X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 0.18 M Magnesium Cloride, 19%(v/v) PEG 400, 10%(v/v) Glycerol, 0.09 M HEPES pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 92 α = 90
b = 92 β = 90
c = 170.23 γ = 90
Symmetry
Space Group I 4 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r MIRRORS 2009-10-16
Diffraction Radiation
Monochromator Protocol
SI(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97918 APS 19-BM

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
1.6 50 100.0 0.058 0.058 -- 11.0 -- 48251 0.0 -3.0 21.8
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)
1.6 1.63 100.0 0.683 0.683 1.921 6.3 --

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 1.6 50.0 -- 0.0 -- 48252 2437 99.76 -- 0.151 0.151 0.162 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 1.601 1.643 -- 152 3270 0.202 0.232 -- 97.13
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 26.366
Anisotropic B[1][1] -0.36
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.36
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.73
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 3.0
r_chiral_restr 0.104
r_dihedral_angle_2_deg 34.949
r_angle_refined_deg 1.682
r_angle_other_deg 4.222
r_gen_planes_other 0.016
r_dihedral_angle_1_deg 6.142
r_mcbond_it 1.022
r_bond_other_d 0.0
r_mcbond_other 0.0
r_scangle_it 4.866
r_gen_planes_refined 0.01
r_dihedral_angle_3_deg 11.258
r_mcangle_it 1.824
r_dihedral_angle_4_deg 16.466
r_bond_refined_d 0.019
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2107
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 202

Software

Software
Software Name Purpose
REFMAC refinement version: 5.5.0109
PDB_EXTRACT data extraction version: 3.006
HKL-3000 data collection
HKL-3000 data reduction
HKL-3000 data scaling
HKL-3000 phasing version: MOLREP