☰ Navigation Tabs
Copper-containing nitrite reductase from thermophilic bacterium Geobacillus thermodenitrificans (Re-refined)
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
Crystal Properties Matthews coefficient Solvent content 3.03 59.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 115.054 α = 90 b = 115.054 β = 90 c = 84.417 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 100 CCD RAYONIX MX225HE 2013-01-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL44XU 0.90000 SPring-8 BL44XU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.15 50 95.7 0.073 13.2 2.6 141618
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 1.15 1.17 91.7 0.285 1.6 2.1
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 MOLECULAR REPLACEMENT THROUGHOUT 1.15 22.06 134511 7102 95.61 0.12162 0.12034 0.1207 0.14604 0.1461 RANDOM 14.594
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 43.496 r_sphericity_free 24.957 r_dihedral_angle_3_deg 12.834 r_rigid_bond_restr 12.562 r_sphericity_bonded 8.116 r_dihedral_angle_1_deg 8.069 r_dihedral_angle_4_deg 6.866 r_long_range_B_refined 4.121 r_long_range_B_other 4.12 r_angle_other_deg 3.736
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.496 r_sphericity_free 24.957 r_dihedral_angle_3_deg 12.834 r_rigid_bond_restr 12.562 r_sphericity_bonded 8.116 r_dihedral_angle_1_deg 8.069 r_dihedral_angle_4_deg 6.866 r_long_range_B_refined 4.121 r_long_range_B_other 4.12 r_angle_other_deg 3.736 r_scangle_other 3.613 r_scbond_it 3.381 r_scbond_other 3.327 r_angle_refined_deg 2.321 r_mcangle_other 1.541 r_mcangle_it 1.536 r_mcbond_it 1.347 r_mcbond_other 1.253 r_chiral_restr 0.153 r_gen_planes_other 0.027 r_bond_refined_d 0.025 r_gen_planes_refined 0.013 r_bond_other_d 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 2286 Nucleic Acid Atoms Solvent Atoms 376 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing