☰ Navigation Tabs
Crystal structure of putative cobalamin synthesis related protein (CobF) from Corynebacterium diphtheriae
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 291 3.5M Ammonium Chloride, 0.1 M Sodium Acetate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.1 41.36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.104 α = 90 b = 80.845 β = 90 c = 76.976 γ = 90
Symmetry Space Group C 2 2 21
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 QUANTUM 315 mirrors 2006-03-21 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9791, 0.9792 APS 19-BM
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 1.6 30 99.9 0.092 14.5 5.8 33440 33406
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 1.6 1.63 0.47 2.1 4.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.6 30 31814 30151 1613 99.05 0.17327 0.17197 0.177 0.19776 0.209 RANDOM 13.009
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] -0.67 0.4 0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.25 r_dihedral_angle_4_deg 16.06 r_dihedral_angle_3_deg 12.784 r_dihedral_angle_1_deg 5.702 r_scangle_it 3.25 r_scbond_it 2.268 r_angle_refined_deg 1.477 r_mcangle_it 1.352 r_mcbond_it 1.14 r_angle_other_deg 0.919
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.25 r_dihedral_angle_4_deg 16.06 r_dihedral_angle_3_deg 12.784 r_dihedral_angle_1_deg 5.702 r_scangle_it 3.25 r_scbond_it 2.268 r_angle_refined_deg 1.477 r_mcangle_it 1.352 r_mcbond_it 1.14 r_angle_other_deg 0.919 r_mcbond_other 0.268 r_symmetry_hbond_refined 0.248 r_symmetry_vdw_other 0.238 r_symmetry_vdw_refined 0.214 r_nbd_other 0.206 r_nbd_refined 0.204 r_xyhbond_nbd_refined 0.174 r_nbtor_refined 0.172 r_chiral_restr 0.087 r_nbtor_other 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.002 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1885 Nucleic Acid Atoms Solvent Atoms 213 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building MLPHARE phasing DM phasing SOLVE phasing RESOLVE phasing ARP/wARP model building CCP4 phasing O model building Coot model building