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Crystal structure of the Fab fragment 22F12 in complex with 3-hydroxybenzo[a]pyrene
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4M1G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 293 2.2 M Na-malonate
Crystal Properties Matthews coefficient Solvent content 2.28 46.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.15 α = 90 b = 81 β = 90 c = 186.16 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 MARMOSAIC 225 mm CCD mirrors 2014-06-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 0.91841 BESSY 14.2
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 2.4 61.1 99.8 0.119 9.4 4.6 35232
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 2.4 2.53 99.3 0.604 2.6 4.8
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 4M1G 2.4 61.1 33462 1704 99.66 0.18268 0.18035 0.1854 0.22795 0.23 RANDOM 36.331
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] -0.23 1.11 -0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.344 r_dihedral_angle_4_deg 17.988 r_dihedral_angle_3_deg 16.822 r_dihedral_angle_1_deg 7.648 r_long_range_B_other 6.004 r_long_range_B_refined 5.902 r_mcangle_other 3.857 r_mcangle_it 3.856 r_scangle_other 3.507 r_mcbond_it 2.221
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.344 r_dihedral_angle_4_deg 17.988 r_dihedral_angle_3_deg 16.822 r_dihedral_angle_1_deg 7.648 r_long_range_B_other 6.004 r_long_range_B_refined 5.902 r_mcangle_other 3.857 r_mcangle_it 3.856 r_scangle_other 3.507 r_mcbond_it 2.221 r_mcbond_other 2.206 r_scbond_it 2.071 r_scbond_other 2.066 r_angle_refined_deg 1.885 r_angle_other_deg 1.055 r_chiral_restr 0.106 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6636 Nucleic Acid Atoms Solvent Atoms 242 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing