X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch Crystallisation
pH 5.4
Temperature 279.0
Details 0.01M Tris/HCl, acetic acid or HCl, pH 5.4, Batch crystallisation, temperature 279K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 127.19 α = 90
b = 127.19 β = 90
c = 144.85 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 277
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Pt-coated quartz 1993-12-01
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SRS BEAMLINE PX9.6 0.87 SRS PX9.6

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
2.6 30 97.7 0.057 -- -- 5.6 36323 36323 0.0 0.0 57.8
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)
2.6 2.67 85.6 0.248 -- 2.7 2.7 2290

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
-- 2.6 30.0 0.0 0.0 34433 34433 1808 97.61 0.187 0.187 0.185 0.223 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 2.6 2.67 2172 118 -- 0.237 0.317 -- 86.12
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 44.391
Anisotropic B[1][1] -0.58
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.58
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.16
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_other 0.003
r_xyhbond_nbd_refined 0.178
r_symmetry_vdw_refined 0.099
r_angle_other_deg 0.933
r_dihedral_angle_1_deg 4.7
r_scbond_it 2.704
r_nbd_other 0.235
r_angle_refined_deg 1.942
r_nbd_refined 0.254
r_scangle_it 4.632
r_gen_planes_refined 0.008
r_symmetry_vdw_other 0.2
r_bond_refined_d 0.02
r_mcbond_it 1.077
r_mcangle_it 2.016
r_symmetry_hbond_refined 0.213
r_xyhbond_nbd_other 0.164
r_dihedral_angle_3_deg 22.107
r_chiral_restr 0.121
r_bond_other_d 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5216
Nucleic Acid Atoms 0
Heterogen Atoms 11
Solvent Atoms 206

Software

Software
Software Name Purpose
MOSFLM data reduction
ROTAVATA data reduction
MLPHARE phasing
REFMAC refinement version: 5.0
CCP4 data scaling version: (AGROVATA
ROTAVATA data scaling