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

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1LFFPDB entry 1LFF

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP629310mm Sodium Phosphate buffer, 2mm Calciun chloride, 35% ethanol, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.245.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.627α = 90
b = 42.627β = 90
c = 65.137γ = 90
Symmetry
Space GroupP 41

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray290IMAGE PLATEMARRESEARCHMirrors2003-02-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU3001.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
11.92097.10.09916.77.8870822.1
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.91.9575.60.2232.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 1LFF1.9319.35870878428661000.177480.1750.204RANDOM22.277
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]
0.20.2-0.41
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg17.627
r_dihedral_angle_3_deg17.509
r_scangle_it3.767
r_dihedral_angle_1_deg2.958
r_scbond_it2.413
r_mcangle_it1.635
r_angle_refined_deg1.543
r_mcbond_it0.832
r_angle_other_deg0.821
r_nbd_refined0.308
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg17.627
r_dihedral_angle_3_deg17.509
r_scangle_it3.767
r_dihedral_angle_1_deg2.958
r_scbond_it2.413
r_mcangle_it1.635
r_angle_refined_deg1.543
r_mcbond_it0.832
r_angle_other_deg0.821
r_nbd_refined0.308
r_symmetry_vdw_other0.292
r_symmetry_vdw_refined0.206
r_nbd_other0.203
r_xyhbond_nbd_refined0.145
r_chiral_restr0.122
r_symmetry_hbond_refined0.107
r_bond_refined_d0.011
r_gen_planes_refined0.005
r_gen_planes_other0.003
r_bond_other_d0.001
r_dihedral_angle_4_deg
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms913
Nucleic Acid Atoms
Solvent Atoms105
Heterogen Atoms14

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
SCALEPACKdata scaling
AMoREphasing