☰ Navigation Tabs
Room temperature structure of copper nitrite reductase from Geobacillus thermodenitrificans
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 5.5% PEG 4000, 0.1M sodium acetate, 0.075M copper sulphate, pH 4.5
Crystal Properties Matthews coefficient Solvent content 3.13 60.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.197 α = 90 b = 116.197 β = 90 c = 85.553 γ = 120
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 300 CCD ADSC QUANTUM 315 2013-05-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 0.90000 SPring-8 BL38B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.35 50 99.8 24.4 4.2 94321
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 1.35 26.53 89547 4731 99.75 0.09795 0.09678 0.0985 0.12067 0.1217 RANDOM 19.929
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.115 r_sphericity_free 32.897 r_sphericity_bonded 22.011 r_dihedral_angle_3_deg 13.793 r_dihedral_angle_4_deg 9.332 r_rigid_bond_restr 8.206 r_dihedral_angle_1_deg 7.789 r_long_range_B_refined 7.062 r_scbond_it 6.806 r_mcangle_it 5.079
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.115 r_sphericity_free 32.897 r_sphericity_bonded 22.011 r_dihedral_angle_3_deg 13.793 r_dihedral_angle_4_deg 9.332 r_rigid_bond_restr 8.206 r_dihedral_angle_1_deg 7.789 r_long_range_B_refined 7.062 r_scbond_it 6.806 r_mcangle_it 5.079 r_mcbond_it 4.521 r_angle_refined_deg 2.4 r_chiral_restr 0.204 r_bond_refined_d 0.028 r_gen_planes_refined 0.014 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2321 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing