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MamM CTD D249E - 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 0.3M MgFormate,
0.1M Tris pH=8.5,
1.7 mM ZnCl2
Crystal Properties Matthews coefficient Solvent content 2.18 43.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 53.151 α = 90 b = 53.151 β = 90 c = 63.862 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 PILATUS3 6M 2017-05-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.97626 ESRF ID30B
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 1.54 46.03 99.9 0.115 0.997 20.8 18.8 15927
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 1.54 1.57 98.6 0.99 11
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 1.54 46.03 15070 830 99.89 0.14957 0.14756 0.1614 0.18618 0.1931 RANDOM 20.601
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] -0.55 -0.28 -0.55 1.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.37 r_sphericity_free 29.509 r_dihedral_angle_4_deg 19.934 r_sphericity_bonded 12.912 r_dihedral_angle_3_deg 12.653 r_dihedral_angle_1_deg 6.696 r_long_range_B_refined 4.103 r_long_range_B_other 4.102 r_scangle_other 3.412 r_scbond_it 2.916
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.37 r_sphericity_free 29.509 r_dihedral_angle_4_deg 19.934 r_sphericity_bonded 12.912 r_dihedral_angle_3_deg 12.653 r_dihedral_angle_1_deg 6.696 r_long_range_B_refined 4.103 r_long_range_B_other 4.102 r_scangle_other 3.412 r_scbond_it 2.916 r_scbond_other 2.871 r_rigid_bond_restr 2.414 r_mcangle_other 2.391 r_mcangle_it 2.39 r_mcbond_it 1.758 r_mcbond_other 1.741 r_angle_refined_deg 1.511 r_angle_other_deg 1.096 r_chiral_restr 0.086 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 698 Nucleic Acid Atoms Solvent Atoms 78 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing