☰ Navigation Tabs
Crystal structure of M. tuberculosis beta carbonic anhydrase, Rv3588c, tetrameric form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YM3 PDB entry 1ym3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 298 PEG3350, NaSCN, Glycerol, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.3 45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.884 α = 90 b = 70.302 β = 93.41 c = 84.361 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 2004-10-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 1.094 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 2.2 30 0.058 20.1 3.7 38347 38347
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 2.2 2.28 97.7 0.36 2.69 3.2
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 1ym3 2.2 30 38347 38347 2016 99.44 0.16453 0.16192 0.1626 0.21419 0.2135 RANDOM 38.952
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] 0.13 0.51 -0.18 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.316 r_dihedral_angle_4_deg 15.926 r_dihedral_angle_3_deg 14.47 r_dihedral_angle_1_deg 6.042 r_scangle_it 3.269 r_scbond_it 2.052 r_angle_refined_deg 1.367 r_mcangle_it 1.144 r_mcbond_it 0.608 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.316 r_dihedral_angle_4_deg 15.926 r_dihedral_angle_3_deg 14.47 r_dihedral_angle_1_deg 6.042 r_scangle_it 3.269 r_scbond_it 2.052 r_angle_refined_deg 1.367 r_mcangle_it 1.144 r_mcbond_it 0.608 r_nbtor_refined 0.299 r_nbd_refined 0.225 r_symmetry_vdw_refined 0.205 r_symmetry_hbond_refined 0.166 r_metal_ion_refined 0.156 r_xyhbond_nbd_refined 0.155 r_chiral_restr 0.09 r_symmetry_metal_ion_refined 0.074 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 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_other r_symmetry_vdw_other r_symmetry_hbond_other 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 6160 Nucleic Acid Atoms Solvent Atoms 311 Heterogen Atoms 23
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling PHASER phasing