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Trypanosoma cruzi Malic Enzyme in complex with inhibitor (MEC013)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GZ3 1GZ3, 3WJA, 1GQ2 experimental model PDB 3WJA 1GZ3, 3WJA, 1GQ2 experimental model PDB 1GQ2 1GZ3, 3WJA, 1GQ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 0.1 M HEPES, 1.2-1.4 M Na3-Citrate
Crystal Properties Matthews coefficient Solvent content 2.56 52.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.519 α = 90 b = 73.519 β = 90 c = 233.713 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 2M 2018-03-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE W01B-MX2 1.459 LNLS W01B-MX2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.14 47.54 99.9 0.13 0.136 0.04 0.998 13 11.1 36499
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.14 2.2 98.8 1.054 1.18 0.509 0.53 4.8
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 FREE R-VALUE 1GZ3, 3WJA, 1GQ2 2.14 47.54 34556 1840 99.84 0.2076 0.2059 0.213 0.2388 0.2486 RANDOM 40.258
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] 1.45 1.45 -2.9
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.714 r_dihedral_angle_4_deg 18.915 r_dihedral_angle_3_deg 16.477 r_dihedral_angle_1_deg 6.732 r_angle_refined_deg 1.665 r_angle_other_deg 1.323 r_chiral_restr 0.08 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.714 r_dihedral_angle_4_deg 18.915 r_dihedral_angle_3_deg 16.477 r_dihedral_angle_1_deg 6.732 r_angle_refined_deg 1.665 r_angle_other_deg 1.323 r_chiral_restr 0.08 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4268 Nucleic Acid Atoms Solvent Atoms 74 Heterogen Atoms 61
Software Software Software Name Purpose XDS data reduction Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction MOLREP phasing