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X-ray crystal structure of RV0760c from Mycobacterium tuberculosis at 1.82 Angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2A15 PDB entry 2A15
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 295 8% PEG 8000, 0.1M Sodium acetate, 0.02% LDAO, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.68 54.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.313 α = 90 b = 80.12 β = 90 c = 86.231 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 ADSC QUANTUM 210 2005-12-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.11587 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.82 50 96.2 0.035 26.4 3.2 28871 28871
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.82 1.89 88.6 0.471 2.27 2.8
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 (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 2A15 1.82 50 28523 27402 1447 96.07 0.20364 0.20198 0.199 0.23541 0.2098 RANDOM 31.979
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] -0.57 -0.88 1.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.328 r_dihedral_angle_4_deg 21.278 r_dihedral_angle_3_deg 12.758 r_dihedral_angle_1_deg 5.976 r_scangle_it 3.249 r_scbond_it 2.14 r_mcangle_it 1.636 r_angle_refined_deg 1.455 r_mcbond_it 1.073 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.328 r_dihedral_angle_4_deg 21.278 r_dihedral_angle_3_deg 12.758 r_dihedral_angle_1_deg 5.976 r_scangle_it 3.249 r_scbond_it 2.14 r_mcangle_it 1.636 r_angle_refined_deg 1.455 r_mcbond_it 1.073 r_nbtor_refined 0.308 r_symmetry_vdw_refined 0.204 r_nbd_refined 0.203 r_symmetry_hbond_refined 0.133 r_xyhbond_nbd_refined 0.119 r_chiral_restr 0.103 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2010 Nucleic Acid Atoms Solvent Atoms 183 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing