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Neutron structure of Ferredoxin-NADP+ reductase from maize root -Reduced form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5H59
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 293.15 PEG2000
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.32 α = 90 b = 59.32 β = 90 c = 187.69 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 neutron 100 DIFFRACTOMETER iBIX 2022-12-10 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SPALLATION SOURCE J-PARC MLF BEAMLINE BL-03 2.05-5.38 JPARC MLF BL-03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.8 19.425 99.9 0.1669 0.9613 5.41 9.5293 36398
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.86 0.7279 0.3668
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 (All) R-Work (Depositor) R-Free (Depositor) Mean Isotropic B NEUTRON DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 5H59 1.8 19.425 36397 1771 99.66 0.199 0.1971 0.2462 22.416
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] -0.027 -0.014 -0.027 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.538 r_dihedral_angle_3_deg 15.5 r_dihedral_angle_other_6_deg 13.899 r_dihedral_angle_2_deg 7.013 r_dihedral_angle_1_deg 6.344 r_lrange_it 5.09 r_lrange_other 4.794 r_dihedral_angle_other_3_deg 3.796 r_scangle_other 3.575 r_scangle_it 3.414
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 16.538 r_dihedral_angle_3_deg 15.5 r_dihedral_angle_other_6_deg 13.899 r_dihedral_angle_2_deg 7.013 r_dihedral_angle_1_deg 6.344 r_lrange_it 5.09 r_lrange_other 4.794 r_dihedral_angle_other_3_deg 3.796 r_scangle_other 3.575 r_scangle_it 3.414 r_scbond_other 2.363 r_scbond_it 2.285 r_mcangle_it 2.224 r_mcangle_other 2.223 r_angle_refined_deg 1.783 r_mcbond_it 1.566 r_mcbond_other 1.565 r_angle_other_deg 0.603 r_symmetry_nbd_refined 0.311 r_nbd_refined 0.237 r_nbd_other 0.192 r_xyhbond_nbd_refined 0.191 r_nbtor_refined 0.188 r_symmetry_xyhbond_nbd_refined 0.184 r_symmetry_nbd_other 0.172 r_chiral_restr 0.098 r_symmetry_nbtor_other 0.042 r_gen_planes_refined 0.011 r_bond_refined_d 0.009 r_bond_other_d 0.001 r_ext_dist_refined_b r_gen_planes_other
Software Software Software Name Purpose STARGazer data reduction STARGazer data scaling PHASER phasing REFMAC refinement