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Pyrococcus furiosus FdxA D14C/I16H
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SJ1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 10.5 293 0.2 M lithium sulfate ,0.1 M glycine, 1.2 M sodium dihydrogen phosphate, 0.8 M di-potassium hydrogen phosphate
Crystal Properties Matthews coefficient Solvent content 4.05 69.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.23 α = 90 b = 66.23 β = 90 c = 45.93 γ = 120
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 PILATUS 2M-F 2024-03-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NE3A 1 Photon Factory AR-NE3A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 50 97.6 0.095 0.996 10.64 4.9 20424
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 0.986 0.894 2.59 4.93
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1SJ1 1.8 35.852 20404 1021 97.645 0.241 0.2396 0.2263 0.2719 0.2604 45.891
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] 0.62 0.31 0.62 -2.011
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.989 r_dihedral_angle_3_deg 21.114 r_lrange_it 10.428 r_scangle_it 7.313 r_dihedral_angle_1_deg 6.349 r_scbond_it 5.219 r_angle_refined_deg 3.845 r_mcangle_it 3.308 r_mcbond_it 2.64 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.989 r_dihedral_angle_3_deg 21.114 r_lrange_it 10.428 r_scangle_it 7.313 r_dihedral_angle_1_deg 6.349 r_scbond_it 5.219 r_angle_refined_deg 3.845 r_mcangle_it 3.308 r_mcbond_it 2.64 r_nbtor_refined 0.308 r_chiral_restr 0.276 r_nbd_refined 0.223 r_symmetry_nbd_refined 0.214 r_symmetry_xyhbond_nbd_refined 0.202 r_xyhbond_nbd_refined 0.166 r_ncsr_local_group_1 0.119 r_ext_dist_refined_d 0.112 r_bond_refined_d 0.022 r_gen_planes_refined 0.011
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 980 Nucleic Acid Atoms Solvent Atoms 62 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing