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The structure of membrane-active antibiotic cyclodecapeptide gramicidin S in complex with urea
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Urea, HCl, 95% Ethanol
Crystal Properties Matthews coefficient Solvent content 1.78 30.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 25.8 α = 90 b = 25.8 β = 90 c = 21.49 γ = 120
Symmetry Space Group P 31 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 293 DIFFRACTOMETER CUSTOM-MADE 1978-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE 1.5406
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 0.98 22.34 81.1 210 4028
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION AB INITIO PHASING FREE R-VALUE 0.98 22.34 4028 205 80.738 0.14 0.14 0.1318 0.1316 Random selection 8.88
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] 0.064 0.032 0.064 -0.208
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 23.292 r_dihedral_angle_3_deg 9.574 r_dihedral_angle_1_deg 7.751 r_lrange_other 4.54 r_lrange_it 4.488 r_scangle_other 4.228 r_scangle_it 4.176 r_scbond_other 2.927 r_scbond_it 2.916 r_angle_refined_deg 2.196
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 23.292 r_dihedral_angle_3_deg 9.574 r_dihedral_angle_1_deg 7.751 r_lrange_other 4.54 r_lrange_it 4.488 r_scangle_other 4.228 r_scangle_it 4.176 r_scbond_other 2.927 r_scbond_it 2.916 r_angle_refined_deg 2.196 r_chiral_restr 1.735 r_mcangle_it 1.336 r_mcangle_other 1.332 r_mcbond_it 1.023 r_mcbond_other 1.02 r_angle_other_deg 0.881 r_nbd_refined 0.244 r_nbtor_refined 0.221 r_symmetry_nbd_other 0.204 r_symmetry_nbtor_other 0.168 r_xyhbond_nbd_refined 0.119 r_symmetry_xyhbond_nbd_refined 0.118 r_nbd_other 0.114 r_bond_refined_d 0.021 r_gen_planes_refined 0.013 r_bond_other_d 0.004 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 82 Nucleic Acid Atoms Solvent Atoms 9 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement