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X-ray structure of acetylcholine-binding protein (AChBP) in complex with IOTA376.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UW6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG 3350 3%
Ammonium sulphate 1.8M
HEPES buffer 0.1M, pH 7.75
Crystal Properties Matthews coefficient Solvent content 2.13 42.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 143.96 α = 90 b = 120.6 β = 91.5 c = 133.16 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 2020-04-04 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX IV BEAMLINE BioMAX 0.9762 MAX IV BioMAX
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.53 49.51 88.32 0.1379 0.1852 0.907 7.41 2 101963
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.279 91.57 0.6544 0.8643 0.588 1.12 1.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 2.2 49.51 101774 88.32 0.2381 0.2376 0.3038 0.2371 RANDOM 50.55
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] 0.05 0.09 -0.09 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.877 r_dihedral_angle_2_deg 10.757 r_long_range_B_refined 10.641 r_long_range_B_other 10.621 r_dihedral_angle_1_deg 8.705 r_scangle_other 7.059 r_mcangle_it 6.438 r_mcangle_other 6.438 r_scbond_it 4.559 r_scbond_other 4.527
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.877 r_dihedral_angle_2_deg 10.757 r_long_range_B_refined 10.641 r_long_range_B_other 10.621 r_dihedral_angle_1_deg 8.705 r_scangle_other 7.059 r_mcangle_it 6.438 r_mcangle_other 6.438 r_scbond_it 4.559 r_scbond_other 4.527 r_mcbond_it 4.225 r_mcbond_other 4.225 r_angle_refined_deg 1.702 r_angle_other_deg 0.574 r_chiral_restr 0.073 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_dihedral_angle_4_deg r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16185 Nucleic Acid Atoms Solvent Atoms 825 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement PHASER phasing XDS data scaling XDS data reduction