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Open data
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Basic information
Entry | Database: PDB / ID: 8cm1 | |||||||||
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Title | Lol B - Localization of lipoprotein B from Vibrio cholera | |||||||||
![]() | Outer-membrane lipoprotein LolB | |||||||||
![]() | PROTEIN TRANSPORT / Localization of Lipoproteins | |||||||||
Function / homology | Outer membrane lipoprotein LolB / Outer membrane lipoprotein LolB / Lipoprotein localisation LolA/LolB/LppX / lipoprotein localization to outer membrane / cell outer membrane / Prokaryotic membrane lipoprotein lipid attachment site profile. / protein transport / Outer-membrane lipoprotein LolB![]() | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() ![]() | |||||||||
![]() | Jaiman, D. / Persson, K. | |||||||||
Funding support | ![]()
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![]() | ![]() Title: A comparative analysis of lipoprotein transport proteins: LolA and LolB from Vibrio cholerae and LolA from Porphyromonas gingivalis. Authors: Jaiman, D. / Nagampalli, R. / Persson, K. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 110.9 KB | Display | ![]() |
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PDB format | ![]() | 70 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 427.7 KB | Display | ![]() |
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Full document | ![]() | 428.2 KB | Display | |
Data in XML | ![]() | 10.8 KB | Display | |
Data in CIF | ![]() | 15.4 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 8cgmC ![]() 8chxC C: citing same article ( |
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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: 24827.758 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() |
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#2: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.55 Å3/Da / Density meas: 0.99 Mg/m3 / Density % sol: 51.77 % / Description: Needles and Rod |
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Crystal grow | Temperature: 291.15 K / Method: vapor diffusion, sitting drop / pH: 6 / Details: 0.1M KCl, 0.1 M Bis-Tris 6.0, 18% w/v PEG4000 / PH range: 5.7-6.5 |
-Data collection
Diffraction | Mean temperature: 100 K / Serial crystal experiment: N |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: DECTRIS EIGER X 16M / Detector: PIXEL / Date: Jul 9, 2020 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97624 Å / Relative weight: 1 |
Reflection | Resolution: 1.46→40.1 Å / Num. obs: 39405 / % possible obs: 100 % / Redundancy: 2 % / CC1/2: 0.999 / Rmerge(I) obs: 0.127 / Rpim(I) all: 0.026 / Rrim(I) all: 0.132 / Χ2: 0.98 / Net I/σ(I): 19.6 |
Reflection shell | Resolution: 1.46→1.512 Å / Rmerge(I) obs: 0.3738 / Mean I/σ(I) obs: 1.69 / Num. unique obs: 3862 / CC1/2: 0.752 / CC star: 0.927 / Rpim(I) all: 0.3738 / Rrim(I) all: 0.5287 / % possible all: 99.97 |
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Processing
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Refinement | Method to determine structure: ![]() Stereochemistry target values: GeoStd + Monomer Library + CDL v1.2
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Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.1 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 24.12 Å2 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.46→35.86 Å
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Refine LS restraints |
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LS refinement shell |
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