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Crystal Structure of carbonic anhydrase RV3588c from Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I6O PDB entry 1I6O and 1DDZ experimental model PDB 1DDZ PDB entry 1I6O and 1DDZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 MgCl2, PEG 400, HEPES, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 1.9 34.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.377 α = 90 b = 56.377 β = 90 c = 104.192 γ = 90
Symmetry Space Group P 41 21 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 IMAGE PLATE MARRESEARCH Vertically focusing cylindrical mirror 2004-05-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 1.085 MAX II I711
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 1.75 26.2 83.3 0.044 23.35 4.7 13934 13934
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 1.75 1.81 80.1 0.298 5 4.4
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 1I6O and 1DDZ 1.75 26.2 13934 13934 734 82.92 0.18134 0.18134 0.17876 0.1906 0.22946 0.2358 RANDOM 23.207
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] 0.36 0.36 -0.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.556 r_scangle_it 4.272 r_scbond_it 2.682 r_mcangle_it 1.753 r_angle_refined_deg 1.484 r_mcbond_it 0.98 r_angle_other_deg 0.874 r_symmetry_vdw_refined 0.619 r_symmetry_vdw_other 0.322 r_nbd_other 0.229
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.556 r_scangle_it 4.272 r_scbond_it 2.682 r_mcangle_it 1.753 r_angle_refined_deg 1.484 r_mcbond_it 0.98 r_angle_other_deg 0.874 r_symmetry_vdw_refined 0.619 r_symmetry_vdw_other 0.322 r_nbd_other 0.229 r_nbd_refined 0.208 r_xyhbond_nbd_refined 0.184 r_symmetry_hbond_refined 0.176 r_chiral_restr 0.09 r_nbtor_other 0.08 r_bond_refined_d 0.016 r_gen_planes_other 0.009 r_gen_planes_refined 0.008 r_metal_ion_refined 0.007 r_bond_other_d 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_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 1435 Nucleic Acid Atoms Solvent Atoms 130 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing