☰ Navigation Tabs
Crystal Structure of the yeast Sec23/24 heterodimer
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1M2O Sec23 from PDB ENTRY 1M2O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 273 1.0 M ammonium formate, 18 mM dithiothreitol, 10 % (w/v) xylitol, 0.1 M Hepes
pH 7.5, VAPOR DIFFUSION, HANGING DROP at 273K
Crystal Properties Matthews coefficient Solvent content 2.72 54.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.309 α = 90 b = 126.371 β = 90 c = 180.2 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 QUANTUM 4 2002-02-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X25 1.050 NSLS X25
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 2.75 25 91.2 0.062 54236 49463 -3 37.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.75 2.92
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT Sec23 from PDB ENTRY 1M2O 2.75 19.96 54236 49495 2388 91.2 0.21 0.21 0.257 RANDOM 52.2
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] 5.87 7.31 -13.19
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 23.7 c_scangle_it 3.03 c_mcangle_it 2.47 c_scbond_it 1.89 c_angle_deg 1.4 c_mcbond_it 1.4 c_improper_angle_d 0.95 c_bond_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11506 Nucleic Acid Atoms Solvent Atoms 69 Heterogen Atoms 2
Software Software Software Name Purpose AMoRE phasing CNS refinement DENZO data reduction CCP4 data scaling