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Azotobacter vinelandii vanadium nitrogenase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 10-13 % (w/v) of polyethylene glycol 8000
15-20 % (v/v) of ethylene glycol
0.03 M MgCl2
0.1 mM ZnCl2
5 mM Na2S2O4
0.1 M of HEPES/NaOH pH 7.5
Crystal Properties Matthews coefficient Solvent content 2.48 50.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.25 α = 84.06 b = 79.79 β = 72.62 c = 106.97 γ = 75.15
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 EIGER X 16M 2016-10-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.0000 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 1.35 102.04 96.1 0.062 0.047 0.998 10.4 3.5 460593 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.35 1.39 92.3 1.048 0.78 0.494 3.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.35 102.04 460593 23846 96.1 0.11064 0.10881 0.1077 0.14595 0.1445 RANDOM 18.371
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] -0.03 0.08 -0.31 -0.33 0.07 0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.401 r_sphericity_free 24.472 r_dihedral_angle_4_deg 19.109 r_dihedral_angle_3_deg 12.97 r_sphericity_bonded 10.072 r_dihedral_angle_1_deg 6.028 r_rigid_bond_restr 5.943 r_scangle_other 4.327 r_long_range_B_refined 4.193 r_angle_refined_deg 4.057
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.401 r_sphericity_free 24.472 r_dihedral_angle_4_deg 19.109 r_dihedral_angle_3_deg 12.97 r_sphericity_bonded 10.072 r_dihedral_angle_1_deg 6.028 r_rigid_bond_restr 5.943 r_scangle_other 4.327 r_long_range_B_refined 4.193 r_angle_refined_deg 4.057 r_scbond_other 3.904 r_scbond_it 3.903 r_long_range_B_other 3.89 r_mcangle_it 2.454 r_mcangle_other 2.454 r_mcbond_it 2.287 r_mcbond_other 2.285 r_angle_other_deg 1.68 r_chiral_restr 0.298 r_bond_refined_d 0.03 r_gen_planes_refined 0.013 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16680 Nucleic Acid Atoms Solvent Atoms 2249 Heterogen Atoms 104
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHENIX phasing