X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 100 mM MES, 19-24% PEG 4000, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.71 α = 90
b = 74.7 β = 90
c = 77.71 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 90
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M Dynamical bendable mirrors 2010-07-03
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 1.00000 SLS X10SA

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
2.4 45 99.9 0.054 -- -- 8.89 15500 15486 -- -3.0 53.415
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)
2.4 2.5 100.0 0.346 -- 7.02 -- --

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 2.4 41.67 -- 0.0 15500 15486 775 99.9 -- 0.2189 0.2156 0.277 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 2.4 2.462 -- 56 1059 0.272 0.338 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.7102
Anisotropic B[1][1] 0.57
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] 0.4
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 14.369
r_mcbond_it 0.983
r_scbond_it 2.374
r_scangle_it 3.902
r_chiral_restr 0.1
r_bond_refined_d 0.015
r_angle_refined_deg 1.461
r_dihedral_angle_3_deg 18.656
r_mcangle_it 1.857
r_dihedral_angle_2_deg 33.294
r_gen_planes_refined 0.007
r_dihedral_angle_1_deg 5.893
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2695
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 48

Software

Software
Software Name Purpose
XSCALE data scaling
PHASER phasing version: 1.3.3
REFMAC refinement
PDB_EXTRACT data extraction version: 3.10
XDS data scaling