X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 277.0
Details Inhibitor soaked into crystal generated according to Kim et al. (1996) Cell, 87, 343-355, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 225.45 α = 90
b = 225.45 β = 90
c = 75.89 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IIC MIRRORS --
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS + Ni FILTER SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200H 1.5418 -- --

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 40 96.3 0.052 -- -- -- 22723 21878 -- 1.0 --
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)
2.6 2.69 92.0 0.238 -- 4.5 -- 2074

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 2.6 20.0 -- 1.0 20724 20724 1115 100.0 0.18508 0.18508 0.18318 0.2195 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 2.667 -- 72 1441 0.266 0.36 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.569
Anisotropic B[1][1] -1.0
Anisotropic B[1][2] -0.5
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.51
RMS Deviations
Key Refinement Restraint Deviation
r_mcbond_it 1.632
r_xyhbond_nbd_refined 0.173
r_bond_refined_d 0.016
r_chiral_restr 0.11
r_symmetry_vdw_refined 0.256
r_symmetry_hbond_refined 0.232
r_nbd_refined 0.237
r_mcangle_it 3.305
r_gen_planes_refined 0.006
r_angle_refined_deg 1.741
r_dihedral_angle_1_deg 6.551
r_scangle_it 8.583
r_scbond_it 5.492
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2732
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 107

Software

Software
Software Name Purpose
DENZO data reduction
TRUNCATE data reduction
REFMAC refinement
CCP4 data scaling version: (TRUNCATE)