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Crystal Structure of Copper Nitrite Reductase at 100K after 20.70 MGy
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BWI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 4.5 298 1.7 M Ammonium Sulphate, 0.1 M Sodium Acetate pH 4.5
Crystal Properties Matthews coefficient Solvent content 1.98 38.02
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.236 α = 90 b = 95.236 β = 90 c = 95.236 γ = 90
Symmetry Space Group P 21 3
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 2013-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.97 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 1.44 42.59 96.3 0.044 0.05 0.023 0.999 15.8 4.2 49868
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.44 1.46 98.6 1.207 1.382 0.664 0.521 4.1 2537
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 2BWI 1.45 42.6 46397 2403 95.4 0.1716 0.1705 0.1758 0.193 0.1948 RANDOM 23.526
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 34.16 r_dihedral_angle_4_deg 16.956 r_dihedral_angle_3_deg 12.358 r_dihedral_angle_1_deg 7.305 r_mcangle_it 2.244 r_angle_refined_deg 1.607 r_mcbond_it 1.462 r_mcbond_other 1.44 r_angle_other_deg 0.955 r_chiral_restr 0.097
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.16 r_dihedral_angle_4_deg 16.956 r_dihedral_angle_3_deg 12.358 r_dihedral_angle_1_deg 7.305 r_mcangle_it 2.244 r_angle_refined_deg 1.607 r_mcbond_it 1.462 r_mcbond_other 1.44 r_angle_other_deg 0.955 r_chiral_restr 0.097 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2566 Nucleic Acid Atoms Solvent Atoms 200 Heterogen Atoms 7
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction XDS data reduction REFMAC phasing