X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 298.0
Details 100 mM MES buffer, pH 6.5, containing 2.5 M ammonium sulphate, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 135.91 α = 90
b = 135.91 β = 90
c = 50.37 γ = 120
Symmetry
Space Group P 62

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2004-12-15
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-3 0.931 ESRF ID14-3

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
2.1 50.38 100.0 0.074 -- -- 7.5 34537 31826 -- -- 35.0
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)
2.1 2.21 100.0 0.363 -- 4.8 7.2 --

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
MIR 2.1 50.38 -- -- -- 29735 1586 99.96 -- 0.20515 0.20172 0.27043 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 2.1 2.155 -- 98 2186 0.256 0.334 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.248
Anisotropic B[1][1] -0.28
Anisotropic B[1][2] -0.14
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.28
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.41
RMS Deviations
Key Refinement Restraint Deviation
r_nbd_refined 0.223
r_symmetry_vdw_refined 0.229
r_dihedral_angle_2_deg 34.433
r_gen_planes_refined 0.004
r_mcbond_it 0.816
r_xyhbond_nbd_refined 0.179
r_nbtor_refined 0.3
r_mcangle_it 1.392
r_dihedral_angle_1_deg 6.351
r_symmetry_hbond_refined 0.228
r_bond_refined_d 0.011
r_chiral_restr 0.111
r_scbond_it 1.94
r_dihedral_angle_4_deg 17.814
r_scangle_it 3.22
r_angle_refined_deg 1.418
r_dihedral_angle_3_deg 17.929
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3488
Nucleic Acid Atoms 0
Heterogen Atoms 52
Solvent Atoms 438

Software

Software
Software Name Purpose
REFMAC refinement version: 5.2.0005
ADSC data collection version: Quantum
MOSFLM data reduction
SCALA data scaling
MLPHARE phasing