+Open data
-Basic information
Entry | Database: PDB / ID: 2whn | ||||||
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Title | N-terminal domain from the PilC type IV pilus biogenesis protein | ||||||
Components | PILUS ASSEMBLY PROTEIN PILC | ||||||
Keywords | PROTEIN TRANSPORT / TRANSPORT / TRANSMEMBRANE / PILUS BIOGENESIS | ||||||
Function / homology | Function and homology information | ||||||
Biological species | THERMUS THERMOPHILUS (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MIRAS / Resolution: 2.05 Å | ||||||
Authors | Karuppiah, V. / Hassan, D. / Saleem, M. / Derrick, J.P. | ||||||
Citation | Journal: Proteins / Year: 2010 Title: Structure and Oligomerization of the Pilc Type Iv Pilus Biogenesis Protein from Thermus Thermophilus. Authors: Karuppiah, V. / Hassan, D. / Saleem, M. / 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 | 2whn.cif.gz | 51.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb2whn.ent.gz | 41.4 KB | Display | PDB format |
PDBx/mmJSON format | 2whn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/wh/2whn ftp://data.pdbj.org/pub/pdb/validation_reports/wh/2whn | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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2 |
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Unit cell |
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-Components
#1: Protein | Mass: 12926.129 Da / Num. of mol.: 2 / Fragment: N-TERMINAL DOMAIN, RESIDUES 53-168 Source method: isolated from a genetically manipulated source Source: (gene. exp.) THERMUS THERMOPHILUS (bacteria) / Strain: HB8 / Production host: ESCHERICHIA COLI (E. coli) / Variant (production host): T7 EXPRESS / References: UniProt: Q5SK58 #2: 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: 2.29 Å3/Da / Density % sol: 46.25 % / Description: NONE |
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: Diamond / Beamline: I04 / Wavelength: 0.9497 |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jan 25, 2009 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9497 Å / Relative weight: 1 |
Reflection | Resolution: 2.05→76 Å / Num. obs: 14807 / % possible obs: 95.4 % / Observed criterion σ(I): 3 / Redundancy: 11.5 % / Rmerge(I) obs: 0.07 / Net I/σ(I): 18.7 |
Reflection shell | Resolution: 2.05→2.16 Å / Redundancy: 5.4 % / Rmerge(I) obs: 0.44 / Mean I/σ(I) obs: 3.2 / % possible all: 86.9 |
-Processing
Software |
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Refinement | Method to determine structure: MIRAS Starting model: NONE Resolution: 2.05→15 Å / Cor.coef. Fo:Fc: 0.946 / Cor.coef. Fo:Fc free: 0.923 / SU B: 11.949 / SU ML: 0.147 / TLS residual ADP flag: LIKELY RESIDUAL / Cross valid method: THROUGHOUT / ESU R: 0.229 / ESU R Free: 0.202 / 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: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 33.906 Å2
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Refinement step | Cycle: LAST / Resolution: 2.05→15 Å
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