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Structure of NADH-DEPENDENT FERREDOXIN REDUCTASE, BPHA4, solved at wavelength 1.37 A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 Sodium formate Acetate buffer, pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.75 55.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.243 α = 90 b = 98.243 β = 90 c = 170.476 γ = 120
Symmetry Space Group P 61 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 12M 2017-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I23 1.378 Diamond I23
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.6 85.08 98.9 0.06567 0.06753 0.01556 1 23.51 18 63940
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 1.6 1.657 95.69 0.467 0.76 16.1
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 SAD THROUGHOUT 1.6 85.08 60796 3150 98.93 0.17865 0.17741 0.1863 0.20377 0.209 RANDOM 31.448
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] -0.59 -0.3 -0.59 1.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.471 r_dihedral_angle_2_deg 6.599 r_dihedral_angle_1_deg 6.001 r_long_range_B_refined 6.001 r_long_range_B_other 5.936 r_scangle_other 4.05 r_scbond_it 2.558 r_scbond_other 2.558 r_mcangle_it 2.506 r_mcangle_other 2.505
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.471 r_dihedral_angle_2_deg 6.599 r_dihedral_angle_1_deg 6.001 r_long_range_B_refined 6.001 r_long_range_B_other 5.936 r_scangle_other 4.05 r_scbond_it 2.558 r_scbond_other 2.558 r_mcangle_it 2.506 r_mcangle_other 2.505 r_mcbond_it 1.653 r_mcbond_other 1.653 r_angle_refined_deg 1.181 r_angle_other_deg 0.403 r_chiral_restr 0.06 r_gen_planes_refined 0.006 r_bond_refined_d 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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 3005 Nucleic Acid Atoms Solvent Atoms 301 Heterogen Atoms 74
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling HKL2Map phasing