X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 290.0
Details 0.2M sodium flouride, 20% (w/v) PEG3350, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 62.71 α = 90
b = 65.04 β = 90
c = 110.61 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 MAR CCD 165 mm -- 2005-06-27
Diffraction Radiation
Monochromator Protocol
double crystal Si(III)monochromator MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX10.1 0.9794, 0.9797, 1.0094 SRS PX10.1

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
2.5 30 99.9 0.098 -- -- 6.8 -- 16253 2.0 2.0 --
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)
2.5 2.65 99.0 0.32 -- 5.1 6.8 --

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
MAD 2.5 19.96 -- -- -- 15364 814 100.0 -- 0.21815 0.21539 0.27353 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 2.5 2.564 -- 67 1076 0.254 0.319 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 41.463
Anisotropic B[1][1] -2.29
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.61
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.89
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 2.644
r_scbond_it 1.863
r_mcangle_it 0.816
r_mcbond_other 0.062
r_mcbond_it 1.296
r_nbd_refined 0.202
r_gen_planes_other 0.002
r_gen_planes_refined 0.004
r_chiral_restr 0.071
r_dihedral_angle_4_deg 19.1
r_dihedral_angle_3_deg 16.346
r_dihedral_angle_2_deg 33.42
r_dihedral_angle_1_deg 12.283
r_angle_other_deg 0.766
r_angle_refined_deg 1.251
r_bond_other_d 0.006
r_bond_refined_d 0.01
r_nbd_other 0.196
r_nbtor_refined 0.179
r_nbtor_other 0.083
r_xyhbond_nbd_refined 0.143
r_metal_ion_refined 0.089
r_symmetry_vdw_refined 0.093
r_symmetry_vdw_other 0.249
r_symmetry_hbond_refined 0.179
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3147
Nucleic Acid Atoms 0
Heterogen Atoms 57
Solvent Atoms 31

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
SOLVE Structure Solution
REFMAC 5.2.0005 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0005 refinement