☰ Navigation Tabs
INHIBITION OF PHOSPHOLIPASE A2 (PLA2) BY (2-CARBAMOYLMETHYL-5-PROPYL-OCTAHYDRO-INDOL-7-YL)-ACETIC ACID (INDOLE): CRYSTAL STRUCTURE OF THE COMPLEX FORMED BETWEEN PLA2 FROM RUSSELL'S VIPER AND INDOLE AT 1.8 RESOLUTION
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FB2 PDB ENTRY 1FB2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 290 1.2 Ammonium sulphate buffer with 20mm sodium cacodylate, 50mm calcium chloride, 3% dioxane, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.4 48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.02 α = 90 b = 88.442 β = 90 c = 78.106 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 200 IMAGE PLATE MARRESEARCH Mirror 2001-10-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X31 0.91 EMBL/DESY, HAMBURG X31
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 20 90.2 0.031 39.9 6.5 21615 21615 23.59
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.86 92.4 0.083 2.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1FB2 1.8 19.21 21615 21615 1166 100 0.19059 0.19059 0.1881 0.23816 RANDOM 24.094
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] -0.86 -0.41 1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 18.185 r_dihedral_angle_1_deg 3.694 r_scangle_it 3.141 r_scbond_it 1.948 r_angle_refined_deg 1.861 r_mcangle_it 1.404 r_angle_other_deg 1.047 r_mcbond_it 0.747 r_nbd_refined 0.352 r_symmetry_hbond_refined 0.239
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 18.185 r_dihedral_angle_1_deg 3.694 r_scangle_it 3.141 r_scbond_it 1.948 r_angle_refined_deg 1.861 r_mcangle_it 1.404 r_angle_other_deg 1.047 r_mcbond_it 0.747 r_nbd_refined 0.352 r_symmetry_hbond_refined 0.239 r_nbd_other 0.217 r_symmetry_vdw_refined 0.216 r_symmetry_vdw_other 0.214 r_symmetry_hbond_other 0.202 r_xyhbond_nbd_refined 0.186 r_chiral_restr 0.085 r_xyhbond_nbd_other 0.016 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbtor_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1887 Nucleic Acid Atoms Solvent Atoms 284 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling AMoRE phasing