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Crystal structure of erenumab Fab bound to the extracellular domain of CGRP receptor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3N7P PDB entry 3N7P
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 0.12 M ethylene glycols, 0.1 M HEPES:MOPS, pH 7.5, 37.5% MPD + PEG1000 + PEG3350
Crystal Properties Matthews coefficient Solvent content 1.95 36.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.464 α = 90 b = 112.52 β = 91.84 c = 77.254 γ = 90
Symmetry Space Group P 1 21 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 RIGAKU SATURN 92 VariMax HF 2015-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 30 99.9 0.14 0.165 0.088 5.6 3.4 33135
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.8 99.9 0.593 0.704 0.376 0.698 2.07 3.3
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 3N7P 2.7 30 31528 1555 99.74 0.2466 0.2448 0.2423 0.2819 0.2778 RANDOM 36.707
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] 0.75 0.17 -0.19 -0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.016 r_dihedral_angle_4_deg 18.564 r_dihedral_angle_3_deg 14.907 r_dihedral_angle_1_deg 5.173 r_angle_refined_deg 0.899 r_angle_other_deg 0.817 r_chiral_restr 0.053 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.016 r_dihedral_angle_4_deg 18.564 r_dihedral_angle_3_deg 14.907 r_dihedral_angle_1_deg 5.173 r_angle_refined_deg 0.899 r_angle_other_deg 0.817 r_chiral_restr 0.053 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9718 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection DENZO data reduction HKL-2000 data reduction SCALEPACK data scaling HKL-2000 data scaling PHASER phasing MOLREP phasing REFMAC refinement Coot model building PHENIX model building PDB_EXTRACT data extraction