☰ Navigation Tabs
Allosteric Inhibition as a new mode of Action for BAY 1213790, a Neutralizing Antibody Targeting the Activated form of Coagulation Factor XI
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GJE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 7.5 293 20 mM Tris-HCl pH 7.5,75 mM NaCl
Crystal Properties Matthews coefficient Solvent content 2.74 55.09
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.941 α = 90 b = 70.679 β = 90 c = 185.893 γ = 90
Symmetry Space Group P 21 2 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 MAR CCD 130 mm 2012-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91832 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 99 99.8 9.41 4.2 23127
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.86
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3GJE 2.7 92.95 21948 1182 99.57 0.2317 0.2274 0.3144 0.2893 RANDOM 38.936
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] -0.67 -2.68 3.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.599 r_dihedral_angle_3_deg 20.671 r_dihedral_angle_4_deg 18.094 r_dihedral_angle_1_deg 9.298 r_angle_refined_deg 2.171 r_angle_other_deg 1.153 r_chiral_restr 0.115 r_bond_refined_d 0.02 r_gen_planes_refined 0.009 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.599 r_dihedral_angle_3_deg 20.671 r_dihedral_angle_4_deg 18.094 r_dihedral_angle_1_deg 9.298 r_angle_refined_deg 2.171 r_angle_other_deg 1.153 r_chiral_restr 0.115 r_bond_refined_d 0.02 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5042 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 19
Software Software Software Name Purpose XDS data reduction SCALA data scaling MOLREP phasing BALBES phasing REFMAC refinement PDB_EXTRACT data extraction