X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Batch
pH 4.7
Temperature 295.0
Details HEWL co-crystallized with cisplatin in 1 mL 10% sodium chloride + 1 ml 0.04 M sodium acetate, pH 4.7, BATCH, temperature 295K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 78.67 α = 90
b = 78.67 β = 90
c = 38.07 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 295
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD APEX II CCD -- 2012-01-28
Diffraction Radiation
Monochromator Protocol
confocal mirror optics 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
2.4 55.63 50.0 0.151 -- -- 10.8 8952 4770 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)
2.4 2.44 100.0 0.623 -- 3.9 8.9 283

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
MIR 2.4 55.629 2.0 4.0 8952 4770 233 99.9 -- 0.1773 0.17563 0.20955 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 2.4 2.462 -- 14 283 0.177 0.18 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.371
Anisotropic B[1][1] -0.49
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.98
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 39.56
r_bond_refined_d 0.012
r_dihedral_angle_4_deg 18.703
r_angle_other_deg 0.949
r_dihedral_angle_3_deg 15.778
r_angle_refined_deg 1.417
r_chiral_restr 0.081
r_dihedral_angle_1_deg 6.285
r_gen_planes_other 0.001
r_bond_other_d 0.001
r_gen_planes_refined 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1001
Nucleic Acid Atoms 0
Heterogen Atoms 13
Solvent Atoms 24

Software

Software
Software Name Purpose
APEX data collection
PHASER phasing
REFMAC refinement version: 5.6.0117
EVAL15 data reduction
EVAL15 data scaling