☰ Navigation Tabs
Structure of the binary complex leucoanthocyanidin reductase-NADPH from vitis vinifera
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QX7 pdb entry 2QX7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 PEG 4000 31%, TRIS-HCL 0.1M, SODIUM ACETATE 0.2M, glycerol 2.5%, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.07 40.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.866 α = 90 b = 50.894 β = 102.26 c = 68.935 γ = 90
Symmetry Space Group P 1 21 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 DIAMAND (1,1,1), GE (2,2,0) 2007-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.933 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 1.87 40.62 99.5 0.077 0.077 6 3.6 24470 24470 27.37
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) 1 1.87 1.97 98.9 0.355 0.355 2 3.5 3584
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 (All) 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 2QX7 1.87 40.62 24470 24470 1278 99.49 0.18218 0.18218 0.17888 0.1925 0.24525 0.2522 RANDOM 19.67
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] -0.12 1.14 -0.26 0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.117 r_dihedral_angle_4_deg 14.261 r_dihedral_angle_3_deg 13.041 r_dihedral_angle_1_deg 5.772 r_scangle_it 5.261 r_scbond_it 3.804 r_mcangle_it 3.344 r_mcbond_it 2.232 r_angle_refined_deg 1.441 r_chiral_restr 0.219
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.117 r_dihedral_angle_4_deg 14.261 r_dihedral_angle_3_deg 13.041 r_dihedral_angle_1_deg 5.772 r_scangle_it 5.261 r_scbond_it 3.804 r_mcangle_it 3.344 r_mcbond_it 2.232 r_angle_refined_deg 1.441 r_chiral_restr 0.219 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2226 Nucleic Acid Atoms Solvent Atoms 220 Heterogen Atoms 48
Software Software Software Name Purpose DNA data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling