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- PDB-7tpm: Structure of the outer-membrane lipoprotein carrier protein (LolA... -
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Open data
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Basic information
Entry | Database: PDB / ID: 7tpm | ||||||
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Title | Structure of the outer-membrane lipoprotein carrier protein (LolA) from Borrelia burgdorferi | ||||||
![]() | Outer membrane lipoprotein carrier protein LolA | ||||||
![]() | LIPID TRANSPORT / lipoprotein carrier protein / LolA / Borreliella burgdorferi / Lyme disease spirochete | ||||||
Function / homology | Outer membrane lipoprotein carrier protein LolA / Outer membrane lipoprotein carrier protein LolA-like / Lipoprotein localisation LolA/LolB/LppX / Export chaperone![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() ![]() | ||||||
![]() | Lovell, S. / Kashipathy, M.M. / Battaile, K.P. / Zueckert, W.R. | ||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of the outer-membrane lipoprotein carrier protein (LolA) from Borrelia burgdorferi Authors: Lovell, S. / Kashipathy, M.M. / Battaile, K.P. / Zueckert, W.R. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 57.5 KB | Display | ![]() |
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PDB format | ![]() | 39.8 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 682.1 KB | Display | ![]() |
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Full document | ![]() | 683 KB | Display | |
Data in XML | ![]() | 11.2 KB | Display | |
Data in CIF | ![]() | 15.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data | Similarity search - Function & homology ![]() |
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Links
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Assembly
Deposited unit | ![]()
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Unit cell |
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Components
#1: Protein | Mass: 23403.543 Da / Num. of mol.: 1 / Fragment: Q18-N216 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Gene: BB_0346 / Plasmid: pET29b / Production host: ![]() ![]() | ||||||
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#2: Chemical | ChemComp-PE4 / | ||||||
#3: Chemical | #4: Chemical | ChemComp-NA / | #5: Water | ChemComp-HOH / | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.24 Å3/Da / Density % sol: 62.08 % / Mosaicity: 0.04 ° |
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Crystal grow | Temperature: 291 K / Method: vapor diffusion, sitting drop / pH: 5.5 Details: 2 M sodium formate, 100 mM MES, 5% (w/v) PEG 5000 MME |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N | ||||||||||||||||||||||||
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Diffraction source | Source: ![]() ![]() ![]() | ||||||||||||||||||||||||
Detector | Type: DECTRIS PILATUS 6M / Detector: PIXEL / Date: Mar 4, 2018 | ||||||||||||||||||||||||
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray | ||||||||||||||||||||||||
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 | ||||||||||||||||||||||||
Reflection | Resolution: 1.9→49.86 Å / Num. obs: 25182 / % possible obs: 100 % / Redundancy: 19.4 % / Biso Wilson estimate: 33.39 Å2 / CC1/2: 0.999 / Rmerge(I) obs: 0.145 / Net I/σ(I): 12.5 / Num. measured all: 488064 / Scaling rejects: 1 | ||||||||||||||||||||||||
Reflection shell | Diffraction-ID: 1
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-Phasing
Phasing | Method: ![]() |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: SAD-phased structure of the same protein from a KI-soaked crystal Resolution: 1.9→38.623 Å / SU ML: 0.21 / Cross valid method: THROUGHOUT / σ(F): 1.06 / Phase error: 24.52 / 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 max: 112.69 Å2 / Biso mean: 37.2703 Å2 / Biso min: 20.3 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: final / Resolution: 1.9→38.623 Å
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Refine LS restraints |
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LS refinement shell | Refine-ID: X-RAY DIFFRACTION / Rfactor Rfree error: 0 / % reflection obs: 100 %
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