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X-RAY STRUCTURE OF THE METHYLTRANSFERASE SUBUNIT A FROM METHANOTHERMUS FERVIDUS IN COMPLEX WITH COBALAMIN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 298 Protein concentration 20 mg/mL complexed with hydroxy-cobalamin. A pink brick shape crystal appeared in 26% PEG 3000, 100 mM Na citrate pH 5.5.
Crystal Properties Matthews coefficient Solvent content 3.05 59.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.604 α = 90 b = 100.604 β = 90 c = 262.706 γ = 90
Symmetry Space Group I 4 2 2
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-F 2014-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.602 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 3 131.35 98.5 0.224 0.074 0.995 8.6 17.1 13764
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 3 3.18 91 1.06 2.5 11.9
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 SAD FREE R-VALUE 3 131.35 13073 681 98.31 0.21057 0.20838 0.2126 0.25424 0.253 RANDOM 86.158
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] 4.35 4.35 -8.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.383 r_dihedral_angle_3_deg 18.251 r_dihedral_angle_4_deg 17.208 r_dihedral_angle_1_deg 6.406 r_long_range_B_refined 5.786 r_long_range_B_other 5.785 r_scangle_other 3.432 r_mcangle_it 3.306 r_mcangle_other 3.306 r_angle_refined_deg 2.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.383 r_dihedral_angle_3_deg 18.251 r_dihedral_angle_4_deg 17.208 r_dihedral_angle_1_deg 6.406 r_long_range_B_refined 5.786 r_long_range_B_other 5.785 r_scangle_other 3.432 r_mcangle_it 3.306 r_mcangle_other 3.306 r_angle_refined_deg 2.302 r_scbond_it 1.991 r_scbond_other 1.991 r_mcbond_it 1.876 r_mcbond_other 1.874 r_angle_other_deg 1.578 r_chiral_restr 0.211 r_bond_refined_d 0.01 r_bond_other_d 0.006 r_gen_planes_refined 0.006 r_gen_planes_other 0.004 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3644 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 273
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling AutoSol phasing