☰ Navigation Tabs
Structure of the PduO-type ATP:co(I)rrinoid adenosyltransferase from Lactobacillus reuteri complexed with partial adenosylcobalamin and PPPi
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 300 ANOXIC, 10% PEG 8000, 0.1 M MES, 33 ug/mL FMN reductase, 20 mM NADH, 2 mM FMN, 2 mM hydroxycobalamin, 3 mM MgCl2, 3 mM ATP. Grown 65 days, VAPOR DIFFUSION, temperature 300K
Crystal Properties Matthews coefficient Solvent content 2.2 44.17
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.965 α = 90 b = 67.965 β = 90 c = 110.941 γ = 120
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 2006-12-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 1.541 APS 19-ID
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 1.11 30 98.9 0.39 35.3 4.9 74669 13.9
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 1.11 1.15 89 0.96 9.8 2.3
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.11 30 74656 3762 99.92 0.161 0.16 0.158 0.18 0.1788 RANDOM 12.935
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] 0.2 0.1 0.2 -0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.127 r_dihedral_angle_4_deg 16.524 r_dihedral_angle_1_deg 12.13 r_dihedral_angle_3_deg 11.705 r_scangle_it 2.716 r_angle_refined_deg 2.429 r_scbond_it 2.159 r_mcangle_it 1.575 r_mcbond_it 1.083 r_chiral_restr 0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.127 r_dihedral_angle_4_deg 16.524 r_dihedral_angle_1_deg 12.13 r_dihedral_angle_3_deg 11.705 r_scangle_it 2.716 r_angle_refined_deg 2.429 r_scbond_it 2.159 r_mcangle_it 1.575 r_mcbond_it 1.083 r_chiral_restr 0.33 r_nbtor_refined 0.318 r_nbd_refined 0.254 r_symmetry_vdw_refined 0.199 r_xyhbond_nbd_refined 0.19 r_symmetry_hbond_refined 0.156 r_bond_refined_d 0.021 r_gen_planes_refined 0.015
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1488 Nucleic Acid Atoms Solvent Atoms 172 Heterogen Atoms 105
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction ADSC data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing