☰ Navigation Tabs
Crystal Structure of the Allene Oxide Cyclase 1 from Physcomitrella patens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2DIO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 292 Hampton Magic Screen condition no. 49 containing 20 % (w/v) PEG 8000, 0.1 M Na3PO4, pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.52 51.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.321 α = 84.61 b = 67.43 β = 79.32 c = 161.775 γ = 61.99
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 MARMOSAIC 225 mm CCD mirrors 2008-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
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 1.35 19.8 82.4 0.023 15.98 1.7 446841 446841 -3 22.825
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 1.35 1.45 79.3 0.417 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 2DIO 1.35 19.8 -3 446841 424547 22345 82.39 0.1396 0.1378 0.1386 0.1741 0.1749 thin shells (NCS) 27.2248
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] -0.19 0.34 0.01 0.33 -0.86 -0.29
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.952 r_dihedral_angle_2_deg 29.59 r_sphericity_bonded 18.593 r_dihedral_angle_4_deg 15.106 r_dihedral_angle_3_deg 11.417 r_dihedral_angle_1_deg 6.258 r_rigid_bond_restr 4.104 r_angle_refined_deg 1.587 r_chiral_restr 0.107 r_bond_refined_d 0.016
RMS Deviations Key Refinement Restraint Deviation r_sphericity_free 32.952 r_dihedral_angle_2_deg 29.59 r_sphericity_bonded 18.593 r_dihedral_angle_4_deg 15.106 r_dihedral_angle_3_deg 11.417 r_dihedral_angle_1_deg 6.258 r_rigid_bond_restr 4.104 r_angle_refined_deg 1.587 r_chiral_restr 0.107 r_bond_refined_d 0.016 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16577 Nucleic Acid Atoms Solvent Atoms 2591 Heterogen Atoms 133
Software Software Software Name Purpose MOSFLM data reduction XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction MAR345dtb data collection XDS data reduction PHASER phasing