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Crystal structure of the FAD-containing PAS domain of the protein NifL from Azotobacter vinelandii.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 2.25M Ammonium sulfate, 5% ethanol, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.49 50.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.111 α = 90 b = 68.111 β = 90 c = 302.064 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 MAR CCD 165 mm M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-ID-B 0.8266 APS 14-ID-B
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 1.03 50 94.5 0.04 14.3 126308
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) 1.03 1.07 50 63.1 0.462
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MAD THROUGHOUT 1.04 40 126308 115137 11569 88.65 0.158 0.158 0.154 0.1622 0.186 0.1679 RANDOM 21.636
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] -0.65 -0.33 -0.65 0.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.166 r_dihedral_angle_4_deg 23.102 r_sphericity_free 18.576 r_dihedral_angle_3_deg 13.581 r_sphericity_bonded 11.24 r_dihedral_angle_1_deg 11.173 r_scangle_it 6.926 r_mcangle_it 5.926 r_scbond_it 5.692 r_mcbond_it 5.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.166 r_dihedral_angle_4_deg 23.102 r_sphericity_free 18.576 r_dihedral_angle_3_deg 13.581 r_sphericity_bonded 11.24 r_dihedral_angle_1_deg 11.173 r_scangle_it 6.926 r_mcangle_it 5.926 r_scbond_it 5.692 r_mcbond_it 5.1 r_rigid_bond_restr 4.505 r_angle_refined_deg 3.458 r_symmetry_hbond_refined 0.381 r_nbtor_refined 0.324 r_nbd_refined 0.282 r_xyhbond_nbd_refined 0.272 r_symmetry_vdw_refined 0.249 r_chiral_restr 0.192 r_bond_refined_d 0.027 r_gen_planes_refined 0.024
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1920 Nucleic Acid Atoms Solvent Atoms 340 Heterogen Atoms 126
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SOLVE phasing