X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Details 0.1 M HEPES PH 7.5, 0.2 M MAGNESIUM NITRATE, 8-16% (W/V) PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 90.86 α = 90
b = 90.86 β = 90
c = 92.91 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC -- 2005-09-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID29 -- ESRF ID29

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
2.25 40.82 100.0 0.08 -- -- 5.5 -- 21525 -- 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)
2.25 2.37 100.0 0.47 -- 3.2 5.6 --

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 2.25 40.83 -- -- -- 20374 1099 99.9 -- 0.201 0.199 0.24 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 2.25 2.31 -- 86 1464 0.263 0.381 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 46.59
Anisotropic B[1][1] 0.39
Anisotropic B[1][2] 0.19
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.39
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.58
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 3.441
r_scbond_it 2.354
r_mcangle_it 1.493
r_mcbond_it 0.946
r_nbd_refined 0.224
r_gen_planes_refined 0.007
r_chiral_restr 0.118
r_dihedral_angle_4_deg 22.093
r_dihedral_angle_3_deg 17.914
r_dihedral_angle_2_deg 37.183
r_dihedral_angle_1_deg 6.395
r_angle_refined_deg 1.726
r_bond_refined_d 0.018
r_nbtor_refined 0.303
r_xyhbond_nbd_refined 0.181
r_metal_ion_refined 0.022
r_symmetry_vdw_refined 0.214
r_symmetry_hbond_refined 0.166
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2273
Nucleic Acid Atoms 0
Heterogen Atoms 34
Solvent Atoms 154

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
CCP4 (SCALA) Data Reduction (data scaling)
PHASER Structure Solution
REFMAC 5.2.0019 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.2.0019 refinement
PHASER model building