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MamM CTD D249E - 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 LiSO4,
0.1M BIS-TRIS pH=5.5,
25% PEG 3350,
1.7mM CdCl2
Crystal Properties Matthews coefficient Solvent content 1.94 36.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.698 α = 90 b = 94.524 β = 90 c = 53.305 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 2017-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 0.976247 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 47.26 99.6 0.028 1 22.3 4.3 15228
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 94.1 0.615 1.3 4.2 699
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 47.26 14457 756 99.48 0.1943 0.19326 0.203 0.21406 0.2303 RANDOM 28.254
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] 1.2 -0.67 -0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.943 r_dihedral_angle_4_deg 14.197 r_dihedral_angle_3_deg 13.401 r_long_range_B_other 8.519 r_long_range_B_refined 8.517 r_dihedral_angle_1_deg 6.322 r_scangle_other 4.743 r_scbond_it 3.197 r_scbond_other 3.196 r_mcangle_other 2.225
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.943 r_dihedral_angle_4_deg 14.197 r_dihedral_angle_3_deg 13.401 r_long_range_B_other 8.519 r_long_range_B_refined 8.517 r_dihedral_angle_1_deg 6.322 r_scangle_other 4.743 r_scbond_it 3.197 r_scbond_other 3.196 r_mcangle_other 2.225 r_mcangle_it 2.199 r_angle_refined_deg 1.826 r_mcbond_it 1.467 r_mcbond_other 1.426 r_angle_other_deg 1.016 r_chiral_restr 0.104 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 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 623 Nucleic Acid Atoms Solvent Atoms 72 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing