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A198G:L230A mutant flavocytochrome b2 with pyruvate bound
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1FCB pdb id 1fcb
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.1 291 0.1 M citrate, 200 mM NaBr, 12-15 % PEG3350, 18-20% glycerol, 50 mM pyruvate, pH 4.1, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 4.9 74.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 163.413 α = 90 b = 163.413 β = 90 c = 112.425 γ = 120
Symmetry Space Group P 32 2 1
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 4 2002-03-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.9340 ESRF ID14-2
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 2.7 24 99.6 0.071 14.8 47854 47555 40.2
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 2.7 2.8 99.9 0.202 4.8 4719
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 pdb id 1fcb 2.7 24 47854 45117 2407 99.56 0.22155 0.21983 0.2194 0.25331 0.2495 RANDOM 50.489
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] 1.54 0.77 1.54 -2.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.019 r_scangle_it 5.073 r_scbond_it 2.996 r_mcangle_it 1.44 r_angle_refined_deg 1.438 r_mcbond_it 0.694 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.2 r_xyhbond_nbd_refined 0.148 r_symmetry_hbond_refined 0.128
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 7.019 r_scangle_it 5.073 r_scbond_it 2.996 r_mcangle_it 1.44 r_angle_refined_deg 1.438 r_mcbond_it 0.694 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.2 r_xyhbond_nbd_refined 0.148 r_symmetry_hbond_refined 0.128 r_chiral_restr 0.124 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_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 6090 Nucleic Acid Atoms Solvent Atoms 170 Heterogen Atoms 74
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement