X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 283.15
Details PEG4000, Isopropanol, Na-Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 283.15K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 38.28 α = 90
b = 45.7 β = 90
c = 110.11 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
2 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH mirrors 2003-01-30
IMAGE PLATE MARRESEARCH mirrors 2003-01-30
Diffraction Radiation
Monochromator Protocol
Double crystal SINGLE WAVELENGTH
Double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.97981 BESSY 14.2
SYNCHROTRON BESSY BEAMLINE 14.2 0.9795 BESSY 14.2

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
1.06 30 89.8 -- 0.048 -- 5.6 84822 81658 0.0 0.0 8.8
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)
1.06 1.09 74.7 -- 0.09 -- -- 1544

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 1.06 23.0 -- 2.0 84822 80596 4226 95.9 0.204 0.14287 0.14132 0.1729 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 1.06 1.087 71983 255 5099 0.394 0.398 0.05 82.5
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 17.624
Anisotropic B[1][1] 0.91
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.74
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.17
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_refined 0.366
r_mcbond_it 2.948
r_angle_refined_deg 2.07
r_nbtor_other 0.093
r_angle_other_deg 1.801
r_chiral_restr 0.133
r_mcangle_it 3.945
r_bond_other_d 0.001
r_bond_refined_d 0.014
r_scangle_it 6.779
r_gen_planes_refined 0.014
r_nbd_refined 0.235
r_rigid_bond_restr 2.775
r_sphericity_bonded 9.375
r_gen_planes_other 0.015
r_nbd_other 0.267
r_xyhbond_nbd_refined 0.165
r_symmetry_vdw_other 0.354
r_dihedral_angle_1_deg 7.353
r_scbond_it 5.328
r_symmetry_hbond_refined 0.242
r_sphericity_free 15.47
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1528
Nucleic Acid Atoms 0
Heterogen Atoms 97
Solvent Atoms 279

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
MAR data reduction
XDS data scaling
SOLVE phasing
RESOLVE phasing