4CAS

Serial femtosecond crystallography structure of a photosynthetic reaction center


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2WJNPDB ENTRY 2WJN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.1BATCH CRYSTALLIZATIONS WERE SET UP IN SEPTUM-SEALED GLASS VIALS CONTAINING 100 UL PROTEIN (30-35 MG/ML), 100 UL LIPIDIC SPONGE PHASE (12 % MONOOLEIN, 17.5 % JEFFAMINE M 600, 1.0 M HEPES PH 8.0, 0.7 M (NH4)2SO4, 2.5 % 1,2,3- HEPTANETRIOL) AND 100 UL 1.0-1.2 M TRI-SODIUM CITRATE
Crystal Properties
Matthews coefficientSolvent content
3.4964.8

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.9α = 90
b = 84.8β = 90
c = 384.3γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293PIXELCS-PAD CXI-1BE LENSES2011-02-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1FREE ELECTRON LASERSLAC LCLS BEAMLINE CXI1.32SLAC LCLSCXI

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)CC (Half)R Split (All)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
11.485099.10.540.3653.527234962
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)R Split (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.53.5999.60.320.527226.6

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 REPLACEMENTTHROUGHOUTPDB ENTRY 2WJN3.549.6423496126499.10.296390.294610.32903RANDOM57.177
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]
1.920.84-2.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.427
r_dihedral_angle_4_deg14.727
r_dihedral_angle_3_deg12.713
r_dihedral_angle_1_deg5.583
r_long_range_B_refined4.559
r_long_range_B_other4.558
r_scangle_other2.14
r_angle_refined_deg1.974
r_mcangle_it1.571
r_mcangle_other1.571
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.427
r_dihedral_angle_4_deg14.727
r_dihedral_angle_3_deg12.713
r_dihedral_angle_1_deg5.583
r_long_range_B_refined4.559
r_long_range_B_other4.558
r_scangle_other2.14
r_angle_refined_deg1.974
r_mcangle_it1.571
r_mcangle_other1.571
r_scbond_it1.466
r_scbond_other1.456
r_angle_other_deg1.095
r_mcbond_it0.901
r_mcbond_other0.901
r_chiral_restr0.078
r_bond_refined_d0.022
r_gen_planes_refined0.006
r_gen_planes_other0.004
r_bond_other_d0.001
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 Atoms9076
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms805

Software

Software
Software NamePurpose
REFMACrefinement
CrystFELdata reduction
CrystFELdata scaling
PHASERphasing