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Serial Cu nitrite reductase structures at elevated cryogenic temperature, 100K reference dataset.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BW4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 10 mM sodium citrate at pH 5.0 and ~1.7 M ammonium sulphate
Crystal Properties Matthews coefficient Solvent content 2.02 39.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.793 α = 90 b = 94.793 β = 90 c = 94.793 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 PILATUS 6M-F 2016-02-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.98 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 1.4 47.4 98.4 0.055 0.99 10.9 3.2 54929
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 97.7 0.502 0.505 3.5
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 2BW4 1.4 47.4 52210 2693 98.07 0.15459 0.15319 0.1531 0.18082 0.1805 RANDOM 13.977
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 35.783 r_dihedral_angle_4_deg 18.795 r_dihedral_angle_3_deg 12.041 r_dihedral_angle_1_deg 7.834 r_long_range_B_refined 4.729 r_long_range_B_other 4.052 r_scangle_other 2.429 r_mcangle_other 1.776 r_mcangle_it 1.774 r_angle_refined_deg 1.726
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.783 r_dihedral_angle_4_deg 18.795 r_dihedral_angle_3_deg 12.041 r_dihedral_angle_1_deg 7.834 r_long_range_B_refined 4.729 r_long_range_B_other 4.052 r_scangle_other 2.429 r_mcangle_other 1.776 r_mcangle_it 1.774 r_angle_refined_deg 1.726 r_scbond_other 1.562 r_scbond_it 1.561 r_mcbond_it 1.136 r_mcbond_other 1.115 r_angle_other_deg 1.013 r_chiral_restr 0.104 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2581 Nucleic Acid Atoms Solvent Atoms 368 Heterogen Atoms 9
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling REFMAC phasing