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- PDB-1gx9: BOVINE BETA-LACTOGLOBULIN COMPLEXED WITH RETINOIC ACID, TRIGONAL ... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1gx9 | ||||||
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Title | BOVINE BETA-LACTOGLOBULIN COMPLEXED WITH RETINOIC ACID, TRIGONAL LATTICE Z | ||||||
![]() | BETA-LACTOGLOBULIN | ||||||
![]() | LIPOCALIN / MILK / WHEY TRANSPORT / BOVINE / RETINOL-BINDING ALLERGEN / RETINOIC ACID-BINDING | ||||||
Function / homology | ![]() retinol binding / long-chain fatty acid binding / extracellular space / identical protein binding Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Kontopidis, G. / Sawyer, L. | ||||||
![]() | ![]() Title: The Ligand-Binding Site of Bovine Beta-Lactoglobulin: Evidence for a Function? Authors: Kontopidis, G. / Holt, C. / Sawyer, L. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 50.1 KB | Display | ![]() |
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PDB format | ![]() | 34.5 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 428.5 KB | Display | ![]() |
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Full document | ![]() | 437.3 KB | Display | |
Data in XML | ![]() | 6.1 KB | Display | |
Data in CIF | ![]() | 9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1gx8C ![]() 1gxaC ![]() 1b0oS 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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1 | ![]()
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Unit cell |
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Components on special symmetry positions |
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Details | THE DIMER GIVEN HERE IS PHYSIOLOGICAL DIMERTHE STRAND AA10 CREATES A CONTINUOUS BETA SHEET BETWEENRESIDUES 147-150 IN THE DIMER |
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Components
#1: Protein | Mass: 18301.174 Da / Num. of mol.: 1 / Source method: isolated from a natural source Details: PROTEIN PURCHASED FROM SIGMA CHEMICALS, CAT.NO. L8005 Source: (natural) ![]() ![]() |
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#2: Chemical | ChemComp-REA / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.495 Å3/Da / Density % sol: 51.3 % | ||||||||||||||||||||||||||||||
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Crystal grow | Temperature: 290 K / pH: 7.3 Details: 17 DEG C, 8MUL BLG-RET COMPLEX 20MM TRIS, PH 8 + 8MUL NA CITRATE 1.25M, 0.1M HEPES, PH7.3, PER DROP | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Temperature: 17 ℃ / pH: 8 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() |
Detector | Type: RAYONIX MX340-HS / Detector: CCD / Details: COLLIMATOR |
Radiation | Monochromator: GRAPHITE / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.542 Å / Relative weight: 1 |
Reflection | Resolution: 2.34→15 Å / Num. obs: 8213 / % possible obs: 99.6 % / Redundancy: 16.8 % / Rmerge(I) obs: 0.057 / Net I/σ(I): 23.3 |
Reflection shell | Rmerge(I) obs: 0.25 / % possible all: 100 |
Reflection | *PLUS Lowest resolution: 15 Å / Num. measured all: 138409 |
Reflection shell | *PLUS % possible obs: 100 % / Rmerge(I) obs: 0.25 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1B0O Resolution: 2.34→15 Å / Num. parameters: 5758 / Num. restraintsaints: 5312 / Cross valid method: FREE R-VALUE / σ(F): 0 / Stereochemistry target values: ENGH AND HUBER / Details: THE RESIDUE, LEU 1 IS NOT OBSERVED
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Solvent computation | Solvent model: MOEWS & KRETSINGER, J.MOL.BIOL.91(1973)201-2 | |||||||||||||||||||||||||||||||||
Refine analyze | Num. disordered residues: 5 / Occupancy sum hydrogen: 0 / Occupancy sum non hydrogen: 1439.5 | |||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.34→15 Å
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Refine LS restraints |
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Software | *PLUS Name: SHELXL / Version: 97 / Classification: refinement | |||||||||||||||||||||||||||||||||
Refinement | *PLUS % reflection Rfree: 5 % / Rfactor all: 0.227 / Rfactor obs: 0.298 / Rfactor Rfree: 0.227 | |||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS Type: s_bond_d / Dev ideal: 0.005 |