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Structure of TR from Leishmania infantum in complex with a diarylpirrole-based inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JK6 PDB ENTRY 2JK6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.1 M TRIS, 1.6 M AMMONIUM SULPHATE PH 8.5
Crystal Properties Matthews coefficient Solvent content 4.6 74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 102.561 α = 90 b = 102.561 β = 90 c = 191.985 γ = 90
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 MARMOSAIC 225 mm CCD 2011-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 3.2 50 100 0.12 16.7 7.2 32789 2
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 3.2 3.31 100 0.47 3.5 7.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2JK6 3.2 50 30966 1652 99.91 0.24107 0.23915 0.2345 0.27676 0.2643 RANDOM 73.108
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] 4.14 4.14 -8.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.577 r_dihedral_angle_3_deg 16.272 r_dihedral_angle_4_deg 12.709 r_dihedral_angle_1_deg 4.373 r_angle_refined_deg 1.352 r_scangle_it 0.566 r_mcangle_it 0.502 r_scbond_it 0.313 r_mcbond_it 0.276 r_chiral_restr 0.112
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.577 r_dihedral_angle_3_deg 16.272 r_dihedral_angle_4_deg 12.709 r_dihedral_angle_1_deg 4.373 r_angle_refined_deg 1.352 r_scangle_it 0.566 r_mcangle_it 0.502 r_scbond_it 0.313 r_mcbond_it 0.276 r_chiral_restr 0.112 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7388 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 318
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling MOLREP phasing