3VHZ

Crystal structure of the trans isomer of the L93A mutant of bacteriorhodopsin


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1IW6PDB ENTRY 1iw6

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1membrane fusion method5.2283membrane fusion method, 2.3M ammonium sulfate, 0.05M Na-citrate, pH 5.2, temperature 283K
Crystal Properties
Matthews coefficientSolvent content
3.0259.32

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 102.6α = 90
b = 102.6β = 90
c = 112.34γ = 120
Symmetry
Space GroupP 6 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315Si (111) double crystal monochromator2011-07-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL38B11.0SPring-8BL38B1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.388.996.70.0650.06847.68.816031154352.32.347.2
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.4295.90.2730.28714.19.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1iw62.3151603115397916960.25240.2845RANDOM47.2861
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-11.752-13.375-11.75223.505
RMS Deviations
KeyRefinement Restraint Deviation
c_dihedral_angle_d18.2512
c_scangle_it2.25
c_mcangle_it1.706
c_scbond_it1.542
c_angle_deg1.20852
c_mcbond_it1.042
c_improper_angle_d0.78653
c_bond_d0.007514
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1762
Nucleic Acid Atoms
Solvent Atoms43
Heterogen Atoms123

Software

Software
Software NamePurpose
ADSCdata collection
CNSrefinement
MOSFLMdata reduction
SCALAdata scaling
CNSphasing