☰ Navigation Tabs
Crystal structure of the neurotensin receptor 1 (NTSR1-H4bmx) in complex with NTS8-13
Serial Crystallography (SX)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YVR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 293.15 100 mM MES
350-450 mM ammonium tartrate
30% (v/v) PEG400
10 uM NTS8-13
Crystal Properties Matthews coefficient Solvent content 2.57 52.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.223 α = 90 b = 77.533 β = 107.219 c = 111.858 γ = 90
Symmetry Space Group C 1 2 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 PIXEL DECTRIS EIGER X 16M 2019-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.000009 SLS X06SA
Serial Crystallography Sample delivery method Diffraction ID Description Sample Delivery Method 1 fixed target
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.595 29.251 88.9 0.453 0.484 0.165 0.921 4.3 8.5 14177
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 2.595 2.802 2.576 2.76 0.97 0.458 1.5
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6YVR 2.595 29.251 14177 723 80.492 0.256 0.2556 0.2573 0.2723 0.2688 33.074
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] 0.276 -0.547 1.332 -1.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.61 r_dihedral_angle_3_deg 15.596 r_dihedral_angle_4_deg 15.293 r_dihedral_angle_1_deg 5.631 r_lrange_it 5.607 r_lrange_other 5.607 r_mcangle_it 2.061 r_mcangle_other 2.061 r_scangle_it 2.028 r_scangle_other 2.027
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.61 r_dihedral_angle_3_deg 15.596 r_dihedral_angle_4_deg 15.293 r_dihedral_angle_1_deg 5.631 r_lrange_it 5.607 r_lrange_other 5.607 r_mcangle_it 2.061 r_mcangle_other 2.061 r_scangle_it 2.028 r_scangle_other 2.027 r_angle_refined_deg 1.216 r_mcbond_it 1.215 r_mcbond_other 1.214 r_angle_other_deg 1.196 r_scbond_it 1.178 r_scbond_other 1.176 r_symmetry_xyhbond_nbd_refined 0.189 r_nbd_refined 0.188 r_symmetry_nbd_other 0.186 r_nbtor_refined 0.161 r_xyhbond_nbd_refined 0.144 r_nbd_other 0.13 r_symmetry_nbd_refined 0.117 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.047 r_symmetry_xyhbond_nbd_other 0.01 r_gen_planes_refined 0.004 r_bond_refined_d 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3433 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing