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- PDB-2wcm: Structure of BMori GOBP2 (General Odorant Binding Protein 2) with... -
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Open data
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Basic information
Entry | Database: PDB / ID: 2wcm | ||||||
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Title | Structure of BMori GOBP2 (General Odorant Binding Protein 2) with (10E)-hexadecen-12-yn-1-ol | ||||||
![]() | GENERAL ODORANT-BINDING PROTEIN 1 | ||||||
![]() | TRANSPORT PROTEIN / ODORANT BINDING PROTEIN / OLFACTION / TRANSPORT / DISULFIDE BOND / INSECT PHEREMONE / SENSORY TRANSDUCTION | ||||||
Function / homology | ![]() | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() ![]() ![]() | ||||||
![]() | Robertson, G. / Zhou, J.-J. / He, X. / Pickett, J.A. / Field, L.M. / Keep, N.H. | ||||||
![]() | ![]() Title: Characterisation of Bombyx Mori Odorant-Binding Proteins Reveals that a General Odorant-Binding Protein Discriminates between Sex Pheromone Components. Authors: Zhou, J.-J. / Robertson, G. / He, X. / Dufour, S. / Hooper, A.M. / Pickett, J.A. / Keep, N.H. / Field, L.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 | ![]() | 46.8 KB | Display | ![]() |
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PDB format | ![]() | 32 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 433.8 KB | Display | ![]() |
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Full document | ![]() | 435.3 KB | Display | |
Data in XML | ![]() | 9.4 KB | Display | |
Data in CIF | ![]() | 12.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 2wc5SC ![]() 2wc6C ![]() 2wchC ![]() 2wcjC ![]() 2wckC ![]() 2wclC C: citing same article ( S: Starting model for refinement |
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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: 16187.409 Da / Num. of mol.: 1 / Fragment: RESIDUES 20-160 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() ![]() | ||||||
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#2: Chemical | #3: Chemical | ChemComp-B9M / ( | #4: Water | ChemComp-HOH / | Sequence details | THREE POINT MUTATIONS DUE TO STRAIN DIFFERENCES. THE CDNA USED FOR THIS EXPERIMENT WAS OBTAINED ...THREE POINT MUTATIONS DUE TO STRAIN DIFFERENCE | |
-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.87 Å3/Da / Density % sol: 34 % / Description: NONE |
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Crystal grow | pH: 8.5 / Details: 30% PEG 4000, 200MM MGCL2, 100MM TRIS PH 8.5 |
-Data collection
Diffraction | Mean temperature: 100 K |
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Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: ADSC CCD / Detector: CCD / Date: Jun 30, 2008 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.97 Å / Relative weight: 1 |
Reflection | Resolution: 1.5→63.2 Å / Num. obs: 17328 / % possible obs: 92.9 % / Observed criterion σ(I): 0 / Redundancy: 6.4 % / Rmerge(I) obs: 0.11 / Net I/σ(I): 14.8 |
Reflection shell | Resolution: 1.5→1.54 Å / Redundancy: 6.8 % / Rmerge(I) obs: 0.38 / Mean I/σ(I) obs: 3.8 / % possible all: 95.4 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 2WC5 Resolution: 1.5→62.5 Å / Cor.coef. Fo:Fc: 0.953 / Cor.coef. Fo:Fc free: 0.93 / SU B: 1.734 / SU ML: 0.066 / Cross valid method: THROUGHOUT / ESU R: 0.097 / ESU R Free: 0.1 / Stereochemistry target values: MAXIMUM LIKELIHOOD Details: HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS.U VALUES
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Solvent computation | Ion probe radii: 0.8 Å / Shrinkage radii: 0.8 Å / VDW probe radii: 1.4 Å / Solvent model: MASK | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 16.34 Å2
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Refinement step | Cycle: LAST / Resolution: 1.5→62.5 Å
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Refine LS restraints |
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