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A Proximal Arginine Residue in the Switching Mechanism of the FixL Oxygen Sensor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1LSW PDB ENTRY 1LSW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277 CRYSTALS OF THE MET-R206A BJFIXLH MUTANT WERE OBTAINED AT 4 DEGREES C VIA THE HANGING-DROP VAPOR-DIFFUSION METHOD BY MIXING EQUAL AMOUNTS OF PROTEIN (0.6-1.2 MM IN 5.0 MM TRIS-HCL, PH 8.0) AND WELL SOLUTION (50 MM HEPES, 4.5 M NACL, 5% (V/) 2-METHYL-2,4-PENTANEDIOL, PH 7.5) AND INCUBATING THE DROP OVER 0.7 ML OF WELL SOLUTION.
Crystal Properties Matthews coefficient Solvent content 3.25 61.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 127.117 α = 90 b = 127.117 β = 90 c = 58.569 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 CUSTOM 2003-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM APS 19-BM
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 2.3 27.07 99.9 0.06 36.2 7.4 8187 -3
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 2.3 2.34 100 0.74 2.9 6.3
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 1LSW 2.3 20 7565 611 99.9 0.197 0.195 0.1891 0.22 0.2155 RANDOM 41.23
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] 0.45 0.22 0.45 -0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.8 r_dihedral_angle_4_deg 18.68 r_dihedral_angle_3_deg 16.975 r_scangle_it 2.476 r_dihedral_angle_1_deg 2.006 r_angle_refined_deg 1.693 r_scbond_it 1.69 r_mcangle_it 1.093 r_mcbond_it 0.721 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.8 r_dihedral_angle_4_deg 18.68 r_dihedral_angle_3_deg 16.975 r_scangle_it 2.476 r_dihedral_angle_1_deg 2.006 r_angle_refined_deg 1.693 r_scbond_it 1.69 r_mcangle_it 1.093 r_mcbond_it 0.721 r_nbtor_refined 0.301 r_symmetry_hbond_refined 0.209 r_nbd_refined 0.189 r_symmetry_vdw_refined 0.18 r_xyhbond_nbd_refined 0.11 r_chiral_restr 0.109 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other 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 924 Nucleic Acid Atoms Solvent Atoms 33 Heterogen Atoms 43
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling