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Open data
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Basic information
Entry | Database: PDB / ID: 2q39 | ||||||
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Title | Beta-lactoglobulin (low humidity) | ||||||
![]() | Beta-lactoglobulin | ||||||
![]() | TRANSPORT PROTEIN / LIPOCALIN / VARIANT A | ||||||
Function / homology | ![]() retinol binding / long-chain fatty acid binding / extracellular space / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Vijayalakshmi, L. / Krishna, R. / Sankaranarayanan, R. / Vijayan, M. | ||||||
![]() | ![]() Title: An asymmetric dimer of beta-lactoglobulin in a low humidity crystal form-Structural changes that accompany partial dehydration and protein action. Authors: Vijayalakshmi, L. / Krishna, R. / Sankaranarayanan, R. / Vijayan, M. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 74.7 KB | Display | ![]() |
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PDB format | ![]() | 54.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 437.1 KB | Display | ![]() |
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Full document | ![]() | 456 KB | Display | |
Data in XML | ![]() | 17.2 KB | Display | |
Data in CIF | ![]() | 22.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2q2mC ![]() 2q2pC ![]() 1b8eS S: Starting model for refinement 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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Unit cell |
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Components
#1: Protein | Mass: 18387.264 Da / Num. of mol.: 2 / Source method: isolated from a natural source Details: VARIANT A DIFFERS IN A PRIMARY AMINO ACID SEQUENCE FROM VARIANT B AT POSITIONS 64 (ASP-->GLY) AND 118 (VAL-->ALA) Source: (natural) ![]() ![]() #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.94 Å3/Da / Density % sol: 36.64 % |
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Crystal grow | Temperature: 293 K / Method: vapor diffusion, hanging drop / pH: 7.4 Details: 0.01M hepes, 2.2 to 2.8 M Ammonium sulphate, NAOH, pH 7.40, VAPOR DIFFUSION, HANGING DROP, temperature 293K |
-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() |
Detector | Type: MARRESEARCH / Detector: IMAGE PLATE / Date: May 13, 2004 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 2.5→19.72 Å / Num. obs: 10224 / % possible obs: 99 % / Observed criterion σ(I): 0 / Biso Wilson estimate: 39.5 Å2 / Rmerge(I) obs: 0.127 / Net I/σ(I): 9.1 |
Reflection shell | Resolution: 2.5→2.66 Å / Rmerge(I) obs: 0.479 / Mean I/σ(I) obs: 3.3 / % possible all: 99.8 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: pdb entry 1B8E Resolution: 2.5→19.72 Å / Rfactor Rfree error: 0.009 / Data cutoff high absF: 1077214.54 / Data cutoff low absF: 0 / Isotropic thermal model: GROUP / Cross valid method: THROUGHOUT / σ(F): 0
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Solvent computation | Solvent model: FLAT MODEL / Bsol: 70.3469 Å2 / ksol: 0.299638 e/Å3 | ||||||||||||||||||||
Displacement parameters | Biso mean: 41.1 Å2
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Refine analyze |
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Refinement step | Cycle: LAST / Resolution: 2.5→19.72 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.5→2.66 Å / Rfactor Rfree error: 0.03 / Total num. of bins used: 6
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Xplor file |
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