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Structure of DC8E8 Fab at pH 6.5 crystallized in space-group P1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4OZ4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 20% PEG 8000, 0.1 M Na-cacodylate, 0.2 M Mg-acetate
Crystal Properties Matthews coefficient Solvent content 2.33 47.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.22 α = 92.32 b = 82.26 β = 95.47 c = 89.31 γ = 89.82
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 2008-08-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.0000 SLS X06DA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) 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 2.5 34.37 96.7 0.082 0.113 0.99 9.31 2.067 58019 -3 35.944
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.56 96.7 0.445 0.614 0.607 1.96 2.058
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4OZ4 2.5 34.37 49128 2491 86.06 0.2219 0.2193 0.2246 0.2721 0.2737 RANDOM 32.255
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] 1.4 0.94 -3.4 -13.18 3.81 11.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.609 r_dihedral_angle_4_deg 20.614 r_dihedral_angle_3_deg 15.867 r_dihedral_angle_1_deg 7.404 r_angle_refined_deg 1.616 r_angle_other_deg 1.31 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.609 r_dihedral_angle_4_deg 20.614 r_dihedral_angle_3_deg 15.867 r_dihedral_angle_1_deg 7.404 r_angle_refined_deg 1.616 r_angle_other_deg 1.31 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13298 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 1
Software Software Software Name Purpose XDS data reduction XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction