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Designed pentameric proton channel LQLL I13S
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6MCT PDB entry 6MCT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 LIPIDIC CUBIC PHASE 293 0.125 M CaCl2, 0.02 M TRIS pH 7.4, 30% PEG 3K, 30% PEG 400 Cryoprotectant
Crystal Properties Matthews coefficient Solvent content 2.01 38.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.645 α = 90 b = 54.645 β = 90 c = 80.668 γ = 90
Symmetry Space Group P 42 21 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 PIXEL DECTRIS EIGER2 XE 16M 2024-04-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-1 0.97946 SSRL BL12-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.19 54.65 94.4 0.997 3.3 12.1 6350
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.19 2.26 82.3 5.315 0.4 10.1
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.9 45.242 2796 276 92.952 0.248 0.2445 0.2472 0.2775 0.2775 52.807
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] 0.182 0.182 -0.365
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.141 r_dihedral_angle_6_deg 13.749 r_lrange_it 12.366 r_dihedral_angle_2_deg 8.44 r_scangle_it 8.166 r_mcangle_it 7.613 r_scbond_it 5.115 r_mcbond_it 4.872 r_dihedral_angle_1_deg 3.77 r_angle_refined_deg 1.585
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 18.141 r_dihedral_angle_6_deg 13.749 r_lrange_it 12.366 r_dihedral_angle_2_deg 8.44 r_scangle_it 8.166 r_mcangle_it 7.613 r_scbond_it 5.115 r_mcbond_it 4.872 r_dihedral_angle_1_deg 3.77 r_angle_refined_deg 1.585 r_symmetry_nbd_refined 0.365 r_nbtor_refined 0.325 r_nbd_refined 0.219 r_chiral_restr 0.118 r_ncsr_local_group_3 0.115 r_ncsr_local_group_6 0.11 r_ncsr_local_group_10 0.109 r_ncsr_local_group_8 0.107 r_ncsr_local_group_7 0.106 r_ncsr_local_group_4 0.096 r_ncsr_local_group_1 0.094 r_ncsr_local_group_2 0.079 r_ncsr_local_group_9 0.077 r_ncsr_local_group_5 0.072 r_xyhbond_nbd_refined 0.06 r_gen_planes_refined 0.008 r_bond_refined_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1012 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement DIALS data reduction Aimless data scaling PHASER phasing