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STRUCTURE OF F306C MUTANT OF NITRITE REDUCTASE FROM Achromobacter XYLOSOXIDANS WITH NITRITE BOUND
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2CSP PDB ENTRY 2CSP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 15% PEG550 MME, 50 MM ZNSO4, AND 50 MM MES BUFFER, pH 6.5
Crystal Properties Matthews coefficient Solvent content 3.1 61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.57 α = 90 b = 89.57 β = 90 c = 144.011 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 PIXEL DECTRIS PILATUS 6M MIRRORS 2012-09-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 Diamond I24
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 1.75 52.77 100 0.08 10 4.6 43456 21.1
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 1.75 1.84 99.9 0.66 2 4.5
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2CSP 1.75 68.29 41268 2185 99.98 0.17983 0.17821 0.20993 0.2105 RANDOM 29.367
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] 0.44 0.22 0.44 -1.43
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.749 r_dihedral_angle_4_deg 13.352 r_dihedral_angle_3_deg 12.619 r_dihedral_angle_1_deg 7.147 r_mcangle_it 2.75 r_scbond_it 1.992 r_mcbond_it 1.875 r_mcbond_other 1.874 r_angle_refined_deg 1.542 r_angle_other_deg 0.786
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.749 r_dihedral_angle_4_deg 13.352 r_dihedral_angle_3_deg 12.619 r_dihedral_angle_1_deg 7.147 r_mcangle_it 2.75 r_scbond_it 1.992 r_mcbond_it 1.875 r_mcbond_other 1.874 r_angle_refined_deg 1.542 r_angle_other_deg 0.786 r_chiral_restr 0.089 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2562 Nucleic Acid Atoms Solvent Atoms 308 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling MOLREP phasing