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CU(I)-CSP3 (COPPER STORAGE PROTEIN 3) FROM METHYLOSINUS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5ARM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 200 mM MgCl2, 100 mM Hepes pH 7.5, 30% PEG 400
Crystal Properties Matthews coefficient Solvent content 1.87 34.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.65 α = 90 b = 106.68 β = 90 c = 45.62 γ = 90
Symmetry Space Group C 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 PILATUS3 6M 2015-10-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 1.3746 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.59 45.62 99.3 0.083 7.8 3.6 14862
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.59 1.62 99.3 0.382 3.3
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 5ARM 1.59 45.62 14138 724 98.97 0.1527 0.15002 0.1496 0.20655 0.2061 RANDOM 20.412
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] 0.23 -0.65 0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.265 r_dihedral_angle_4_deg 17.216 r_sphericity_free 16.344 r_dihedral_angle_3_deg 14.989 r_sphericity_bonded 7.981 r_dihedral_angle_1_deg 4.143 r_scangle_other 3.703 r_long_range_B_other 3.527 r_long_range_B_refined 3.524 r_scbond_it 3.461
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.265 r_dihedral_angle_4_deg 17.216 r_sphericity_free 16.344 r_dihedral_angle_3_deg 14.989 r_sphericity_bonded 7.981 r_dihedral_angle_1_deg 4.143 r_scangle_other 3.703 r_long_range_B_other 3.527 r_long_range_B_refined 3.524 r_scbond_it 3.461 r_scbond_other 3.457 r_rigid_bond_restr 3.297 r_mcangle_it 2.52 r_mcangle_other 2.519 r_mcbond_it 2.164 r_mcbond_other 2.158 r_angle_refined_deg 1.712 r_angle_other_deg 1.03 r_chiral_restr 0.094 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 935 Nucleic Acid Atoms Solvent Atoms 38 Heterogen Atoms 5
Software Software Software Name Purpose iMOSFLM data reduction Aimless data scaling MOLREP phasing REFMAC refinement