X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch
pH 4.7
Temperature 295.0
Details 49 mg HEWL + 3.7 mg carboplatin in 1 mL 0.04 M sodium acetate + 1 mL 10% sodium chloride, with paratone as cryoprotectant, pH 4.7, BATCH, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.51 α = 90
b = 78.51 β = 90
c = 37.44 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RIGAKU RAXIS IV Osmic Confocal Max-Flux, blue configuration 2011-02-17
Diffraction Radiation
Monochromator Protocol
NONE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU MICROMAX-007 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
1.7 55.51 92.9 0.084 0.084 -- 18.99 13378 12432 4.0 2.0 31.0
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)
1.7 1.76 98.0 0.395 -- 4.2 14.01 13378

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 1.7 55.51 2.0 4.0 13378 12432 642 97.73 0.2116 0.20291 0.20001 0.25855 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 1.7 1.744 -- 35 726 0.273 0.319 -- 79.69
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 31.03
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.496
r_scbond_it 2.948
r_mcangle_it 1.696
r_mcbond_it 1.004
r_gen_planes_refined 0.008
r_chiral_restr 0.137
r_dihedral_angle_4_deg 18.217
r_dihedral_angle_3_deg 13.652
r_dihedral_angle_2_deg 36.359
r_dihedral_angle_1_deg 6.703
r_angle_refined_deg 1.677
r_bond_refined_d 0.021
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1001
Nucleic Acid Atoms 0
Heterogen Atoms 41
Solvent Atoms 125

Software

Computing
Computing Package Purpose
CrystalClear Data Collection
d*TREK Data Reduction (intensity integration)
d*TREK Data Reduction (data scaling)
PHASER MOLECULAR REPLACEMENT Structure Solution
REFMAC 5.5.0110 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.5.0110 refinement
PHASER version: MOLECULAR REPLACEMENT model building
CrystalClear data collection