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Crystal structure of hBR3 bound to CB3s-Fab
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HFF CB2-Fab
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Drops contained 2.1 microliters protein solution (pH 6.5) and 2.9 microliters of (0.1M citric acid pH 3.0, 24% PEG 3350, and 0.1 M Praseodymium (III) acetate) over a reservoir of 24% PEG 3350. pH of final drop ~4.5.
Crystal Properties Matthews coefficient Solvent content 2.47 50.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 146.408 α = 90 b = 146.408 β = 90 c = 146.408 γ = 90
Symmetry Space Group I 21 3
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 2004-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 ALS 5.0.1
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 2.6 50 100 0.064 11.7 16168 16168 -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 2.6 2.69 100 0.44 3.2 11.3 1598
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 (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 CB2-Fab 2.61 30 -3 15891 15891 1595 100 0.20052 0.20052 0.19462 0.1966 0.25245 0.2456 RANDOM 47.436
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.453 r_dihedral_angle_4_deg 22.346 r_dihedral_angle_3_deg 17.143 r_dihedral_angle_1_deg 6.466 r_mcangle_it 3.702 r_scangle_it 3.445 r_mcbond_it 2.807 r_scbond_it 2.327 r_angle_refined_deg 1.256 r_angle_other_deg 0.751
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.453 r_dihedral_angle_4_deg 22.346 r_dihedral_angle_3_deg 17.143 r_dihedral_angle_1_deg 6.466 r_mcangle_it 3.702 r_scangle_it 3.445 r_mcbond_it 2.807 r_scbond_it 2.327 r_angle_refined_deg 1.256 r_angle_other_deg 0.751 r_mcbond_other 0.48 r_symmetry_vdw_other 0.239 r_nbd_refined 0.204 r_nbd_other 0.186 r_nbtor_refined 0.178 r_symmetry_vdw_refined 0.146 r_xyhbond_nbd_refined 0.118 r_nbtor_other 0.083 r_chiral_restr 0.073 r_symmetry_hbond_refined 0.072 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3448 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing