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THE CRYSTAL STRUCTURE OF FDXA, A 7FE FERREDOXIN FROM MYCOBACTERIUM SMEGMATIS
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H98 PDB ENTRY 1H98
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 AMMONIUM SULPHATE, MPD, SODIUM ACETATE, pH 5.50
Crystal Properties Matthews coefficient Solvent content 2.28 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.581 α = 90 b = 54.526 β = 90 c = 135.382 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC CCD 2007-04-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 ESRF ID14-1
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 1.6 20 93.9 0.07 12.9 3.5 26692 2
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 1.6 1.69 99.9 0.34 2.7 3.5
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 1H98 1.6 67.73 25306 1344 98.4 0.167 0.165 0.1737 0.202 0.2086 RANDOM 18.54
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] -0.67 2.49 -1.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.876 r_dihedral_angle_3_deg 13.512 r_dihedral_angle_4_deg 7.664 r_dihedral_angle_1_deg 6.064 r_scangle_it 3.164 r_scbond_it 2.223 r_angle_refined_deg 1.528 r_angle_other_deg 1.223 r_mcbond_it 1.13 r_mcangle_it 1.128
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.876 r_dihedral_angle_3_deg 13.512 r_dihedral_angle_4_deg 7.664 r_dihedral_angle_1_deg 6.064 r_scangle_it 3.164 r_scbond_it 2.223 r_angle_refined_deg 1.528 r_angle_other_deg 1.223 r_mcbond_it 1.13 r_mcangle_it 1.128 r_chiral_restr 0.707 r_nbd_refined 0.298 r_symmetry_vdw_other 0.192 r_nbd_other 0.184 r_xyhbond_nbd_refined 0.178 r_symmetry_hbond_refined 0.174 r_nbtor_refined 0.167 r_symmetry_vdw_refined 0.124 r_nbtor_other 0.086 r_bond_other_d 0.018 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1569 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction MOSFLM data scaling MOLREP phasing