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The hapten triclocarban bound to the single domain camelid nanobody VHH T9
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OL0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 298 protein stock solution was 11 mg/ml
well was 10% PEG 3000, 200 mM zinc acetate, 100 mM sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.56 52.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 101.113 α = 90 b = 52.485 β = 113.74 c = 57.463 γ = 90
Symmetry Space Group C 1 2 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 MARMOSAIC 325 mm CCD 2012-05-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.97946 SSRL BL9-2
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 1.79 38.47 97 0.061 14.7 3.5 25168
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) 1 1.79 1.88 86.9 0.318 5.2
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 1OL0 1.79 38.47 24347 815 96.41 0.20557 0.20425 0.2098 0.24249 0.2475 RANDOM 19.531
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] 1.57 -0.13 -1.36 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.484 r_dihedral_angle_4_deg 25.269 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_1_deg 6.325 r_long_range_B_refined 5.263 r_scbond_it 2.143 r_mcangle_it 1.972 r_angle_refined_deg 1.714 r_mcbond_it 1.298 r_chiral_restr 0.116
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.484 r_dihedral_angle_4_deg 25.269 r_dihedral_angle_3_deg 14.436 r_dihedral_angle_1_deg 6.325 r_long_range_B_refined 5.263 r_scbond_it 2.143 r_mcangle_it 1.972 r_angle_refined_deg 1.714 r_mcbond_it 1.298 r_chiral_restr 0.116 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1878 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing