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CRYSTAL STRUCTURE OF THE RADICAL FORM OF PYRUVATE:FERREDOXIN OXIDOREDUCTASE FROM Desulfovibrio africanus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KEK PDB ENTRY 1KEK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 9 10% PEG6000, 100MM MGCL2, 100MM TRIS-HCL PH 9
Crystal Properties Matthews coefficient Solvent content 2.27 45.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.081 α = 90 b = 145.639 β = 90 c = 211.619 γ = 90
Symmetry Space Group P 21 21 21
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 CCD 2003-11-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.93 50 90.8 0.1 11 4.4 182457 2 10.3
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 1.93 2.1 89.8 0.27 5.3 4.2
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 (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 PDB ENTRY 1KEK 1.93 8 173900 17257 88.4 0.186 0.186 0.1858 0.228 0.181 RANDOM 23
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] -4.59 0.95 3.64
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.7 c_scangle_it 2.65 c_scbond_it 1.86 c_mcangle_it 1.75 c_angle_deg 1.4 c_mcbond_it 1.17 c_improper_angle_d 0.81 c_bond_d 0.006 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.7 c_scangle_it 2.65 c_scbond_it 1.86 c_mcangle_it 1.75 c_angle_deg 1.4 c_mcbond_it 1.17 c_improper_angle_d 0.81 c_bond_d 0.006 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18688 Nucleic Acid Atoms Solvent Atoms 1978 Heterogen Atoms 116
Software Software Software Name Purpose CNS refinement XDS data reduction XSCALE data scaling CNS phasing