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STRUCTURE OF THE N90S MUTANT OF NITRITE REDUCTASE FROM ALCALIGENES XYLOSOXIDANS complexed with nitrite
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2JL0 PDB ENTRY 2JL0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 1.8 M AMMONIUM SULPHATE IN CITRATE BUFFER, PH 4.6
Crystal Properties Matthews coefficient Solvent content 6.37 80
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 172.67 α = 90 b = 174.65 β = 90 c = 180.65 γ = 90
Symmetry Space Group P 21 21 21
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 2010-09-05 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 2.99 43.7 99.3 0.08 20.35 4.8 109627 62
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 3 3.17 98.3 0.86 2.54 4.7
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 2JL0 3 42.99 104126 5481 99.3 0.18677 0.185 0.1811 0.22116 0.2167 RANDOM 68.18
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] 0.67 -0.06 -0.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.154 r_dihedral_angle_4_deg 20.696 r_dihedral_angle_3_deg 17.147 r_dihedral_angle_1_deg 6.712 r_scangle_it 2.469 r_scbond_it 1.375 r_angle_refined_deg 1.369 r_mcangle_it 1.141 r_mcbond_it 0.59 r_chiral_restr 0.09
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.154 r_dihedral_angle_4_deg 20.696 r_dihedral_angle_3_deg 17.147 r_dihedral_angle_1_deg 6.712 r_scangle_it 2.469 r_scbond_it 1.375 r_angle_refined_deg 1.369 r_mcangle_it 1.141 r_mcbond_it 0.59 r_chiral_restr 0.09 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other 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 15378 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 135
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing