4NSI

Carboplatin binding to HEWL in 20% propanol, 20% PEG 4000 at pH5.6


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.629820mg of HEWL (0.6mM) was dissolved in 1ml distilled water. 1.4mg of carboplatin (1.8mM) was added along with 75 l DMSO. 2 l of this was mixed with 2 l of resevoir solution 20% PEG 4000 at pH5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
1.9436.62

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.713α = 90
b = 77.713β = 90
c = 36.84γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDAPEX II CCD2013-07-31MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODEBRUKER AXS MICROSTAR-H1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.333.3153.60.2957.57.89485508642
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.651000.5051.57.2

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2W1Y2.333.31249485508627099.930.2240.223520.220250.28489RANDOM29.538
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
-0.48-0.480.96
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.089
r_dihedral_angle_4_deg15.927
r_dihedral_angle_3_deg14.072
r_dihedral_angle_1_deg6.73
r_long_range_B_refined5.116
r_long_range_B_other5.113
r_scangle_other3.168
r_mcangle_other2.715
r_mcangle_it2.711
r_mcbond_it1.653
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.089
r_dihedral_angle_4_deg15.927
r_dihedral_angle_3_deg14.072
r_dihedral_angle_1_deg6.73
r_long_range_B_refined5.116
r_long_range_B_other5.113
r_scangle_other3.168
r_mcangle_other2.715
r_mcangle_it2.711
r_mcbond_it1.653
r_scbond_it1.65
r_scbond_other1.639
r_mcbond_other1.637
r_angle_refined_deg1.373
r_angle_other_deg0.846
r_chiral_restr0.076
r_bond_refined_d0.01
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1001
Nucleic Acid Atoms
Solvent Atoms37
Heterogen Atoms31

Software

Software
Software NamePurpose
APEXdata collection
PHASERphasing
REFMACrefinement
SAINTdata reduction
APEXdata reduction