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Anthocyanidin synthase from Arabidopsis thaliana complexed with trans-dihydroquercetin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GP4 PDB ENTRY 1GP4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 18% (W/V) PEG 2000 MONOMETHYLETHER, 50 MM MES,200 MM AMMONIUM ACETATE, 2 MM IRON(II) SULPHATE, 10 MM POTASSIUM ALPHA-KETOGLUTARATE, 10 MM SODIUM ASCORBATE, 10 MM DIHYDROQUERCETIN (IN MEOH TO GIVE A FINAL CONC. OF 10%(V/V) MEOH), PH 6.5, ANAEROBIC (AR ATMOSPHERE,< 0.5 PPM OXYGEN)
Crystal Properties Matthews coefficient Solvent content 2.52 50.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.033 α = 90 b = 74.362 β = 90 c = 88.109 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 2001-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX9.6 SRS PX9.6
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 2.2 30 98.8 0.074 13 2.9 20932 25.9
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 2.2 2.26 99.2 0.28 3.9 2.9
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1GP4 2.2 25 20926 876 98.2 0.204 0.204 0.1982 0.237 RANDOM 26.1
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] -0.89 9.47 -8.59
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.3 c_scangle_it 3.05 c_scbond_it 2.09 c_mcangle_it 2.05 c_angle_deg 1.29 c_mcbond_it 1.29 c_improper_angle_d 0.8 c_bond_d 0.0071 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 22.3 c_scangle_it 3.05 c_scbond_it 2.09 c_mcangle_it 2.05 c_angle_deg 1.29 c_mcbond_it 1.29 c_improper_angle_d 0.8 c_bond_d 0.0071 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 2709 Nucleic Acid Atoms Solvent Atoms 210 Heterogen Atoms 79
Software Software Software Name Purpose CNS refinement MOSFLM data reduction SCALA data scaling AMoRE phasing