X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Temperature 293.0
Details 100 mM Tris/HCl pH 7.5-8.0, 200-500 mM Na-formate, 5% 1,4 butanediol, 27-32% PEG 400, Lipidic Cubic Phase (LCP) Crystallization, temperature 293-295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.71 α = 90
b = 76.15 β = 90
c = 174.21 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
2 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2009-11-19
CCD MARMOSAIC 300 mm CCD -- 2009-12-10
Diffraction Radiation
Monochromator Protocol
Double Crystal SINGLE WAVELENGTH
Double Crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.0332 APS 23-ID-D
SYNCHROTRON APS BEAMLINE 23-ID-D 1.0332 APS 23-ID-D

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot
2.84 40 90.4 -- 0.141 -- 4.52 13472 12177 -- -3.0 --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.84 2.99 72.4 -- 0.498 2.08 3.27 1875

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
MOLECULAR REPLACEMENT 2.84 37.81 -- -- -- 11566 609 100.0 -- 0.22912 0.22585 0.29073 RANDOM
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.84 2.913 -- 33 630 0.304 0.383 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.899
Anisotropic B[1][1] 5.84
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.97
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.88
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 0.874
r_dihedral_angle_4_deg 19.698
r_scbond_it 0.863
r_dihedral_angle_3_deg 17.026
r_scangle_it 1.472
r_dihedral_angle_1_deg 5.472
r_mcbond_other 0.047
r_chiral_restr 0.061
r_bond_other_d 0.002
r_dihedral_angle_2_deg 37.123
r_gen_planes_other 0.001
r_angle_refined_deg 1.14
r_gen_planes_refined 0.004
r_mcangle_it 0.8
r_mcbond_it 0.423
r_bond_refined_d 0.01
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3527
Nucleic Acid Atoms 0
Heterogen Atoms 149
Solvent Atoms 22

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASER phasing
REFMAC refinement version: 5.5.0102
XDS data reduction
XSCALE data scaling