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MamM CTD D249N - Cadmium 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 0.2M Li2SO4,
0.1M BIS-TRIS pH=5.5,
25% PEG 3350,
1.7mM CdCl2
Crystal Properties Matthews coefficient Solvent content 1.96 37.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.844 α = 90 b = 94.661 β = 90 c = 53.438 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 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 1.8 47.33 100 0.145 0.997 12.3 12.2 9025
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 1.8 1.84 100 0.666 1.8 12.8
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 1.8 47.33 8103 908 100 0.1968 0.19241 0.2016 0.23669 0.2514 RANDOM 31.058
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] -0.84 0.44 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.834 r_dihedral_angle_3_deg 15.586 r_dihedral_angle_4_deg 13.736 r_dihedral_angle_1_deg 6.078 r_long_range_B_other 5.698 r_long_range_B_refined 5.695 r_scangle_other 2.602 r_scbond_it 2.25 r_scbond_other 2.232 r_angle_refined_deg 1.592
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.834 r_dihedral_angle_3_deg 15.586 r_dihedral_angle_4_deg 13.736 r_dihedral_angle_1_deg 6.078 r_long_range_B_other 5.698 r_long_range_B_refined 5.695 r_scangle_other 2.602 r_scbond_it 2.25 r_scbond_other 2.232 r_angle_refined_deg 1.592 r_mcangle_it 1.451 r_mcangle_other 1.449 r_mcbond_it 0.895 r_mcbond_other 0.892 r_angle_other_deg 0.766 r_chiral_restr 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.003 r_gen_planes_other 0.001 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 622 Nucleic Acid Atoms Solvent Atoms 55 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing