1OXR

Aspirin induces its Anti-inflammatory effects through its specific binding to Phospholipase A2: Crystal structure of the complex formed between Phospholipase A2 and Aspirin at 1.9A resolution


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details 10mm Sodium Phosphate buffer, 2mm Calciun chloride, 35% ethanol, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.63 α = 90
b = 42.63 β = 90
c = 65.14 γ = 90
Symmetry
Space Group P 41

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 290
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MARRESEARCH Mirrors 2003-02-19
Diffraction Radiation
Monochromator Protocol
Mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU300 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
1.9 20 97.1 -- 0.099 -- 7.8 -- 8708 0.0 0.0 22.1
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)
1.9 1.95 75.6 -- 0.223 2.1 -- --

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 1.93 19.35 -- -- 8708 7842 866 100.0 -- 0.17748 0.175 0.204 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 1.932 1.982 -- 60 554 0.2 0.274 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.277
Anisotropic B[1][1] 0.2
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.2
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.41
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.005
r_bond_other_d 0.001
r_dihedral_angle_2_deg 17.627
r_nbd_refined 0.308
r_chiral_restr 0.122
r_mcbond_it 0.832
r_dihedral_angle_3_deg 17.509
r_scbond_it 2.413
r_angle_refined_deg 1.543
r_mcangle_it 1.635
r_angle_other_deg 0.821
r_symmetry_vdw_refined 0.206
r_symmetry_vdw_other 0.292
r_symmetry_hbond_refined 0.107
r_bond_refined_d 0.011
r_nbd_other 0.203
r_xyhbond_nbd_refined 0.145
r_gen_planes_other 0.003
r_scangle_it 3.767
r_dihedral_angle_1_deg 2.958
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Luzzati Sigma A (Observed) 0.22
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 913
Nucleic Acid Atoms 0
Heterogen Atoms 14
Solvent Atoms 105

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0
MAR345 data collection
SCALEPACK data scaling
AMoRE phasing