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Human Methionine Adenosyltransferase II mutant (S114A) in I222 crystal form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5A1I
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 30% PEG600
0.1M HEPES pH.7.0
Crystal Properties Matthews coefficient Solvent content 2.19 43.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.621 α = 90 b = 94.682 β = 90 c = 116.55 γ = 90
Symmetry Space Group I 2 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 2016-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.97 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 1.8 58.28 99.9 0.17 0.208 0.119 0.979 5.8 5.3 34507 17.1
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 1.8 1.84 100 0.766 0.94 0.538 0.782 5.4
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 5A1I 1.8 58.28 32796 1697 99.81 0.15215 0.15098 0.1609 0.17436 0.1821 RANDOM 21.776
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] 3.48 -0.87 -2.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.13 r_dihedral_angle_4_deg 19.655 r_dihedral_angle_3_deg 13.112 r_dihedral_angle_1_deg 6.413 r_long_range_B_refined 5.664 r_long_range_B_other 5.627 r_scangle_other 3.824 r_angle_other_deg 3.655 r_scbond_it 2.437 r_scbond_other 2.436
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.13 r_dihedral_angle_4_deg 19.655 r_dihedral_angle_3_deg 13.112 r_dihedral_angle_1_deg 6.413 r_long_range_B_refined 5.664 r_long_range_B_other 5.627 r_scangle_other 3.824 r_angle_other_deg 3.655 r_scbond_it 2.437 r_scbond_other 2.436 r_mcangle_it 2.293 r_mcangle_other 2.293 r_angle_refined_deg 1.671 r_mcbond_it 1.524 r_mcbond_other 1.522 r_chiral_restr 0.103 r_bond_refined_d 0.014 r_gen_planes_refined 0.009 r_gen_planes_other 0.009 r_bond_other_d 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 2958 Nucleic Acid Atoms Solvent Atoms 218 Heterogen Atoms 79
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling MOLREP phasing