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Crystal structure of the 13F6-1-2 Fab fragment bound to its Ebola virus glycoprotein peptide epitope.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YEC PDB ENTRY 1YEC
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 295 16% (w/v) PEG 8000, 0.04M potassium phosphate, 20% (v/v) glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 3.47 64.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.24 α = 90 b = 70.3 β = 90 c = 142.12 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 315 2005-08-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
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 46.29 99.7 0.084 6.8 4.02 86917 35.8
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) 2 2.07 99.7 0.523 1.7 3.51
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-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 1YEC 2 46.29 86917 4412 97.4 0.203 0.1916 0.245 0.2323 RANDOM 24.3
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] 14.205 15.006 15.585
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.195 f_angle_d 1.346 f_bond_d 0.015 f_chiral_restr f_plane_restr
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3426 Nucleic Acid Atoms Solvent Atoms 233 Heterogen Atoms
Software Software Software Name Purpose PHENIX refinement CNS refinement d*TREK data scaling PDB_EXTRACT data extraction d*TREK data reduction CNS phasing