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STRUCTURE OF THE N90S-H254F MUTANT OF NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JL3 PDB ENTRY 2JL3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 ZNSO4, PEG 550 MME, MES PH 6.5
Crystal Properties Matthews coefficient Solvent content 2.93 57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.246 α = 90 b = 89.246 β = 90 c = 288.271 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 ADSC QUANTUM 315r MIRRORS 2010-09-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 SOLEIL PROXIMA 1
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 1.46 23 99.1 0.09 13 4.2 146766 18.1
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 1.46 1.51 91 0.7 1.7 2.9
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 PDB ENTRY 2JL3 1.46 23 139417 7343 98.89 0.12641 0.12509 0.1353 0.15054 0.1574 RANDOM 17.124
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] 0.56 0.28 0.56 -0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.815 r_dihedral_angle_4_deg 18.86 r_dihedral_angle_3_deg 12.169 r_dihedral_angle_1_deg 7.28 r_scangle_it 5.443 r_scbond_it 3.816 r_mcangle_it 2.64 r_angle_refined_deg 1.797 r_mcbond_it 1.762 r_rigid_bond_restr 1.628
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.815 r_dihedral_angle_4_deg 18.86 r_dihedral_angle_3_deg 12.169 r_dihedral_angle_1_deg 7.28 r_scangle_it 5.443 r_scbond_it 3.816 r_mcangle_it 2.64 r_angle_refined_deg 1.797 r_mcbond_it 1.762 r_rigid_bond_restr 1.628 r_angle_other_deg 0.954 r_mcbond_other 0.591 r_chiral_restr 0.188 r_bond_refined_d 0.017 r_gen_planes_refined 0.009 r_bond_other_d 0.001 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_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5133 Nucleic Acid Atoms Solvent Atoms 694 Heterogen Atoms 60
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing