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Yorodumi- PDB-4ql0: Crystal Structure Analysis of the Membrane Transporter FhaC (doub... -
+Open data
-Basic information
Entry | Database: PDB / ID: 4ql0 | ||||||
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Title | Crystal Structure Analysis of the Membrane Transporter FhaC (double mutant V169T, I176N) | ||||||
Components | Filamentous hemagglutinin transporter protein FhaC | ||||||
Keywords | PROTEIN TRANSPORT / Beta-barrel / POTRA domain / Outer Membrane | ||||||
Function / homology | Function and homology information type V protein secretion system complex / protein secretion by the type V secretion system / porin activity / pore complex / protein transmembrane transporter activity / monoatomic ion transport / cell outer membrane Similarity search - Function | ||||||
Biological species | Bordetella pertussis (bacteria) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / FOURIER SYNTHESIS / Resolution: 2.5 Å | ||||||
Authors | Maier, T. / Clantin, B. / Gruss, F. / Dewitte, F. / Delattre, A.S. / Jacob-Dubuisson, F. / Hiller, S. / Villeret, V. | ||||||
Citation | Journal: Nat Commun / Year: 2015 Title: Conserved Omp85 lid-lock structure and substrate recognition in FhaC Authors: Maier, T. / Clantin, B. / Gruss, F. / Dewitte, F. / Delattre, A.S. / Jacob-Dubuisson, F. / Hiller, S. / Villeret, V. #1: Journal: Science / Year: 2007 Title: Structure of the membrane protein FhaC: a member of the Omp85-TpsB transporter superfamily Authors: Clantin, B. / Delattre, A.S. / Rucktooa, P. / Saint, N. / Meli, A.C. / Locht, C. / Jacob-Dubuisson, F. / Villeret, V. #2: Journal: Mol.Microbiol. / Year: 2011 Title: Substrate recognition by the POTRA domains of TpsB transporter FhaC Authors: Delattre, A.S. / Saint, N. / Clantin, B. / Willery, E. / Lippens, G. / Locht, C. / Villeret, V. / Jacob-Dubuisson, F. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 4ql0.cif.gz | 420.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb4ql0.ent.gz | 351.7 KB | Display | PDB format |
PDBx/mmJSON format | 4ql0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/ql/4ql0 ftp://data.pdbj.org/pub/pdb/validation_reports/ql/4ql0 | HTTPS FTP |
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-Related structure data
Related structure data | 4qkySC 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 on special symmetry positions |
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-Components
-Protein / Sugars , 2 types, 4 molecules A
#1: Protein | Mass: 61415.758 Da / Num. of mol.: 1 / Mutation: V169T, I176N Source method: isolated from a genetically manipulated source Source: (gene. exp.) Bordetella pertussis (bacteria) / Strain: Tohama I / ATCC BAA-589 / NCTC 13251 / Gene: BP1884, fhaC / Plasmid: pFJD138 / Production host: Escherichia coli (E. coli) / Strain (production host): BL21(DE3)-OMP5 / References: UniProt: P35077 |
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#4: Sugar |
-Non-polymers , 7 types, 81 molecules
#2: Chemical | ChemComp-PGE / |
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#3: Chemical | ChemComp-PEG / |
#5: Chemical | ChemComp-PO4 / |
#6: Chemical | ChemComp-1PE / |
#7: Chemical | ChemComp-PG4 / |
#8: Chemical | ChemComp-P6G / |
#9: 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: 3.29 Å3/Da / Density % sol: 62.62 % |
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Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6.5 Details: 34% PEG 1000, 1% beta-octyl-glucoside, 500mM imidazole, 26mg/ml protein, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.93928 Å |
Detector | Type: ADSC QUANTUM 315r / Detector: CCD / Date: Nov 10, 2010 |
Radiation | Monochromator: channel cut ESRF monochromator / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.93928 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→41.95 Å / Num. all: 28332 / Num. obs: 28332 / % possible obs: 99.69 % / Observed criterion σ(F): 0 / Biso Wilson estimate: 74.17 Å2 |
Reflection shell | Resolution: 2.5→2.65 Å / % possible all: 98.8 |
-Processing
Software |
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Refinement | Method to determine structure: FOURIER SYNTHESIS Starting model: 4QKY Resolution: 2.5→41.95 Å / Cor.coef. Fo:Fc: 0.9141 / Cor.coef. Fo:Fc free: 0.8894 / Cross valid method: THROUGHOUT / σ(F): 0 / SU R Blow DPI: 0.326 / SU Rfree Blow DPI: 0.246 / Stereochemistry target values: Engh & Huber / Details: isomorphous replacement using pdb entry 4QKY
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Displacement parameters | Biso mean: 78.93 Å2
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Refine analyze | Luzzati coordinate error obs: 0.503 Å | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.5→41.95 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.5→2.59 Å / Total num. of bins used: 14
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Refinement TLS params. | Method: refined / Refine-ID: X-RAY DIFFRACTION
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Refinement TLS group |
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