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Binding of two substrate analogue molecules to dihydroflavonol 4-reductase alters the functional geometry of the catalytic site
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.9 293 NaCl 130 mM, 35% PEG 3350, 100 mM Hepes pH 6.9, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.83 56.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 174.943 α = 90 b = 174.943 β = 90 c = 290.167 γ = 120
Symmetry Space Group P 61 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 CCD ADSC QUANTUM 4 mirrors 2006-03-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.9330 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.9 75.81 100 0.153 0.153 4.1 14.3 58753
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.9 3.06 100 0.425 0.425 1.7 14.2 8428
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.9 75.81 58667 2967 99.99 0.292 0.288 0.2922 0.366 0.3708 RANDOM 22.069
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] 0.41 0.21 0.41 -0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.891 r_dihedral_angle_4_deg 20.845 r_dihedral_angle_3_deg 20.184 r_dihedral_angle_1_deg 7.128 r_angle_refined_deg 2.331 r_mcangle_it 2.08 r_angle_other_deg 1.44 r_scangle_it 1.315 r_mcbond_it 1.234 r_scbond_it 0.823
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.891 r_dihedral_angle_4_deg 20.845 r_dihedral_angle_3_deg 20.184 r_dihedral_angle_1_deg 7.128 r_angle_refined_deg 2.331 r_mcangle_it 2.08 r_angle_other_deg 1.44 r_scangle_it 1.315 r_mcbond_it 1.234 r_scbond_it 0.823 r_symmetry_vdw_refined 0.262 r_nbd_refined 0.225 r_xyhbond_nbd_refined 0.201 r_nbtor_refined 0.19 r_nbd_other 0.188 r_symmetry_vdw_other 0.161 r_mcbond_other 0.161 r_chiral_restr 0.122 r_symmetry_hbond_refined 0.114 r_xyhbond_nbd_other 0.096 r_nbtor_other 0.087 r_bond_refined_d 0.013 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15182 Nucleic Acid Atoms Solvent Atoms 129 Heterogen Atoms 486
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction