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Structure of Fab fragment of the ICSM 18 - anti-Prp therapeutic antibody at 1.57 A resolution.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HHO PDB ENTRY 2HHO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 PEG3350, TRIS PH 8.0
Crystal Properties Matthews coefficient Solvent content 2.3 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 36.784 α = 90 b = 84.71 β = 90 c = 127.852 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 MARRESEARCH MIRRORS 2007-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX10.1 SRS PX10.1
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 1.57 30 95 0.08 12 6.7 54085
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 1.57 1.63 70 0.38 2.3 3.1
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 PDB ENTRY 2HHO 1.57 27 51289 2725 94.9 0.185 0.184 0.1906 0.217 0.2218 RANDOM 18.39
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] -0.06 0.68 -0.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.35 r_dihedral_angle_3_deg 11.624 r_dihedral_angle_4_deg 11.124 r_dihedral_angle_1_deg 6.597 r_scangle_it 1.652 r_angle_refined_deg 1.229 r_scbond_it 1.201 r_mcangle_it 0.838 r_angle_other_deg 0.804 r_mcbond_it 0.518
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.35 r_dihedral_angle_3_deg 11.624 r_dihedral_angle_4_deg 11.124 r_dihedral_angle_1_deg 6.597 r_scangle_it 1.652 r_angle_refined_deg 1.229 r_scbond_it 1.201 r_mcangle_it 0.838 r_angle_other_deg 0.804 r_mcbond_it 0.518 r_metal_ion_refined 0.223 r_symmetry_vdw_other 0.204 r_nbd_other 0.188 r_nbd_refined 0.18 r_nbtor_refined 0.174 r_symmetry_hbond_refined 0.125 r_xyhbond_nbd_refined 0.12 r_symmetry_vdw_refined 0.119 r_mcbond_other 0.11 r_chiral_restr 0.082 r_nbtor_other 0.082 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined 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 3260 Nucleic Acid Atoms Solvent Atoms 667 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing