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Structure of Malate Dehydrogenase from Mycobacterium tuberculosis
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293.15 Malate dehydrogenase crystals grew in 0.2M Lithium Sulfate monohydrate, 0.1M Tris-HCl pH=8.5, 30% w/v PEG 4000 in the 50/50 protein/reservoir-ratio drop of 1 microlitre..
Crystal Properties Matthews coefficient Solvent content 2.37 48.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.606 α = 90 b = 79.307 β = 90 c = 155.513 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 PIXEL DECTRIS PILATUS 6M-F 2012-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.98 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.5 77.76 99.44 13.57 3.3 103872
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.5 77.76 98672 5200 99.4 0.1673 0.16595 0.19274 0.1951 RANDOM 20.321
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] -0.21 1.33 -1.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.796 r_dihedral_angle_4_deg 15.993 r_dihedral_angle_3_deg 10.945 r_dihedral_angle_1_deg 6.235 r_long_range_B_refined 6.222 r_long_range_B_other 6.07 r_scangle_other 4.804 r_scbond_it 3.253 r_scbond_other 3.229 r_mcangle_it 2.704
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.796 r_dihedral_angle_4_deg 15.993 r_dihedral_angle_3_deg 10.945 r_dihedral_angle_1_deg 6.235 r_long_range_B_refined 6.222 r_long_range_B_other 6.07 r_scangle_other 4.804 r_scbond_it 3.253 r_scbond_other 3.229 r_mcangle_it 2.704 r_mcangle_other 2.704 r_angle_refined_deg 2.066 r_mcbond_it 1.956 r_mcbond_other 1.951 r_angle_other_deg 1.436 r_chiral_restr 0.129 r_bond_refined_d 0.022 r_gen_planes_refined 0.012 r_bond_other_d 0.007 r_gen_planes_other 0.006 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4728 Nucleic Acid Atoms Solvent Atoms 473 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement