X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.2
Temperature 293.0
Details 70mM Sodium Azide, 12-15% Peg4000, 80mM Cacodylate, 200 mM Magnesium Acetate, 75mM Ammonium Sulphate, 0.2% Octyl glucoside and water exchanged for 20% MPD for freezing, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 81.77 α = 90
b = 145.21 β = 90
c = 192.88 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH -- 1998-10-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON MAX II BEAMLINE I711 0.986 MAX_II I711

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
2.4 25 99.4 -- 0.057 -- -- 90664 90115 -3.0 -3.0 --
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)
2.4 2.46 97.9 -- 0.299 -- -- --

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 2.4 24.92 -- 0.0 90664 87879 2236 99.39 0.22888 0.22888 0.22856 0.24158 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 2.397 2.459 -- 171 6219 0.285 0.302 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 12.646
Anisotropic B[1][1] -1.76
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.68
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.44
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.01
r_angle_refined_deg 1.116
r_nbd_refined 0.208
r_scbond_it 1.562
r_mcbond_it 0.365
r_mcangle_it 0.748
r_symmetry_hbond_refined 0.44
r_dihedral_angle_1_deg 4.971
r_chiral_restr 0.077
r_scangle_it 2.523
r_gen_planes_refined 0.004
r_xyhbond_nbd_refined 0.152
r_symmetry_vdw_refined 0.398
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16837
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 368

Software

Software
Software Name Purpose
REFMAC refinement version: 5.1.24
DENZO data reduction
SCALEPACK data scaling
AMoRE phasing