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Crystal Structure of Leshmaniasis major Farnesyl diphosphate synthase in complex with 3-FLUORO-1-(2-HYDROXY-2,2-DIPHOSPHONOETHYL)PYRIDINIUM and Mg2+
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 PEG 3350 15-25%, 100 mM MES pH 6.5, 100-200 mM CaAcetate, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.56 51.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.168 α = 90 b = 143.743 β = 90 c = 194.333 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RAYONIX MX-225 KB Rh, Pt, ULE 2009-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97929 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.3 115.47 91.2 0.106 14.1 5.6 69237
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 96.5 0.675 4.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 2.3 115.47 67927 3410 89.63 0.2352 0.2331 0.2312 0.276 0.2731 RANDOM 48.821
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] -2.35 5.06 -2.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.352 r_dihedral_angle_3_deg 16.815 r_dihedral_angle_4_deg 14.609 r_dihedral_angle_1_deg 5.084 r_scangle_it 2.074 r_scbond_it 1.324 r_angle_refined_deg 1.258 r_mcangle_it 0.957 r_mcbond_it 0.515 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.352 r_dihedral_angle_3_deg 16.815 r_dihedral_angle_4_deg 14.609 r_dihedral_angle_1_deg 5.084 r_scangle_it 2.074 r_scbond_it 1.324 r_angle_refined_deg 1.258 r_mcangle_it 0.957 r_mcbond_it 0.515 r_nbtor_refined 0.298 r_nbd_refined 0.206 r_symmetry_hbond_refined 0.204 r_metal_ion_refined 0.189 r_symmetry_vdw_refined 0.171 r_xyhbond_nbd_refined 0.167 r_chiral_restr 0.098 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11389 Nucleic Acid Atoms Solvent Atoms 262 Heterogen Atoms 113
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data scaling AMoRE phasing