X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 4.7
Temperature 277.0
Details 49 mg HEWL (3.2 mM), 3 mg cisplatin (10 mM), 3.7 mg carboplatin (10 mM) in 0.04 M sodium acetate buffer (462.5 uL) + 10% sodium chloride precipitant (462.5 uL) + 1 mM DMSO (75 uL), pH 4.7, BATCH, temperature 277K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.86 α = 90
b = 79.86 β = 90
c = 37.8 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 300
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD APEX II CCD -- 2012-05-25
Diffraction Radiation
Monochromator Protocol
confocal mirror optics SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE BRUKER AXS MICROSTAR-H 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
2.9 56.47 99.8 0.38 -- -- 23.2 2820 2816 4.0 2.0 --
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)
2.9 2.97 100.0 0.627 -- 3.5 25.7 --

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 2.9 56.47 2.0 4.0 2820 2816 138 99.76 -- 0.17673 0.17378 0.23407 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 2.9 2.975 -- 5 160 0.31 0.531 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 24.617
Anisotropic B[1][1] -0.8
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.8
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.61
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 42.162
r_gen_planes_refined 0.004
r_gen_planes_other 0.001
r_dihedral_angle_4_deg 18.313
r_angle_refined_deg 1.311
r_bond_refined_d 0.01
r_chiral_restr 0.071
r_bond_other_d 0.001
r_angle_other_deg 0.874
r_dihedral_angle_1_deg 6.144
r_dihedral_angle_3_deg 14.764
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1001
Nucleic Acid Atoms 0
Heterogen Atoms 10
Solvent Atoms 5

Software

Software
Software Name Purpose
APEX data collection
PHASER phasing version: MR
REFMAC refinement version: 5.6.0117
APEX data reduction