X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 293.0
Details 0.1M potassium thiocyanate, 30% PEG 2000, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.13 α = 90
b = 46.31 β = 90
c = 58.1 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2006-11-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 0.9795 ESRF ID14-4

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
0.98 46.3 97.8 0.056 -- -- 10.7 61635 61635 0.0 0.0 5.5
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)
0.98 1.03 85.9 0.142 -- 8.6 5.3 7766

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
Direct method 0.98 33.02 0.0 0.0 58435 58435 3096 97.92 0.1207 0.1207 0.11996 0.13453 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 0.98 1.005 -- 173 3517 0.14 0.167 -- 80.08
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 6.31
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.02
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_hbond_refined 0.271
r_bond_other_d 0.002
r_scangle_it 4.176
r_rigid_bond_restr 1.359
r_scbond_it 3.264
r_nbd_other 0.199
r_symmetry_vdw_refined 0.132
r_mcangle_it 2.745
r_sphericity_free 8.916
r_angle_other_deg 0.988
r_dihedral_angle_1_deg 6.72
r_nbtor_refined 0.177
r_dihedral_angle_3_deg 10.775
r_nbd_refined 0.209
r_nbtor_other 0.093
r_xyhbond_nbd_refined 0.204
r_bond_refined_d 0.018
r_dihedral_angle_4_deg 13.97
r_chiral_restr 0.12
r_symmetry_vdw_other 0.214
r_dihedral_angle_2_deg 39.504
r_mcbond_other 0.799
r_sphericity_bonded 4.526
r_mcbond_it 2.178
r_gen_planes_refined 0.008
r_metal_ion_refined 0.012
r_angle_refined_deg 1.825
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 907
Nucleic Acid Atoms 0
Heterogen Atoms 1
Solvent Atoms 214

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
REFMAC refinement version: 5.2.0019
MOSFLM data reduction
SCALA data scaling