☰ Navigation Tabs
Tagless BtuM in complex with hydroxycobalamin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6FFV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.2 M Potassium chloride, 0.1 M Sodium citrate pH 5.5, 37 % v/v Pentaerythritol propoxylate (PO/OH).
Crystal Properties Matthews coefficient Solvent content 2.36 47.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.982 α = 90 b = 95.982 β = 90 c = 77.291 γ = 120
Symmetry Space Group P 32 2 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 PIXEL DECTRIS PILATUS 6M 2021-04-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.98435 Diamond I24
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.9 83.123 75.6 0.066 0.093 0.066 0.991 15.5 1.9 17803 27.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 1.94 1.7 1.013 1.433 1.013 0.291 0.3 1.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.26 83.123 15825 782 80.592 0.183 0.1816 0.1552 0.202 0.1839 36.694
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] -20.249 -20.249 40.498
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.141 r_dihedral_angle_3_deg 15.56 r_dihedral_angle_2_deg 12.629 r_rigid_bond_restr 9.228 r_lrange_it 7.927 r_scangle_it 6.068 r_dihedral_angle_1_deg 5.801 r_mcangle_it 4.931 r_scbond_it 4.468 r_mcbond_it 3.273
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.141 r_dihedral_angle_3_deg 15.56 r_dihedral_angle_2_deg 12.629 r_rigid_bond_restr 9.228 r_lrange_it 7.927 r_scangle_it 6.068 r_dihedral_angle_1_deg 5.801 r_mcangle_it 4.931 r_scbond_it 4.468 r_mcbond_it 3.273 r_angle_refined_deg 1.738 r_nbtor_refined 0.323 r_nbd_refined 0.234 r_symmetry_nbd_refined 0.214 r_symmetry_xyhbond_nbd_refined 0.162 r_xyhbond_nbd_refined 0.118 r_chiral_restr 0.093 r_bond_refined_d 0.013 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1348 Nucleic Acid Atoms Solvent Atoms 36 Heterogen Atoms 196
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing Coot model building