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_scangle_it 2.523
r_bond_refined_d 0.01
r_angle_refined_deg 1.116
r_dihedral_angle_1_deg 4.971
r_chiral_restr 0.077
r_gen_planes_refined 0.004
r_nbd_refined 0.208
r_xyhbond_nbd_refined 0.152
r_symmetry_vdw_refined 0.398
r_symmetry_hbond_refined 0.44
r_mcbond_it 0.365
r_mcangle_it 0.748
r_scbond_it 1.562
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 16836
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 368

Software

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
AMORE Structure Solution
REFMAC 5.1.24 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.1.24 refinement