+Open data
-Basic information
Entry | Database: PDB / ID: 4y2n | ||||||
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Title | Structure of CFA/I pili major subunit CfaB trimer | ||||||
Components | CFA/I fimbrial subunit B | ||||||
Keywords | STRUCTURAL PROTEIN / Enterotoxigenic Escherichia coli / periplasmic chaperone / major pilin / self-assembly / fimbriae | ||||||
Function / homology | CFA/I fimbrial subunit E, pilin domain / Fimbrial major subunit, CS1-type / CS1 type fimbrial major subunit / pilus / Immunoglobulin-like / Sandwich / Mainly Beta / CFA/I fimbrial subunit B Function and homology information | ||||||
Biological species | Escherichia coli O78:H11 | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 2.4 Å | ||||||
Authors | Bao, R. / Xia, D. | ||||||
Citation | Journal: Mol. Microbiol. / Year: 2016 Title: Off-pathway assembly of fimbria subunits is prevented by chaperone CfaA of CFA/I fimbriae from enterotoxigenic E. coli. Authors: Bao, R. / Liu, Y. / Savarino, S.J. / Xia, D. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4y2n.cif.gz | 97.8 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4y2n.ent.gz | 74.1 KB | Display | PDB format |
PDBx/mmJSON format | 4y2n.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 4y2n_validation.pdf.gz | 460.2 KB | Display | wwPDB validaton report |
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Full document | 4y2n_full_validation.pdf.gz | 474.9 KB | Display | |
Data in XML | 4y2n_validation.xml.gz | 21.2 KB | Display | |
Data in CIF | 4y2n_validation.cif.gz | 29.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/y2/4y2n ftp://data.pdbj.org/pub/pdb/validation_reports/y2/4y2n | HTTPS FTP |
-Related structure data
Related structure data | 4y2lC 4y2oC 3f48S C: citing same article (ref.) S: Starting model for refinement |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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Unit cell |
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Components on special symmetry positions |
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-Components
#1: Protein | Mass: 15944.916 Da / Num. of mol.: 3 / Fragment: UNP residues 25-170 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli O78:H11 (strain H10407 / ETEC) (bacteria) Strain: H10407 / ETEC / Gene: cfaB, ETEC_p948_0400 / Production host: Escherichia coli (E. coli) / References: UniProt: E3PPC4 #2: Chemical | #3: Chemical | ChemComp-EDO / | #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: 2.66 Å3/Da / Density % sol: 53.83 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7 Details: 0.1 M HEPES pH 7.0, 0.2 M MgCl2, 3% ethanol glycol, 16.8% PEG8000 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: APS / Beamline: 22-BM / Wavelength: 1 Å |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Jun 15, 2012 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 2.4→29.696 Å / Num. obs: 19692 / % possible obs: 97.3 % / Redundancy: 4.6 % / Rmerge(I) obs: 0.073 / Net I/σ(I): 14.4 |
Reflection shell | Resolution: 2.4→2.49 Å / Redundancy: 2.9 % / Rmerge(I) obs: 0.425 / Mean I/σ(I) obs: 2.02 / % possible all: 93.2 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: 3F48 Resolution: 2.4→29.696 Å / Cross valid method: FREE R-VALUE / σ(F): 1.45 / Phase error: 35.55 / Stereochemistry target values: TWIN_LSQ_F
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.4→29.696 Å
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Refine LS restraints |
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LS refinement shell |
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