X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 294.0
Details 0.1 M Bis-Tris, 0.2 M Magnesium chloride, 25% PEG 3350, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 174.78 α = 90
b = 49.51 β = 106.28
c = 110.19 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
CCD ADSC QUANTUM 315 -- 2007-07-05
Diffraction Radiation
Monochromator Protocol
Double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97920 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 37.2 83.0 0.087 -- -- 6.7 51323 51323 0.0 0.0 40.8
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)
2.0 2.05 47.8 0.506 -- 2.05 4.6 2106

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 2.0 37.2 0.0 0.0 51312 51312 2582 82.94 0.183 0.183 0.181 0.233 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 2.0 2.05 2096 98 1998 0.242 0.326 -- 45.99
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.641
Anisotropic B[1][1] -1.92
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.11
Anisotropic B[2][2] 3.51
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.64
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 0.865
r_mcangle_it 1.554
r_dihedral_angle_2_deg 34.08
r_gen_planes_refined 0.006
r_nbtor_other 0.09
r_bond_other_d 0.002
r_symmetry_hbond_refined 0.128
r_nbtor_refined 0.18
r_mcbond_other 0.22
r_dihedral_angle_4_deg 17.869
r_nbd_other 0.204
r_chiral_restr 0.106
r_dihedral_angle_1_deg 6.739
r_gen_planes_other 0.001
r_scangle_it 3.921
r_scbond_it 2.536
r_metal_ion_refined 0.113
r_dihedral_angle_3_deg 16.585
r_xyhbond_nbd_refined 0.177
r_angle_refined_deg 1.668
r_symmetry_vdw_refined 0.212
r_nbd_refined 0.208
r_bond_refined_d 0.018
r_symmetry_vdw_other 0.286
r_angle_other_deg 0.989
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5774
Nucleic Acid Atoms 0
Heterogen Atoms 49
Solvent Atoms 343

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005
SBC-Collect data collection
HKL-3000 data reduction
SHELXD phasing
MLPHARE phasing
DM phasing
SOLVE phasing
RESOLVE phasing
HKL-3000 phasing