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1.54 A CRYSTAL STRUCTURE OF RV3628, MYCOBACTERIUM TUBERCULOSIS INORGANIC PYROPHOSPHATASE (PPASE) AT PH7.0
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SXV PDB ENTRY 1SXV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 1.8M NAKPO4 PH 7.0
Crystal Properties Matthews coefficient Solvent content 3.6 65.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 96.902 α = 90 b = 96.902 β = 90 c = 103.312 γ = 120
Symmetry Space Group P 63 2 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 CCD ADSC CCD SAGITALLY FOCUSING GE(220) AND A MULTILAYER 2004-04-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.54 84 100 0.08 30.24 12.6 537840
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 1.54 1.58 100 0.6 4.3 8.5
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 1SXV 1.54 84.52 40559 2153 99.8 0.157 0.156 0.1718 0.17 0.1852 RANDOM 16.5
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] 1.32 0.66 1.32 -1.99
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.945 r_dihedral_angle_3_deg 11.272 r_scbond_it 10.726 r_dihedral_angle_4_deg 10.348 r_scangle_it 8.821 r_dihedral_angle_1_deg 5.855 r_mcangle_it 2.946 r_mcbond_it 1.687 r_angle_refined_deg 1.647 r_angle_other_deg 0.917
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.945 r_dihedral_angle_3_deg 11.272 r_scbond_it 10.726 r_dihedral_angle_4_deg 10.348 r_scangle_it 8.821 r_dihedral_angle_1_deg 5.855 r_mcangle_it 2.946 r_mcbond_it 1.687 r_angle_refined_deg 1.647 r_angle_other_deg 0.917 r_symmetry_vdw_other 0.353 r_nbd_refined 0.26 r_nbd_other 0.206 r_nbtor_refined 0.193 r_xyhbond_nbd_refined 0.167 r_symmetry_hbond_refined 0.147 r_chiral_restr 0.112 r_symmetry_vdw_refined 0.087 r_nbtor_other 0.084 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 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 1280 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing