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Pyrone synthase (PYS) from Gerbera hybrida
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BI5 MODELISATION BASED ON PDB ENTRY 1BI5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 277 HANGING DROP AT 4C, 1:1 25 MG/ML PYS + XTAL CONDITION (1.5 M AMMONIUM SULFATE, 0.05 M SUCCINIC ACID, PH 5.5, 2 MM DTT)
Crystal Properties Matthews coefficient Solvent content 2.12 42.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 82.14 α = 90 b = 82.14 β = 90 c = 241.325 γ = 120
Symmetry Space Group P 31 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 105 IMAGE PLATE BRUKER NONIUS DIP 2030 IMAGE PLATE MIRRORS 1999-07-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE MAC SCIENCE MULTI WAVELENGTH SRA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 41.07 92.2 0.08 16 16.5 48438
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MODELISATION BASED ON PDB ENTRY 1BI5 2.1 10 48438 2572 87.5 0.185 0.1808 0.1861 0.2689 RANDOM
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]
Coordinate Error Structure Solution Method Refinement High Resolution Refinement Low Resolution 14 6561.94
RMS Deviations Key Refinement Restraint Deviation s_similar_adp_cmpnt 0.083 s_non_zero_chiral_vol 0.042 s_zero_chiral_vol 0.029 s_from_restr_planes 0.0251 s_angle_d 0.023 s_anti_bump_dis_restr 0.023 s_bond_d 0.006 s_similar_dist s_rigid_bond_adp_cmpnt s_approx_iso_adps
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5780 Nucleic Acid Atoms Solvent Atoms 775 Heterogen Atoms
Software Software Software Name Purpose SHELXL-97 refinement DENZO data reduction SCALEPACK data scaling EPMR phasing