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W. succinogenes NrfA Sulfite Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FS7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.7 293 PEG 4000, ammonium sulfate, yttrium chloride, acetate buffer, pH 5.7, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.01 59.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.5 α = 90 b = 119.5 β = 90 c = 186.674 γ = 90
Symmetry Space Group I 41 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 IMAGE PLATE MAR scanner 345 mm plate 2007-09-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE BW7B 1.0600 EMBL/DESY, HAMBURG BW7B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 25 98.4 0.069 16.4 4.6 74335 73146 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.79 96.9 0.595 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT 1FS7 1.7 22.31 2 74334 68471 3660 97.23 0.235 0.23266 0.2317 0.27954 0.2772 RANDOM 30.272
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] 0.31 0.31 -0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.592 r_dihedral_angle_4_deg 19.732 r_dihedral_angle_3_deg 15.451 r_dihedral_angle_1_deg 6.903 r_scangle_it 3.546 r_scbond_it 2.55 r_angle_refined_deg 1.778 r_mcangle_it 1.556 r_mcbond_it 1.068 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.592 r_dihedral_angle_4_deg 19.732 r_dihedral_angle_3_deg 15.451 r_dihedral_angle_1_deg 6.903 r_scangle_it 3.546 r_scbond_it 2.55 r_angle_refined_deg 1.778 r_mcangle_it 1.556 r_mcbond_it 1.068 r_nbtor_refined 0.303 r_nbd_refined 0.263 r_symmetry_vdw_refined 0.256 r_xyhbond_nbd_refined 0.206 r_symmetry_hbond_refined 0.194 r_chiral_restr 0.136 r_metal_ion_refined 0.054 r_symmetry_metal_ion_refined 0.038 r_bond_refined_d 0.019 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3815 Nucleic Acid Atoms Solvent Atoms 639 Heterogen Atoms 231
Software Software Software Name Purpose REFMAC refinement MAR345dtb data collection DENZO data reduction SCALEPACK data scaling MOLREP phasing