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Yorodumi- PDB-4a56: Crystal structure of the type 2 secretion system pilotin from Kle... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4a56 | ||||||
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Title | Crystal structure of the type 2 secretion system pilotin from Klebsiella Oxytoca | ||||||
Components | PULLULANASE SECRETION PROTEIN PULS | ||||||
Keywords | PROTEIN TRANSPORT / T2SS | ||||||
Function / homology | Function and homology information | ||||||
Biological species | KLEBSIELLA OXYTOCA (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.24 Å | ||||||
Authors | Tosi, T. / Nickerson, N.N. / Mollica, L. / RingkjobingJensen, M. / Blackledge, M. / Baron, B. / England, P. / Pugsley, A.P. / Dessen, A. | ||||||
Citation | Journal: Mol.Microbiol / Year: 2011 Title: Pilotin-Secretin Recognition in the Type II Secretion System of Klebsiella Oxytoca. Authors: Tosi, T. / Nickerson, N.N. / Mollica, L. / Jensen, M.R. / Blackledge, M. / Baron, B. / England, P. / Pugsley, A.P. / Dessen, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4a56.cif.gz | 47.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4a56.ent.gz | 37.8 KB | Display | PDB format |
PDBx/mmJSON format | 4a56.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/a5/4a56 ftp://data.pdbj.org/pub/pdb/validation_reports/a5/4a56 | HTTPS FTP |
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-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 10243.445 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Details: RESIDUES 30-122 / Source: (gene. exp.) KLEBSIELLA OXYTOCA (bacteria) / Production host: ESCHERICHIA COLI (E. coli) / Strain (production host): BL21(DE3) / References: UniProt: P20440, UniProt: H0USY9*PLUS |
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#2: Chemical | ChemComp-MRD / ( |
#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: 2.11 Å3/Da / Density % sol: 41.83 % / Description: NONE |
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Crystal grow | pH: 7.5 / Details: 100 MM HEPES PH 7.5, 75% MPD |
-Data collection
Diffraction | Mean temperature: 230 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-1 / Wavelength: 0.933 |
Detector | Type: ADSC CCD / Detector: CCD |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.933 Å / Relative weight: 1 |
Reflection | Resolution: 1.24→4 Å / Num. obs: 47490 / % possible obs: 97.4 % / Observed criterion σ(I): 2 / Redundancy: 21 % / Biso Wilson estimate: 15 Å2 / Rmerge(I) obs: 0.02 / Rsym value: 0.05 / Net I/σ(I): 52 |
-Processing
Software |
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Refinement | Method to determine structure: SAD Starting model: NONE Resolution: 1.24→54.84 Å / Cor.coef. Fo:Fc: 0.963 / Cor.coef. Fo:Fc free: 0.955 / SU B: 1.201 / SU ML: 0.025 / Cross valid method: THROUGHOUT / ESU R: 0.045 / ESU R Free: 0.046 / 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: BABINET MODEL WITH MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 17.246 Å2
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Refinement step | Cycle: LAST / Resolution: 1.24→54.84 Å
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Refine LS restraints |
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