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A. vinelandii nitrogenase MoFe protein Anc1a
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3U7Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 0.2 M LiSO4 x 1 H2O, 0.1 M bis-Tris/HCl at pH 6.5, 25%(w/v) of polyethylene glycol 3350
Crystal Properties Matthews coefficient Solvent content 2.18 43.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.29 α = 90 b = 138.615 β = 90 c = 208.581 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 PIXEL DECTRIS EIGER2 X CdTe 16M 2023-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.8856 ESRF ID23-1
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 2.638 19.879 93.7 0.368 0.106 0.989 7.1 12.8 46401
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.658 2.912 51.8 0.425
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.658 19.879 46401 2377 77.828 0.172 0.169 0.1725 0.2202 0.2168 41.992
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] 0.251 -0.279 0.028
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.777 r_dihedral_angle_6_deg 13.877 r_dihedral_angle_other_3_deg 9.007 r_dihedral_angle_1_deg 6.368 r_lrange_it 6.265 r_lrange_other 6.264 r_dihedral_angle_2_deg 4.4 r_scangle_it 4.328 r_scangle_other 4.327 r_mcangle_it 3.523
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.777 r_dihedral_angle_6_deg 13.877 r_dihedral_angle_other_3_deg 9.007 r_dihedral_angle_1_deg 6.368 r_lrange_it 6.265 r_lrange_other 6.264 r_dihedral_angle_2_deg 4.4 r_scangle_it 4.328 r_scangle_other 4.327 r_mcangle_it 3.523 r_mcangle_other 3.523 r_scbond_it 2.579 r_scbond_other 2.579 r_mcbond_it 2.161 r_mcbond_other 2.161 r_angle_refined_deg 1.267 r_angle_other_deg 0.454 r_nbd_refined 0.207 r_nbd_other 0.205 r_symmetry_nbd_refined 0.204 r_symmetry_nbd_other 0.196 r_nbtor_refined 0.181 r_symmetry_xyhbond_nbd_refined 0.153 r_xyhbond_nbd_refined 0.149 r_metal_ion_refined 0.123 r_symmetry_nbtor_other 0.078 r_ncsr_local_group_1 0.076 r_ncsr_local_group_2 0.067 r_chiral_restr 0.061 r_bond_refined_d 0.021 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15942 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction STARANISO data scaling PHASER phasing