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Yorodumi- PDB-1qwd: CRYSTAL STRUCTURE OF A BACTERIAL LIPOCALIN, THE BLC GENE PRODUCT ... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1qwd | ||||||
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Title | CRYSTAL STRUCTURE OF A BACTERIAL LIPOCALIN, THE BLC GENE PRODUCT FROM E. COLI | ||||||
Components | Outer membrane lipoprotein blc | ||||||
Keywords | LIPID BINDING PROTEIN / BACTERIAL LIPOCALIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / SAD / Resolution: 1.75 Å | ||||||
Authors | Campanacci, V. / Nurizzo, D. / Spinelli, S. / Valencia, C. / Cambillau, C. | ||||||
Citation | Journal: Febs Lett. / Year: 2004 Title: The crystal structure of the Escherichia coli lipocalin Blc suggests a possible role in phospholipid binding Authors: Campanacci, V. / Nurizzo, D. / Spinelli, S. / Valencia, C. / Tegoni, M. / Cambillau, C. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1qwd.cif.gz | 84 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1qwd.ent.gz | 63.9 KB | Display | PDB format |
PDBx/mmJSON format | 1qwd.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qw/1qwd ftp://data.pdbj.org/pub/pdb/validation_reports/qw/1qwd | 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
#1: Protein | Mass: 20376.848 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: BLC OR B4149 OR Z5756 OR ECS5130 / Plasmid: PDEST17 / Production host: Escherichia coli (E. coli) / Strain (production host): TUNER(DE3)PLYSS / References: UniProt: P0A901 #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: 2.56 Å3/Da / Density % sol: 51.87 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: NA-CITRATE, NA-BORATE, pH 7.50, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K | |||||||||
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Diffraction source | Source: SYNCHROTRON / Site: ESRF / Beamline: ID14-4 / Wavelength: 0.9393 / Wavelength: 0.9393 Å | |||||||||
Detector | Type: ADSC QUANTUM 4 / Detector: CCD / Date: Jun 15, 2003 | |||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | |||||||||
Radiation wavelength |
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Reflection | Resolution: 1.75→47.14 Å / Num. all: 41968 / Num. obs: 41968 / % possible obs: 98.1 % / Redundancy: 5.4 % / Rmerge(I) obs: 0.097 / Net I/σ(I): 14.5 | |||||||||
Reflection shell | Resolution: 1.75→1.84 Å / Redundancy: 2.7 % / Rmerge(I) obs: 0.569 / Mean I/σ(I) obs: 1.8 / % possible all: 92.8 |
-Processing
Software |
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Refinement | Method to determine structure: SAD / Resolution: 1.75→47.14 Å / Cor.coef. Fo:Fc: 0.965 / Cor.coef. Fo:Fc free: 0.952 / SU B: 2.256 / SU ML: 0.07 / Cross valid method: THROUGHOUT / ESU R: 0.099 / ESU R Free: 0.1 / 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: 19.937 Å2
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Refinement step | Cycle: LAST / Resolution: 1.75→47.14 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 1.75→1.795 Å / Total num. of bins used: 20 /
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