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Crystal structure of the chimeric protein of 5-HT2B-BRIL in complex with ergotamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PBL PDB Entry 3PBL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Lipid Cubic Phase (LCP) 8 293 100 mM Tris/HCl pH 8.0, 100 mM magnesium sulfate and 30% (v/v) PEG400, Lipid Cubic Phase (LCP) , temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.2 61.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.571 α = 90 b = 119.75 β = 90 c = 170.607 γ = 90
Symmetry Space Group C 2 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 MARMOSAIC 300 mm CCD mirrors 2012-08-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.0330 APS 23-ID-D
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 2.7 50 90.5 0.15 8.7 3.2 16041 72.1
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 2.7 2.8 92.2 0.91 1.7 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 3PBL 2.7 24.84 15818 823 90.69 0.2265 0.2244 0.2372 0.2663 0.2761 RANDOM 80.04
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] -2.0121 -1.2375 3.2497
RMS Deviations Key Refinement Restraint Deviation f_other_torsion 3.09 f_omega_torsion 1.91 f_angle_deg 0.99 f_bond_d 0.009 f_dihedral_angle_d f_incorr_chiral_ct f_pseud_angle f_trig_c_planes f_gen_planes f_it
RMS Deviations Key Refinement Restraint Deviation f_other_torsion 3.09 f_omega_torsion 1.91 f_angle_deg 0.99 f_bond_d 0.009 f_dihedral_angle_d f_incorr_chiral_ct f_pseud_angle f_trig_c_planes f_gen_planes f_it f_nbd f_improper_torsion f_chiral_improper_torsion f_sum_occupancies f_utility_distance f_utility_angle f_utility_torsion f_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2849 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 205
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing PHENIX refinement BUSTER refinement HKL-3000 data reduction HKL-3000 data scaling