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Open data
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Basic information
Entry | Database: PDB / ID: 4d53 | ||||||
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Title | Outer surface protein BB0689 from Borrelia burgdorferi | ||||||
![]() | BB0689 | ||||||
![]() | STRUCTURAL PROTEIN / LIPOPROTEIN / CAP DOMAIN / LYME DISEASE | ||||||
Function / homology | Pathogenesis-related Protein p14a / CAP / CAP domain / Cysteine-rich secretory protein family / CAP superfamily / Prokaryotic membrane lipoprotein lipid attachment site profile. / 3-Layer(aba) Sandwich / Alpha Beta / Uncharacterized protein BB_0689![]() | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Brangulis, K. / Petrovskis, I. / Kazaks, A. / Tars, K. | ||||||
![]() | ![]() Title: Structural and Functional Analysis of Bb0689 from Borrelia Burgdorferi, a Member of the Bacterial CAP Superfamily. Authors: Brangulis, K. / Jaudzems, K. / Petrovskis, I. / Akopjana, I. / Kazaks, A. / Tars, 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 | ![]() | 67 KB | Display | ![]() |
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PDB format | ![]() | 50.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 427.9 KB | Display | ![]() |
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Full document | ![]() | 429.6 KB | Display | |
Data in XML | ![]() | 13.4 KB | Display | |
Data in CIF | ![]() | 18.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
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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: 15916.275 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() Strain: B31 / Plasmid: PETM-11 / Production host: ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 3.7 Å3/Da / Density % sol: 66.6 % / Description: NONE |
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Crystal grow | pH: 8.5 / Details: 2.0 M AMMONIUM SULFATE, 0.1 M TRIS-HCL PH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MARMOSAIC 225 mm CCD / Detector: CCD / Date: Jun 27, 2013 / Details: RH-COATED TOROIDAL SI MIRROR |
Radiation | Monochromator: DOUBLE CRYSTAL SI(111) / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1 Å / Relative weight: 1 |
Reflection | Resolution: 1.85→33.3 Å / Num. obs: 39106 / % possible obs: 99.1 % / Observed criterion σ(I): 2.1 / Redundancy: 4.3 % / Rmerge(I) obs: 0.03 / Net I/σ(I): 14.4 |
Reflection shell | Resolution: 1.85→1.95 Å / Redundancy: 4 % / Rmerge(I) obs: 0.19 / Mean I/σ(I) obs: 3.8 / % possible all: 96.6 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: NONE Resolution: 1.85→33.27 Å / Cor.coef. Fo:Fc: 0.959 / Cor.coef. Fo:Fc free: 0.942 / SU B: 2.223 / SU ML: 0.068 / Cross valid method: THROUGHOUT / ESU R: 0.097 / ESU R Free: 0.102 / 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: 1.2 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters |
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Refinement step | Cycle: LAST / Resolution: 1.85→33.27 Å
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Refine LS restraints |
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