5O64

From macrocrystals to microcrystals: a strategy for membrane protein serial crystallography


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5NJ4 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2911 ml 2.4 M ammonium sulphate reservoir 20 ul sitting drop final concentrations: 5 mg/ml purified reaction center, 1.8 M ammonium sulphate, 10 mM sodium phosphate pH 6.8, 3 % heptane-1,2,3-triol Growth over 3 days at 291 K
Crystal Properties
Matthews coefficientSolvent content
5.5277.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 226.6α = 90
b = 226.6β = 90
c = 113.8γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray291PIXELCS-PAD CXI-12014-05-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1FREE ELECTRON LASERSLAC LCLS BEAMLINE CXI1.66SLAC LCLSCXI

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)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
13.348.31000.99411.1131042765109
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.33.411000.2641.06794

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT5NJ43.346.3942765229499.940.156330.154190.19582RANDOM108.894
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]
0.020.02-0.03
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.627
r_dihedral_angle_3_deg17.462
r_dihedral_angle_4_deg16.601
r_long_range_B_refined11.855
r_long_range_B_other11.852
r_scangle_other9.65
r_mcangle_it8.87
r_mcangle_other8.87
r_dihedral_angle_1_deg6.946
r_scbond_it6.457
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.627
r_dihedral_angle_3_deg17.462
r_dihedral_angle_4_deg16.601
r_long_range_B_refined11.855
r_long_range_B_other11.852
r_scangle_other9.65
r_mcangle_it8.87
r_mcangle_other8.87
r_dihedral_angle_1_deg6.946
r_scbond_it6.457
r_scbond_other6.457
r_mcbond_it6.022
r_mcbond_other6.02
r_angle_refined_deg2.203
r_angle_other_deg1.404
r_chiral_restr0.083
r_bond_refined_d0.017
r_gen_planes_other0.016
r_gen_planes_refined0.011
r_bond_other_d0.008
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms9291
Nucleic Acid Atoms
Solvent Atoms30
Heterogen Atoms836

Software

Software
Software NamePurpose
REFMACrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing