X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.6
Temperature 297.0
Details 0.1 M Na Citrate pH 5.6 20% iso-Propanol, 20% PEG 4000, VAPOR DIFFUSION, SITTING DROP, temperature 297K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 48.7 α = 90
b = 115.36 β = 109.79
c = 63.46 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirrors 2008-11-06
Diffraction Radiation
Monochromator Protocol
Double crystal monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.9793 APS 19-ID

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
2.05 50 95.5 0.104 -- -- 4.7 39380 39380 0.0 0.0 27.7
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)
2.05 2.09 67.6 0.5 -- 2.1 3.6 1352

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
SAD 2.05 41.49 -- 0.0 37345 37345 1978 95.27 0.181 0.181 0.179 0.232 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 2.05 2.103 1996 93 1903 0.247 0.284 -- 66.27
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 25.389
Anisotropic B[1][1] 2.74
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 1.04
Anisotropic B[2][2] -2.99
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.96
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.927
r_chiral_restr 0.118
r_bond_refined_d 0.017
r_dihedral_angle_2_deg 35.973
r_scbond_it 2.865
r_mcangle_it 1.58
r_mcbond_it 0.868
r_angle_refined_deg 1.58
r_dihedral_angle_1_deg 7.297
r_dihedral_angle_3_deg 16.031
r_gen_planes_refined 0.006
r_dihedral_angle_4_deg 17.535
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5026
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 340

Software

Software
Software Name Purpose
SBC-Collect data collection
HKL-3000 data collection
HKL-3000 phasing
MLPHARE phasing
DM model building
SHELXD phasing
RESOLVE model building
Coot model building
REFMAC refinement version: 5.5.0053
HKL-3000 data reduction
HKL-3000 data scaling
DM phasing
RESOLVE phasing