+Open data
-Basic information
Entry | Database: PDB / ID: 3mbt | ||||||
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Title | Structure of monomeric Blc from E. coli | ||||||
Components | Outer membrane lipoprotein blc | ||||||
Keywords | MEMBRANE PROTEIN / Bacterial outer membrane lipoprotein / beta-barrel / lipid membrane anchor / Lipocalin / LIPID BINDING PROTEIN | ||||||
Function / homology | Function and homology information | ||||||
Biological species | Escherichia coli (E. coli) | ||||||
Method | X-RAY DIFFRACTION / MOLECULAR REPLACEMENT / Resolution: 2.6 Å | ||||||
Authors | Schiefner, A. / Skerra, A. | ||||||
Citation | Journal: Acta Crystallogr.,Sect.D / Year: 2010 Title: Structural and biochemical analyses reveal a monomeric state of the bacterial lipocalin Blc. Authors: Schiefner, A. / Chatwell, L. / Breustedt, D.A. / Skerra, A. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 3mbt.cif.gz | 75.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb3mbt.ent.gz | 56.3 KB | Display | PDB format |
PDBx/mmJSON format | 3mbt.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/mb/3mbt ftp://data.pdbj.org/pub/pdb/validation_reports/mb/3mbt | HTTPS FTP |
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-Related structure data
Related structure data | 1qwdS S: Starting model for refinement |
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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
#1: Protein | Mass: 19129.389 Da / Num. of mol.: 1 / Mutation: C1A, C113S Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Strain: K-12 / Gene: b4149, blc, JW4110, yjeL / Plasmid: pASK75-strepII / Production host: Escherichia coli (E. coli) / Strain (production host): JM83 / References: UniProt: P0A901 |
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#2: 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: 2.02 Å3/Da / Density % sol: 39.26 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.5 Details: 20 % PEG10000, 0.1 M Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ROTATING ANODE / Type: RIGAKU RU300 / Wavelength: 1.5418 Å |
Detector | Type: MAR scanner 345 mm plate / Detector: IMAGE PLATE / Date: Apr 29, 2004 |
Radiation | Monochromator: Confocal Max-Flux Optics / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.6→30 Å / Num. obs: 5024 / % possible obs: 98.7 % / Observed criterion σ(I): -3 / Redundancy: 6.1 % / Rmerge(I) obs: 0.041 / Net I/σ(I): 34.7 |
Reflection shell | Resolution: 2.6→2.7 Å / Redundancy: 6.2 % / Rmerge(I) obs: 0.183 / Mean I/σ(I) obs: 9.4 / % possible all: 99.8 |
-Processing
Software |
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Refinement | Method to determine structure: MOLECULAR REPLACEMENT Starting model: PDB ENTRY 1QWD Resolution: 2.6→18.7 Å / Cor.coef. Fo:Fc: 0.901 / Cor.coef. Fo:Fc free: 0.88 / SU B: 29.915 / SU ML: 0.283 / Cross valid method: THROUGHOUT / ESU R Free: 0.37 / 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: 35.888 Å2
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Refinement step | Cycle: LAST / Resolution: 2.6→18.7 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.6→2.666 Å / Total num. of bins used: 20
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Refinement TLS params. | Method: refined / Origin x: -13.8349 Å / Origin y: 0.6361 Å / Origin z: -23.0415 Å
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