / Cross valid method: THROUGHOUT / ESU R: 0.571 / ESU R Free: 0.296 / Stereochemistry target values: MAXIMUM LIKELIHOOD / 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: 33.33 Å2
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Refinement step | Cycle: LAST / Resolution: 2.46→93 Å
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Refine LS restraints |
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