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Crystal structure of Ferredoxin reductase, BphA4 (oxidized form, NAD+ complex)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.4 293 2M Sodium formate, 0.1M Sodium acetate, pH 5.4, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.76 55.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.283 α = 90 b = 98.283 β = 90 c = 171.245 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 100 CCD ADSC QUANTUM 315 2006-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.000 Photon Factory BL-5A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.7 50 98.8 0.083 22.6 6.9 53813 53813
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 94.5 0.443 3.6 6.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 Difference Fourier THROUGHOUT 1.7 32.17 51060 51060 2732 98.9 0.19317 0.19317 0.19233 0.1908 0.20854 0.2083 RANDOM 28.061
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] -1.02 -0.51 -1.02 1.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.385 r_dihedral_angle_4_deg 19.136 r_dihedral_angle_3_deg 11.413 r_dihedral_angle_1_deg 5.255 r_scangle_it 3.091 r_scbond_it 1.921 r_angle_refined_deg 1.385 r_mcangle_it 1.162 r_mcbond_it 0.78 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.385 r_dihedral_angle_4_deg 19.136 r_dihedral_angle_3_deg 11.413 r_dihedral_angle_1_deg 5.255 r_scangle_it 3.091 r_scbond_it 1.921 r_angle_refined_deg 1.385 r_mcangle_it 1.162 r_mcbond_it 0.78 r_nbtor_refined 0.308 r_nbd_refined 0.2 r_symmetry_hbond_refined 0.19 r_symmetry_vdw_refined 0.188 r_xyhbond_nbd_refined 0.147 r_chiral_restr 0.09 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2991 Nucleic Acid Atoms Solvent Atoms 302 Heterogen Atoms 80
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data scaling XTALVIEW refinement