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Structure of rabbit actin bound to a truncated Mycalolide B analogue containing an expanded cyclohexane moiety
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6W7V
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 294 25% PEG 3350, 200 mM MgCl2 , 100 mM TRIS-HCl pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.1 41.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.85 α = 90 b = 75.31 β = 92.44 c = 61.95 γ = 90
Symmetry Space Group P 1 21 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 9M 2026-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 0.95371 CLSI 08ID-1
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 1.72 47.86 99.9 0.133 0.144 0.995 8.3 6.85 36870 33.494
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.72 1.77 99.7 0.704 1.47
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-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 1.72 47.86 34858 2012 99.91 0.1817 0.17899 0.1795 0.22933 0.2192 RANDOM 32.84
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] -1.64 1.81 -1.69 3.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.986 r_dihedral_angle_2_deg 8.942 r_long_range_B_refined 7.022 r_long_range_B_other 6.995 r_dihedral_angle_1_deg 6.009 r_scangle_other 5.402 r_scbond_it 3.489 r_scbond_other 3.488 r_mcangle_it 3.317 r_mcangle_other 3.317
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.986 r_dihedral_angle_2_deg 8.942 r_long_range_B_refined 7.022 r_long_range_B_other 6.995 r_dihedral_angle_1_deg 6.009 r_scangle_other 5.402 r_scbond_it 3.489 r_scbond_other 3.488 r_mcangle_it 3.317 r_mcangle_other 3.317 r_mcbond_it 2.424 r_mcbond_other 2.424 r_angle_refined_deg 1.689 r_angle_other_deg 0.55 r_chiral_restr 0.077 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_bond_other_d 0.001 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 2818 Nucleic Acid Atoms Solvent Atoms 200 Heterogen Atoms 108
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling MOLREP phasing