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Nitrogenase MoFeP protein in the IDS oxidized state
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 50% MPD , 300 mM NaCl, 100 mM Na Cacodylate, pH 6.5, 1 mM Spermine, and 0.43 mM Indigo Carmine
Crystal Properties Matthews coefficient Solvent content 2.97 58.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 201.569 α = 90 b = 201.569 β = 90 c = 132.208 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 CCD MARMOSAIC 325 mm CCD 2016-06-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL14-1 0.98 SSRL BL14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 2.592 39.59 100 0.411 0.4206 0.986 18 22.5 79965 37.65
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.592 2.684 99 1.65 0.548 2.61 21.5
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 THROUGHOUT 2.592 39.59 79965 4244 99.55 0.16999 0.16798 0.1746 0.20805 0.2098 RANDOM 40.232
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] -1.34 -1.34 2.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.661 r_dihedral_angle_4_deg 19.746 r_dihedral_angle_3_deg 15.698 r_long_range_B_refined 6.992 r_long_range_B_other 6.99 r_dihedral_angle_1_deg 6.483 r_scangle_other 5.509 r_mcangle_it 4.034 r_mcangle_other 4.034 r_scbond_it 3.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.661 r_dihedral_angle_4_deg 19.746 r_dihedral_angle_3_deg 15.698 r_long_range_B_refined 6.992 r_long_range_B_other 6.99 r_dihedral_angle_1_deg 6.483 r_scangle_other 5.509 r_mcangle_it 4.034 r_mcangle_other 4.034 r_scbond_it 3.53 r_scbond_other 3.53 r_mcbond_it 2.677 r_mcbond_other 2.677 r_angle_refined_deg 1.723 r_angle_other_deg 1.612 r_chiral_restr 0.105 r_bond_refined_d 0.014 r_gen_planes_refined 0.008 r_bond_other_d 0.005 r_gen_planes_other 0.004 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15616 Nucleic Acid Atoms Solvent Atoms 358 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement XDS data scaling Coot model building PHASER phasing Aimless data scaling