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MamM CTD D249N - Zinc form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3W5X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1M Tris pH=8.5,
0.3M MgFormate,
1.7mM ZnCl2
Crystal Properties Matthews coefficient Solvent content 2.21 44.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.137 α = 90 b = 53.137 β = 90 c = 64.465 γ = 120
Symmetry Space Group P 31 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 2018-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.975 ESRF ID29
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.5 46.02 99.8 0.05 1 31.3 12.6 17417
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.52 95.3 0.933 2.9 10.7
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 3W5X 1.5 46.02 16518 873 99.76 0.19122 0.18928 0.1901 0.22706 0.229 RANDOM 28.988
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] -0.34 -0.17 -0.34 1.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.445 r_dihedral_angle_4_deg 22.658 r_scbond_it 18.634 r_scbond_other 17.644 r_long_range_B_refined 17.432 r_long_range_B_other 17.432 r_dihedral_angle_3_deg 16.784 r_scangle_other 16.453 r_dihedral_angle_1_deg 5.663 r_mcangle_other 4.676
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.445 r_dihedral_angle_4_deg 22.658 r_scbond_it 18.634 r_scbond_other 17.644 r_long_range_B_refined 17.432 r_long_range_B_other 17.432 r_dihedral_angle_3_deg 16.784 r_scangle_other 16.453 r_dihedral_angle_1_deg 5.663 r_mcangle_other 4.676 r_mcangle_it 4.673 r_mcbond_it 3.702 r_mcbond_other 3.623 r_angle_refined_deg 2.034 r_angle_other_deg 0.957 r_chiral_restr 0.131 r_bond_refined_d 0.02 r_gen_planes_refined 0.01 r_gen_planes_other 0.003 r_bond_other_d 0.002 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 699 Nucleic Acid Atoms Solvent Atoms 81 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing