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Crystal structure of CB2 Fab
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HG9 chains A,B from pdb 2HG9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Crystals were grown in hanging drops with 1:1 ratio of protein to well solution consisting of 100 mM Hepes, pH 7.5, 20% PEG 10K, and then frozen in mother liquor with 25% PEG 400
Crystal Properties Matthews coefficient Solvent content 2.42 49.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.71 α = 109.42 b = 72.985 β = 100.96 c = 89.919 γ = 96.1
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 CUSTOM-MADE 2004-06-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID APS 19-ID
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 1.95 50 98 0.074 6.9 3.4 63805 63805 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 2.02 91.8 0.366 1.8 2.5 6014
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 (All) 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 chains A,B from pdb 2HG9 1.95 30 63790 57365 6425 97.66 0.19229 0.19229 0.18907 0.1972 0.22079 0.2273 RANDOM 36.246
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] 1.36 0.33 0.1 0.57 -1.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.667 r_dihedral_angle_4_deg 20.308 r_dihedral_angle_3_deg 15.204 r_dihedral_angle_1_deg 6.021 r_scangle_it 3.519 r_mcangle_it 3.331 r_mcbond_it 2.616 r_scbond_it 2.462 r_angle_refined_deg 1.192 r_angle_other_deg 0.721
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.667 r_dihedral_angle_4_deg 20.308 r_dihedral_angle_3_deg 15.204 r_dihedral_angle_1_deg 6.021 r_scangle_it 3.519 r_mcangle_it 3.331 r_mcbond_it 2.616 r_scbond_it 2.462 r_angle_refined_deg 1.192 r_angle_other_deg 0.721 r_mcbond_other 0.471 r_symmetry_hbond_refined 0.419 r_symmetry_vdw_other 0.233 r_nbd_refined 0.185 r_nbd_other 0.18 r_symmetry_vdw_refined 0.179 r_nbtor_refined 0.172 r_xyhbond_nbd_refined 0.14 r_nbtor_other 0.08 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6389 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing