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 462.5 uL 0.04 M sodium acetate + 75 uL DMSO + 462.5 uL 10% sodium chloride, with glycerol as cryoprotectant, pH 4.7, BATCH, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.85 α = 90
b = 78.85 β = 90
c = 37.04 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 Bruker Platinum 135 Incoatec Helios confocal optics 2011-03-07
Diffraction Radiation
Monochromator Protocol
NONE SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE BRUKER AXS MICROSTAR 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
1.69 55.75 94.4 0.0176 0.0176 -- 26.69 13494 12740 4.0 2.0 13.2
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)
1.69 1.79 99.4 0.156 -- 10.7 9.88 13494

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 1.69 55.75 2.0 4.0 13494 12740 664 99.33 -- 0.16966 0.16666 0.23277 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 1.69 1.738 -- 48 898 0.132 0.177 -- 98.34
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 15.817
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] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_it 4.882
r_scbond_it 3.38
r_mcangle_it 2.028
r_mcbond_it 1.281
r_gen_planes_refined 0.011
r_chiral_restr 0.168
r_dihedral_angle_4_deg 18.002
r_dihedral_angle_3_deg 12.381
r_dihedral_angle_2_deg 38.772
r_dihedral_angle_1_deg 6.508
r_angle_refined_deg 2.04
r_bond_refined_d 0.023
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1001
Nucleic Acid Atoms 0
Heterogen Atoms 120
Solvent Atoms 112

Software

Computing
Computing Package Purpose
PROTEUM PLUS Data Collection
DENZO Data Reduction (intensity integration)
SCALEPACK 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
PROTEUM version: PLUS data collection