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- PDB-5fq3: Crystal structure of the lipoprotein BT2262 from Bacteroides thet... -
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Open data
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Basic information
Entry | Database: PDB / ID: 5fq3 | ||||||
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Title | Crystal structure of the lipoprotein BT2262 from Bacteroides thetaiotaomicron | ||||||
![]() | BT_2262 | ||||||
![]() | MEMBRANE PROTEIN / OUTER MEMBRANE LIPOPROTEIN | ||||||
Function / homology | Domain of unknown function DUF5012 / BT_2262-like, C-terminal domain / Pesticidal crystal protein Cry22Aa, Ig-like domain / Bacterial surface protein, Ig-like domain / Prokaryotic membrane lipoprotein lipid attachment site profile. / Immunoglobulin-like fold / DUF5012 domain-containing protein![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Glenwright, A.J. / Pothula, K.R. / Chorev, D.S. / Basle, A. / Robinson, C.V. / Kleinekathoefer, U. / Bolam, D.N. / van den Berg, B. | ||||||
![]() | ![]() Title: Structural basis for nutrient acquisition by dominant members of the human gut microbiota. Authors: Glenwright, A.J. / Pothula, K.R. / Bhamidimarri, S.P. / Chorev, D.S. / Basle, A. / Firbank, S.J. / Zheng, H. / Robinson, C.V. / Winterhalter, M. / Kleinekathofer, U. / Bolam, D.N. / van den Berg, B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 320.8 KB | Display | ![]() |
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PDB format | ![]() | 268.6 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 449.7 KB | Display | ![]() |
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Full document | ![]() | 467.3 KB | Display | |
Data in XML | ![]() | 30 KB | Display | |
Data in CIF | ![]() | 40.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 5fq4C ![]() 5fq6C ![]() 5fq7C ![]() 5fq8C ![]() 5lx8C ![]() 5t3rC ![]() 5t4yC C: citing same article ( |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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4 | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 23515.039 Da / Num. of mol.: 4 / Fragment: UNP RESIDUES 20-230 Source method: isolated from a genetically manipulated source Details: N-TERMINAL CYSTEINE RESIDUE REMOVED Source: (gene. exp.) ![]() Production host: ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.8 Å3/Da / Density % sol: 67 % / Description: NONE |
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Crystal grow | Details: 2 M AMMONIUM SULPHATE 0.1 M SODIUM HEPES PH 7.5 2% W/W PEG400 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Jul 7, 2015 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.9795 Å / Relative weight: 1 |
Reflection | Resolution: 3.1→48.75 Å / Num. obs: 26439 / % possible obs: 100 % / Observed criterion σ(I): -3 / Redundancy: 14.7 % / Biso Wilson estimate: 85.57 Å2 / Rmerge(I) obs: 0.18 / Net I/σ(I): 15.3 |
Reflection shell | Resolution: 3.1→3.31 Å / Redundancy: 14.8 % / Rmerge(I) obs: 1.5 / Mean I/σ(I) obs: 2.5 / % possible all: 100 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: N-TERMINAL DOMAIN FROM COMPLEX STRUCTURE Resolution: 3.1→48.749 Å / SU ML: 0.43 / σ(F): 1.34 / Phase error: 27.23 / Stereochemistry target values: ML
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 86.2 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.1→48.749 Å
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Refine LS restraints |
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LS refinement shell |
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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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