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CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS PHOSPHORIBOSYL ISOMERASE WITH BOUND RCDRP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VZW PDB ENTRY 1VZW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.7 32% PEG 6000, 0.1M SODIUM CITRATE PH 5.7, 5MM RCDRP.
Crystal Properties Matthews coefficient Solvent content 2.23 44.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.98 α = 90 b = 121.07 β = 95.6 c = 81.14 γ = 90
Symmetry Space Group P 1 21 1
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 MARRESEARCH 2004-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 2.4 30 99.3 0.16 4.9 3.8 34306 -3 33
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 2.4 2.5 95.1 0.6 2.1 3.7
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 1VZW 2.4 30 32627 1731 99.87 0.21663 0.21281 0.2226 0.28726 0.2911 RANDOM 29.899
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] 1.15 0.3 -1.21 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.744 r_dihedral_angle_4_deg 20.345 r_dihedral_angle_3_deg 16.758 r_dihedral_angle_1_deg 6.539 r_scangle_it 1.587 r_angle_refined_deg 1.234 r_scbond_it 1.009 r_angle_other_deg 0.773 r_mcangle_it 0.623 r_mcbond_it 0.531
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.744 r_dihedral_angle_4_deg 20.345 r_dihedral_angle_3_deg 16.758 r_dihedral_angle_1_deg 6.539 r_scangle_it 1.587 r_angle_refined_deg 1.234 r_scbond_it 1.009 r_angle_other_deg 0.773 r_mcangle_it 0.623 r_mcbond_it 0.531 r_symmetry_vdw_other 0.26 r_symmetry_hbond_refined 0.21 r_nbd_refined 0.198 r_nbd_other 0.179 r_xyhbond_nbd_refined 0.172 r_symmetry_vdw_refined 0.166 r_nbtor_refined 0.164 r_nbtor_other 0.089 r_chiral_restr 0.066 r_bond_refined_d 0.01 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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 6920 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms 107
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing