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Crystal structure of Aplysia californica AChBP in complex with alpha- conotoxin ImI
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BYN PDB ENTRY 2BYN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 11-14% PEG-4000, 0.1 M TRIS, PH 7.5, 0.4 M MGCL2
Crystal Properties Matthews coefficient Solvent content 2.44 49.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.284 α = 90 b = 140.036 β = 90 c = 153.386 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.1 ALS 8.2.1
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 2.07 50 99.9 0.08 29.5 5.1 86601
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 2BYN 2.07 20 83709 1700 99.8 0.174 0.173 0.1978 0.214 0.2406 RANDOM 38.98
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] 1.09 -0.84 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.1 r_dihedral_angle_4_deg 19.695 r_dihedral_angle_3_deg 15.305 r_dihedral_angle_1_deg 7.238 r_scangle_it 2.588 r_scbond_it 1.802 r_angle_refined_deg 1.416 r_mcangle_it 1.194 r_mcbond_it 1.008 r_angle_other_deg 0.837
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.1 r_dihedral_angle_4_deg 19.695 r_dihedral_angle_3_deg 15.305 r_dihedral_angle_1_deg 7.238 r_scangle_it 2.588 r_scbond_it 1.802 r_angle_refined_deg 1.416 r_mcangle_it 1.194 r_mcbond_it 1.008 r_angle_other_deg 0.837 r_symmetry_vdw_other 0.241 r_symmetry_hbond_refined 0.231 r_symmetry_vdw_refined 0.211 r_nbd_other 0.193 r_nbd_refined 0.185 r_xyhbond_nbd_refined 0.184 r_nbtor_refined 0.172 r_chiral_restr 0.085 r_nbtor_other 0.083 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8865 Nucleic Acid Atoms Solvent Atoms 1042 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing