X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 4.6
Temperature 298.0
Details 13% PEG 4000 0.1M sodium acetate, pH 4.6 0.1M Li2SO4 18% glycerol 5 mM benzoyl-CoA 0.1 mg/ml BoxA 0.1 M KCl 10 mM Pipes, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 209.66 α = 90
b = 76.77 β = 109.43
c = 147.83 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2010-07-08
Diffraction Radiation
Monochromator Protocol
LN2 cooled fixed-exit Si(111) monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 0.9999 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
2.5 43.7 99.0 0.131 0.113 -- -- 77107 76352 0.0 0.0 --
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)
2.5 2.6 96.3 -- -- -- -- --

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 2.5 43.7 -- -- -- 72478 3824 99.03 -- 0.20735 0.2059 0.23498 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 2.5 2.565 -- 269 5056 0.402 0.417 -- 94.15
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.457
Anisotropic B[1][1] -1.08
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.15
Anisotropic B[2][2] 1.73
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.55
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_other 0.103
r_angle_refined_deg 1.317
r_gen_planes_other 0.003
r_bond_other_d 0.002
r_scbond_it 2.209
r_dihedral_angle_2_deg 34.377
r_dihedral_angle_4_deg 21.373
r_bond_refined_d 0.015
r_chiral_restr 0.072
r_angle_other_deg 0.94
r_dihedral_angle_1_deg 5.637
r_mcbond_it 0.571
r_mcangle_it 1.165
r_dihedral_angle_3_deg 14.752
r_gen_planes_refined 0.006
r_scangle_it 3.307
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 15298
Nucleic Acid Atoms 0
Heterogen Atoms 36
Solvent Atoms 274

Software

Software
Software Name Purpose
PHASER phasing
REFMAC refinement version: 5.5.0109
XDS data reduction
XDS data scaling