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Crystal structure of AcAChBP in complex with anatoxin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2XYS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 298 Reservoir solution: 8% PEG 4K, 0.1 M NaOAc pH 4.6
Protein buffer: 50 mM tris, 250 mM NaCl, pH 7.5, 4mg/ml
Crystal Properties Matthews coefficient Solvent content 3.76 67.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 211.968 α = 90 b = 129.872 β = 103.17 c = 131.322 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 CCD RIGAKU SATURN 944+ 2017-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.5 127.87 99.5 0.228 0.089 0.982 7.4 11.8 119138 23
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.54 99.3 0.662 0.286 0.813 1.8 9.3
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 2xys 2.5 59.77 113033 6041 99.53 0.2546 0.2528 0.2538 0.289 0.2903 RANDOM 26.137
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] -1.24 -1.1 2.12 -0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.532 r_dihedral_angle_4_deg 17.545 r_dihedral_angle_3_deg 12.629 r_dihedral_angle_1_deg 7.244 r_angle_refined_deg 1.093 r_angle_other_deg 0.842 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.532 r_dihedral_angle_4_deg 17.545 r_dihedral_angle_3_deg 12.629 r_dihedral_angle_1_deg 7.244 r_angle_refined_deg 1.093 r_angle_other_deg 0.842 r_chiral_restr 0.064 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 16442 Nucleic Acid Atoms Solvent Atoms 957 Heterogen Atoms 316
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction DIALS data reduction Aimless data scaling MOLREP phasing