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Structure of Mycobacterium tuberculosis Methionine Sulfoxide Reductase A in Complex with Protein-bound Methionine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FF3 PDB ENTRY 1FF3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 277 sodium formate, sodium citrate, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.12 41.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 40.55 α = 90 b = 64.11 β = 90 c = 73.56 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 105 IMAGE PLATE RIGAKU RAXIS IV mirrors 2002-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-D 1.5418
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 1.5 50 97.6 0.06 27.8 5.8 30701 30701 17.3
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) 1.5 1.55 94.8 0.576 3.1 5.5 2915
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1FF3 1.5 48.2 30657 30657 1543 97.6 0.161 0.161 0.16 0.1611 0.177 0.1781 RANDOM 13.4
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] 0.69 0.33 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.179 r_angle_other_deg 3.781 r_scangle_it 3.714 r_scbond_it 2.39 r_mcangle_it 1.639 r_angle_refined_deg 1.529 r_mcbond_it 0.902 r_symmetry_vdw_other 0.339 r_nbd_other 0.296 r_symmetry_vdw_refined 0.278
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.179 r_angle_other_deg 3.781 r_scangle_it 3.714 r_scbond_it 2.39 r_mcangle_it 1.639 r_angle_refined_deg 1.529 r_mcbond_it 0.902 r_symmetry_vdw_other 0.339 r_nbd_other 0.296 r_symmetry_vdw_refined 0.278 r_nbd_refined 0.215 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.158 r_nbtor_other 0.107 r_chiral_restr 0.106 r_bond_refined_d 0.014 r_gen_planes_other 0.01 r_gen_planes_refined 0.007 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1380 Nucleic Acid Atoms Solvent Atoms 231 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement CrystalClear data reduction HKL-2000 data scaling AMoRE phasing