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Structure of S70A BlaC from Mycobacterium tuberculosis obtained from crystals produced in the absence of DTT
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GDN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 20% w/v PEG8000
Crystal Properties Matthews coefficient Solvent content 2.11 41.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.59 α = 101.31 b = 41.7 β = 90.02 c = 76.76 γ = 90.05
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2017-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.975 ESRF ID30B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rpim I (All) CC (Half) 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 1.19 40.89 83.8 0.068 0.991 7.4 3.6 458598
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.19 1.21 45.3 0.461 0.452 2.1 2.1
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 2GDN 1.19 40.89 121830 6608 83.8 0.18949 0.18762 0.1921 0.22377 0.2263 RANDOM 13.077
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] -0.75 -0.39 1.62 0.06 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.596 r_dihedral_angle_4_deg 20.647 r_sphericity_free 12.6 r_dihedral_angle_3_deg 11.777 r_sphericity_bonded 9.566 r_dihedral_angle_1_deg 6.486 r_rigid_bond_restr 4.18 r_scangle_other 3.201 r_scbond_it 2.931 r_scbond_other 2.931
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.596 r_dihedral_angle_4_deg 20.647 r_sphericity_free 12.6 r_dihedral_angle_3_deg 11.777 r_sphericity_bonded 9.566 r_dihedral_angle_1_deg 6.486 r_rigid_bond_restr 4.18 r_scangle_other 3.201 r_scbond_it 2.931 r_scbond_other 2.931 r_long_range_B_other 2.892 r_long_range_B_refined 2.889 r_mcangle_other 2.182 r_mcangle_it 2.178 r_angle_refined_deg 2.096 r_mcbond_it 1.816 r_mcbond_other 1.8 r_angle_other_deg 1.243 r_chiral_restr 0.128 r_bond_refined_d 0.018 r_gen_planes_refined 0.013 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4076 Nucleic Acid Atoms Solvent Atoms 187 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing