data_6MXF # _entry.id 6MXF # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.381 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 6MXF pdb_00006mxf 10.2210/pdb6mxf/pdb WWPDB D_1000237739 ? ? EMDB EMD-9292 ? ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type EMDB 'MicroED structure of thiostrepton at 1.9 A resolution' EMD-9292 'associated EM volume' EMDB . EMD-9291 'other EM volume' EMDB . EMD-9290 'other EM volume' EMDB . EMD-9282 'other EM volume' EMDB . EMD-9283 'other EM volume' EMDB . EMD-9284 'other EM volume' EMDB . EMD-9285 'other EM volume' EMDB . EMD-9286 'other EM volume' EMDB . EMD-9287 'other EM volume' EMDB . EMD-9288 'other EM volume' EMDB . EMD-9289 'other EM volume' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6MXF _pdbx_database_status.recvd_initial_deposition_date 2018-10-30 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_cs ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Jones, C.G.' 1 0000-0003-4308-1368 'Martynowycz, M.W.' 2 0000-0003-0055-230X 'Hattne, J.' 3 0000-0002-8936-0912 'Fulton, T.' 4 ? 'Stoltz, B.M.' 5 0000-0001-9837-1528 'Rodriguez, J.A.' 6 0000-0001-8471-2504 'Nelson, H.M.' 7 0000-0002-4666-2793 'Gonen, T.' 8 0000-0002-9254-4069 # _citation.abstract ? _citation.abstract_id_CAS ? _citation.book_id_ISBN ? _citation.book_publisher ? _citation.book_publisher_city ? _citation.book_title ? _citation.coordinate_linkage ? _citation.country US _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'ACS Cent Sci' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2374-7943 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 4 _citation.language ? _citation.page_first 1587 _citation.page_last 1592 _citation.title 'The CryoEM Method MicroED as a Powerful Tool for Small Molecule Structure Determination.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1021/acscentsci.8b00760 _citation.pdbx_database_id_PubMed 30555912 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Jones, C.G.' 1 ? primary 'Martynowycz, M.W.' 2 ? primary 'Hattne, J.' 3 ? primary 'Fulton, T.J.' 4 ? primary 'Stoltz, B.M.' 5 ? primary 'Rodriguez, J.A.' 6 ? primary 'Nelson, H.M.' 7 ? primary 'Gonen, T.' 8 ? # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 6MXF _cell.details ? _cell.formula_units_Z ? _cell.length_a 26.219 _cell.length_a_esd ? _cell.length_b 26.219 _cell.length_b_esd ? _cell.length_c 27.534 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 8 _cell.reciprocal_angle_alpha ? _cell.reciprocal_angle_beta ? _cell.reciprocal_angle_gamma ? _cell.reciprocal_angle_alpha_esd ? _cell.reciprocal_angle_beta_esd ? _cell.reciprocal_angle_gamma_esd ? _cell.reciprocal_length_a ? _cell.reciprocal_length_b ? _cell.reciprocal_length_c ? _cell.reciprocal_length_a_esd ? _cell.reciprocal_length_b_esd ? _cell.reciprocal_length_c_esd ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MXF _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' _symmetry.pdbx_full_space_group_name_H-M ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn Thiostrepton 1805.985 1 ? ? ? ? 2 water nat water 18.015 2 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code '(QUA)IA(DHA)AS(BB9)T(DBU)(DCY)(TS9)(BB9)T(BB9)(MH6)(BB9)(DHA)(DHA)(NH2)' _entity_poly.pdbx_seq_one_letter_code_can XIASASCTTCICTCSCSSX _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 QUA n 1 2 ILE n 1 3 ALA n 1 4 DHA n 1 5 ALA n 1 6 SER n 1 7 BB9 n 1 8 THR n 1 9 DBU n 1 10 DCY n 1 11 TS9 n 1 12 BB9 n 1 13 THR n 1 14 BB9 n 1 15 MH6 n 1 16 BB9 n 1 17 DHA n 1 18 DHA n 1 19 NH2 n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num 1 _pdbx_entity_src_syn.pdbx_end_seq_num 19 _pdbx_entity_src_syn.organism_scientific 'Streptomyces azureus' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 146537 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 6MXF _struct_ref.pdbx_db_accession 6MXF _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 6MXF _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 19 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 6MXF _struct_ref_seq.db_align_beg 0 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 18 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 0 _struct_ref_seq.pdbx_auth_seq_align_end 18 # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight ALA 'L-peptide linking' y ALANINE ? 'C3 H7 N O2' 89.093 BB9 'peptide linking' n '(2Z)-2-amino-3-sulfanylprop-2-enoic acid' ? 'C3 H5 N O2 S' 119.142 DBU 'peptide linking' n '(2Z)-2-AMINOBUT-2-ENOIC ACID' Z-DEHYDROBUTYRINE 'C4 H7 N O2' 101.104 DCY 'D-peptide linking' . D-CYSTEINE ? 'C3 H7 N O2 S' 121.158 DHA 'peptide linking' n '2-AMINO-ACRYLIC ACID' 2,3-DIDEHYDROALANINE 'C3 H5 N O2' 87.077 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 MH6 'peptide linking' n '3-hydroxy-2-iminopropanoic acid' ? 'C3 H5 N O3' 103.077 NH2 non-polymer . 'AMINO GROUP' ? 'H2 N' 16.023 QUA non-polymer . '8-HYDROXY-4-(1-HYDROXYETHYL)QUINOLINE-2-CARBOXYLIC ACID' ? 'C12 H13 N O4' 235.236 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TS9 'L-peptide linking' n '(2S,3S,4R)-2-amino-3,4-dihydroxy-3-methylpentanoic acid' ? 'C6 H13 N O4' 163.172 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.entry_id 6MXF _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON CRYSTALLOGRAPHY' _exptl.method_details ? # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? _exptl_crystal.preparation ? # _diffrn.id 1 _diffrn.ambient_temp ? _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 _diffrn.pdbx_serial_crystal_experiment ? # _diffrn_detector.area_resol_mean ? _diffrn_detector.details ? _diffrn_detector.detector ? _diffrn_detector.diffrn_id 1 _diffrn_detector.dtime ? _diffrn_detector.pdbx_collection_date 2018-10-03 _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_frequency ? _diffrn_detector.type ? # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.0251 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.0251 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source ? _diffrn_source.take-off_angle ? _diffrn_source.target ? _diffrn_source.type ? _diffrn_source.voltage ? # _reflns.B_iso_Wilson_estimate ? _reflns.Friedel_coverage ? _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.d_resolution_high 1.90 _reflns.d_resolution_low 18.99 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.details ? _reflns.entry_id 6MXF _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.number_all ? _reflns.number_gt ? _reflns.number_obs 686 _reflns.observed_criterion ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.observed_criterion_I_max ? _reflns.observed_criterion_I_min ? _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.pdbx_CC_half 0.985 _reflns.pdbx_R_split ? _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rmerge_I_obs 0.236 _reflns.pdbx_Rpim_I_all 0.084 _reflns.pdbx_Rrim_I_all 0.251 _reflns.pdbx_Rsym_value ? _reflns.pdbx_chi_squared ? _reflns.pdbx_d_opt ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 5.1 _reflns.pdbx_number_measured_all ? _reflns.pdbx_ordinal 1 _reflns.pdbx_redundancy 8.1 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_scaling_rejects ? _reflns.percent_possible_obs 78.6 _reflns.phase_calculation_details ? _reflns.threshold_expression ? # _reflns_shell.d_res_high 1.90 _reflns_shell.d_res_low 2.13 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs 3.4 _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all 93 _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all 40.3 _reflns_shell.percent_possible_obs ? _reflns_shell.Rmerge_F_all ? _reflns_shell.Rmerge_F_obs ? _reflns_shell.Rmerge_I_all ? _reflns_shell.Rmerge_I_obs 0.32 _reflns_shell.meanI_over_sigI_gt ? _reflns_shell.meanI_over_uI_all ? _reflns_shell.meanI_over_uI_gt ? _reflns_shell.number_measured_gt ? _reflns_shell.number_unique_gt ? _reflns_shell.percent_possible_gt ? _reflns_shell.Rmerge_F_gt ? _reflns_shell.Rmerge_I_gt ? _reflns_shell.pdbx_redundancy 4.9 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs ? _reflns_shell.pdbx_Rrim_I_all ? _reflns_shell.pdbx_Rpim_I_all ? _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_CC_half 0.813 _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] 0.18 _refine.aniso_B[1][2] -0.00 _refine.aniso_B[1][3] -0.00 _refine.aniso_B[2][2] 0.18 _refine.aniso_B[2][3] -0.00 _refine.aniso_B[3][3] -0.37 _refine.B_iso_max ? _refine.B_iso_mean 6.811 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.931 _refine.correlation_coeff_Fo_to_Fc_free 0.940 _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 6MXF _refine.pdbx_refine_id 'ELECTRON CRYSTALLOGRAPHY' _refine.ls_abs_structure_details ? _refine.ls_abs_structure_Flack ? _refine.ls_abs_structure_Flack_esd ? _refine.ls_abs_structure_Rogers ? _refine.ls_abs_structure_Rogers_esd ? _refine.ls_d_res_high 1.91 _refine.ls_d_res_low 18.99 _refine.ls_extinction_coef ? _refine.ls_extinction_coef_esd ? _refine.ls_extinction_expression ? _refine.ls_extinction_method ? _refine.ls_goodness_of_fit_all ? _refine.ls_goodness_of_fit_all_esd ? _refine.ls_goodness_of_fit_obs ? _refine.ls_goodness_of_fit_obs_esd ? _refine.ls_hydrogen_treatment ? _refine.ls_matrix_type ? _refine.ls_number_constraints ? _refine.ls_number_parameters ? _refine.ls_number_reflns_all ? _refine.ls_number_reflns_obs 620 _refine.ls_number_reflns_R_free 57 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 78.18 _refine.ls_percent_reflns_R_free 8.4 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.19276 _refine.ls_R_factor_R_free 0.21798 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.19046 _refine.ls_R_Fsqd_factor_obs ? _refine.ls_R_I_factor_obs ? _refine.ls_redundancy_reflns_all ? _refine.ls_redundancy_reflns_obs ? _refine.ls_restrained_S_all ? _refine.ls_restrained_S_obs ? _refine.ls_shift_over_esd_max ? _refine.ls_shift_over_esd_mean ? _refine.ls_structure_factor_coef ? _refine.ls_weighting_details ? _refine.ls_weighting_scheme ? _refine.ls_wR_factor_all ? _refine.ls_wR_factor_obs ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.occupancy_max ? _refine.occupancy_min ? _refine.solvent_model_details ? _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_starting_model 1e9w _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.352 _refine.pdbx_overall_ESU_R_Free 0.202 _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_real_space_R ? _refine.pdbx_density_correlation ? _refine.pdbx_pd_number_of_powder_patterns ? _refine.pdbx_pd_number_of_points ? _refine.pdbx_pd_meas_number_of_points ? _refine.pdbx_pd_proc_ls_prof_R_factor ? _refine.pdbx_pd_proc_ls_prof_wR_factor ? _refine.pdbx_pd_Marquardt_correlation_coeff ? _refine.pdbx_pd_Fsqrd_R_factor ? _refine.pdbx_pd_ls_matrix_band_width ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B 3.282 _refine.overall_SU_ML 0.098 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'ELECTRON CRYSTALLOGRAPHY' _refine_hist.cycle_id 1 _refine_hist.pdbx_number_atoms_protein ? _refine_hist.pdbx_number_atoms_nucleic_acid ? _refine_hist.pdbx_number_atoms_ligand ? _refine_hist.number_atoms_solvent ? _refine_hist.number_atoms_total 116 _refine_hist.d_res_high . _refine_hist.d_res_low . # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_restraint_function 'ELECTRON CRYSTALLOGRAPHY' ? 0.015 0.017 123 ? r_bond_refined_d ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.025 0.018 107 ? r_bond_other_d ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 2.760 2.241 120 ? r_angle_refined_deg ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 1.374 2.283 213 ? r_angle_other_deg ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 3.623 5.000 3 ? r_dihedral_angle_1_deg ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_dihedral_angle_2_deg ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 7.901 15.000 4 ? r_dihedral_angle_3_deg ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_dihedral_angle_4_deg ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.062 0.200 15 ? r_chiral_restr ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.010 0.020 135 ? r_gen_planes_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.003 0.020 49 ? r_gen_planes_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_nbd_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_nbd_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_nbtor_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_nbtor_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_xyhbond_nbd_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_xyhbond_nbd_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_metal_ion_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_metal_ion_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_symmetry_vdw_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_symmetry_vdw_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_symmetry_hbond_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_symmetry_hbond_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_symmetry_metal_ion_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.625 0.798 62 ? r_mcbond_it ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.620 0.810 63 ? r_mcbond_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.893 1.194 37 ? r_mcangle_it ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.881 1.223 38 ? r_mcangle_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.609 0.743 60 ? r_scbond_it ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.604 0.754 61 ? r_scbond_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_scangle_it ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.892 1.161 84 ? r_scangle_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 1.546 10.960 101 ? r_long_range_B_refined ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 1.539 10.959 102 ? r_long_range_B_other ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_rigid_bond_restr ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_sphericity_free ? ? 'ELECTRON CRYSTALLOGRAPHY' ? ? ? ? ? r_sphericity_bonded ? ? # _refine_ls_shell.pdbx_refine_id 'ELECTRON CRYSTALLOGRAPHY' _refine_ls_shell.d_res_high 1.915 _refine_ls_shell.d_res_low 1.964 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 0 _refine_ls_shell.number_reflns_R_work 2 _refine_ls_shell.percent_reflns_obs 3.33 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free 0.000 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.R_factor_R_work 0.182 _refine_ls_shell.redundancy_reflns_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.wR_factor_all ? _refine_ls_shell.wR_factor_obs ? _refine_ls_shell.wR_factor_R_free ? _refine_ls_shell.wR_factor_R_work ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 6MXF _struct.title 'MicroED structure of thiostrepton at 1.9 A resolution' _struct.pdbx_model_details ? _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 6MXF _struct_keywords.text ANTIBIOTIC _struct_keywords.pdbx_keywords ANTIBIOTIC # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A QUA 1 C7 ? ? ? 1_555 A ILE 2 N ? ? A QUA 0 A ILE 1 1_555 ? ? ? ? ? ? ? 1.547 ? ? covale2 covale one ? A QUA 1 C11 ? ? ? 1_555 A THR 13 OG1 ? ? A QUA 0 A THR 12 1_555 ? ? ? ? ? ? ? 1.307 ? ? covale3 covale both ? A ALA 3 C ? ? ? 1_555 A DHA 4 N ? ? A ALA 2 A DHA 3 1_555 ? ? ? ? ? ? ? 1.349 ? ? covale4 covale both ? A DHA 4 C ? ? ? 1_555 A ALA 5 N ? ? A DHA 3 A ALA 4 1_555 ? ? ? ? ? ? ? 1.424 ? ? covale5 covale both ? A SER 6 C ? ? ? 1_555 A BB9 7 N ? ? A SER 5 A BB9 6 1_555 ? ? ? ? ? ? ? 1.343 ? ? covale6 covale one ? A SER 6 C ? ? ? 1_555 A BB9 7 SG ? ? A SER 5 A BB9 6 1_555 ? ? ? ? ? ? ? 1.722 ? ? covale7 covale one ? A SER 6 CA ? ? ? 1_555 A BB9 14 C ? ? A SER 5 A BB9 13 1_555 ? ? ? ? ? ? ? 1.512 ? ? covale8 covale one ? A SER 6 CB ? ? ? 1_555 A MH6 15 CB ? ? A SER 5 A MH6 14 1_555 ? ? ? ? ? ? ? 1.578 ? ? covale9 covale both ? A BB9 7 C ? ? ? 1_555 A THR 8 N ? ? A BB9 6 A THR 7 1_555 ? ? ? ? ? ? ? 1.422 ? ? covale10 covale both ? A THR 8 C ? ? ? 1_555 A DBU 9 N ? ? A THR 7 A DBU 8 1_555 ? ? ? ? ? ? ? 1.356 ? ? covale11 covale one ? A DBU 9 C ? ? ? 1_555 A DCY 10 SG ? ? A DBU 8 A DCY 9 1_555 ? ? ? ? ? ? ? 1.719 ? ? covale12 covale both ? A DBU 9 C ? ? ? 1_555 A DCY 10 N ? ? A DBU 8 A DCY 9 1_555 ? ? ? ? ? ? ? 1.414 ? ? covale13 covale both ? A DCY 10 C ? ? ? 1_555 A TS9 11 N ? ? A DCY 9 A TS9 10 1_555 ? ? ? ? ? ? ? 1.345 ? ? covale14 covale one ? A TS9 11 C ? ? ? 1_555 A BB9 12 SG ? ? A TS9 10 A BB9 11 1_555 ? ? ? ? ? ? ? 1.709 ? ? covale15 covale both ? A TS9 11 C ? ? ? 1_555 A BB9 12 N ? ? A TS9 10 A BB9 11 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale16 covale both ? A BB9 12 C ? ? ? 1_555 A THR 13 N ? ? A BB9 11 A THR 12 1_555 ? ? ? ? ? ? ? 1.394 ? ? covale17 covale one ? A THR 13 C ? ? ? 1_555 A BB9 14 SG ? ? A THR 12 A BB9 13 1_555 ? ? ? ? ? ? ? 1.712 ? ? covale18 covale both ? A THR 13 C ? ? ? 1_555 A BB9 14 N ? ? A THR 12 A BB9 13 1_555 ? ? ? ? ? ? ? 1.326 ? ? covale19 covale both ? A BB9 14 C ? ? ? 1_555 A MH6 15 N ? ? A BB9 13 A MH6 14 1_555 ? ? ? ? ? ? ? 1.379 ? ? covale20 covale both ? A MH6 15 C ? ? ? 1_555 A BB9 16 N ? ? A MH6 14 A BB9 15 1_555 ? ? ? ? ? ? ? 1.340 ? ? covale21 covale one ? A MH6 15 C ? ? ? 1_555 A BB9 16 SG ? ? A MH6 14 A BB9 15 1_555 ? ? ? ? ? ? ? 1.678 ? ? covale22 covale both ? A BB9 16 C ? ? ? 1_555 A DHA 17 N ? ? A BB9 15 A DHA 16 1_555 ? ? ? ? ? ? ? 1.337 ? ? covale23 covale both ? A DHA 17 C ? ? ? 1_555 A DHA 18 N ? ? A DHA 16 A DHA 17 1_555 ? ? ? ? ? ? ? 1.385 ? ? covale24 covale both ? A DHA 18 C ? ? ? 1_555 A NH2 19 N ? ? A DHA 17 A NH2 18 1_555 ? ? ? ? ? ? ? 1.282 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id A _struct_site.pdbx_auth_comp_id QUA _struct_site.pdbx_auth_seq_id 0 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 2 _struct_site.details 'binding site for THIOSTREPTON chain A' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 2 HOH B . ? HOH A 101 . ? 1_555 ? 2 AC1 2 HOH B . ? HOH A 102 . ? 1_555 ? # _atom_sites.entry_id 6MXF _atom_sites.fract_transf_matrix[1][1] 0.038140 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] -0.000000 _atom_sites.fract_transf_matrix[2][2] 0.038140 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] -0.000000 _atom_sites.fract_transf_matrix[3][3] 0.036319 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 # loop_ _atom_type.symbol C N O S # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_alt_id _atom_site.label_comp_id _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_PDB_ins_code _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_seq_id _atom_site.auth_comp_id _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.pdbx_PDB_model_num HETATM 1 O O12 . QUA A 1 1 ? 10.846 5.950 -3.568 1.00 5.38 ? 0 QUA A O12 1 HETATM 2 C C11 . QUA A 1 1 ? 9.756 5.430 -3.418 1.00 5.55 ? 0 QUA A C11 1 HETATM 3 C C2 . QUA A 1 1 ? 9.569 3.950 -3.605 1.00 6.27 ? 0 QUA A C2 1 HETATM 4 N N1 . QUA A 1 1 ? 8.323 3.479 -3.469 1.00 6.37 ? 0 QUA A N1 1 HETATM 5 C C3 . QUA A 1 1 ? 10.644 3.163 -3.979 1.00 6.46 ? 0 QUA A C3 1 HETATM 6 C C9 . QUA A 1 1 ? 8.090 2.191 -3.746 1.00 6.39 ? 0 QUA A C9 1 HETATM 7 C C4 . QUA A 1 1 ? 10.418 1.813 -4.212 1.00 6.67 ? 0 QUA A C4 1 HETATM 8 C C8 . QUA A 1 1 ? 6.630 1.779 -3.753 1.00 6.46 ? 0 QUA A C8 1 HETATM 9 C C10 . QUA A 1 1 ? 9.113 1.302 -4.110 1.00 6.56 ? 0 QUA A C10 1 HETATM 10 O O16 . QUA A 1 1 ? 6.068 1.903 -5.062 1.00 6.25 ? 0 QUA A O16 1 HETATM 11 C C7 . QUA A 1 1 ? 6.526 0.325 -3.301 1.00 6.74 ? 0 QUA A C7 1 HETATM 12 C C13 . QUA A 1 1 ? 11.569 0.863 -4.484 1.00 6.78 ? 0 QUA A C13 1 HETATM 13 O O15 . QUA A 1 1 ? 12.634 1.475 -5.206 1.00 7.06 ? 0 QUA A O15 1 HETATM 14 C C5 . QUA A 1 1 ? 8.784 -0.089 -4.285 1.00 6.50 ? 0 QUA A C5 1 HETATM 15 C C14 . QUA A 1 1 ? 12.092 0.266 -3.210 1.00 6.98 ? 0 QUA A C14 1 HETATM 16 C C6 . QUA A 1 1 ? 7.570 -0.536 -3.956 1.00 6.51 ? 0 QUA A C6 1 ATOM 17 N N . ILE A 1 2 ? 6.536 -0.046 -1.799 1.00 7.73 ? 1 ILE A N 1 ATOM 18 C CA . ILE A 1 2 ? 5.563 0.737 -0.968 1.00 7.86 ? 1 ILE A CA 1 ATOM 19 C C . ILE A 1 2 ? 6.255 1.917 -0.265 1.00 7.83 ? 1 ILE A C 1 ATOM 20 O O . ILE A 1 2 ? 5.548 2.757 0.275 1.00 7.34 ? 1 ILE A O 1 ATOM 21 C CB . ILE A 1 2 ? 4.846 -0.166 0.056 1.00 8.34 ? 1 ILE A CB 1 ATOM 22 C CG1 . ILE A 1 2 ? 5.850 -0.751 1.058 1.00 8.54 ? 1 ILE A CG1 1 ATOM 23 C CG2 . ILE A 1 2 ? 4.004 -1.220 -0.650 1.00 8.28 ? 1 ILE A CG2 1 ATOM 24 C CD1 . ILE A 1 2 ? 5.230 -1.487 2.230 1.00 8.80 ? 1 ILE A CD1 1 ATOM 25 N N . ALA A 1 3 ? 7.586 1.945 -0.214 1.00 7.97 ? 2 ALA A N 1 ATOM 26 C CA . ALA A 1 3 ? 8.348 3.093 0.318 1.00 8.02 ? 2 ALA A CA 1 ATOM 27 C C . ALA A 1 3 ? 9.792 3.023 -0.191 1.00 7.48 ? 2 ALA A C 1 ATOM 28 O O . ALA A 1 3 ? 10.206 1.927 -0.550 1.00 7.19 ? 2 ALA A O 1 ATOM 29 C CB . ALA A 1 3 ? 8.293 3.122 1.823 1.00 8.08 ? 2 ALA A CB 1 HETATM 30 N N . DHA A 1 4 ? 10.440 4.201 -0.080 1.00 6.39 ? 3 DHA A N 1 HETATM 31 C CA . DHA A 1 4 ? 11.606 4.576 -0.640 1.00 6.07 ? 3 DHA A CA 1 HETATM 32 C CB . DHA A 1 4 ? 12.572 3.701 -0.913 1.00 5.81 ? 3 DHA A CB 1 HETATM 33 C C . DHA A 1 4 ? 11.707 6.012 -0.922 1.00 5.70 ? 3 DHA A C 1 HETATM 34 O O . DHA A 1 4 ? 10.688 6.662 -0.582 1.00 5.67 ? 3 DHA A O 1 ATOM 35 N N . ALA A 1 5 ? 12.950 6.615 -1.269 1.00 5.17 ? 4 ALA A N 1 ATOM 36 C CA . ALA A 1 5 ? 13.040 7.928 -1.954 1.00 5.05 ? 4 ALA A CA 1 ATOM 37 C C . ALA A 1 5 ? 13.658 7.730 -3.347 1.00 5.05 ? 4 ALA A C 1 ATOM 38 O O . ALA A 1 5 ? 14.744 7.150 -3.427 1.00 4.98 ? 4 ALA A O 1 ATOM 39 C CB . ALA A 1 5 ? 13.860 8.885 -1.122 1.00 5.08 ? 4 ALA A CB 1 ATOM 40 N N . SER A 1 6 ? 13.019 8.291 -4.380 1.00 5.06 ? 5 SER A N 1 ATOM 41 C CA . SER A 1 6 ? 13.428 8.204 -5.807 1.00 5.18 ? 5 SER A CA 1 ATOM 42 C C . SER A 1 6 ? 13.368 6.747 -6.304 1.00 5.10 ? 5 SER A C 1 ATOM 43 C CB . SER A 1 6 ? 14.812 8.807 -5.984 1.00 5.63 ? 5 SER A CB 1 HETATM 44 N N . BB9 A 1 7 ? 12.292 6.028 -6.664 1.00 4.98 ? 6 BB9 A N 1 HETATM 45 C CA . BB9 A 1 7 ? 12.535 4.769 -7.023 1.00 5.01 ? 6 BB9 A CA 1 HETATM 46 C C . BB9 A 1 7 ? 11.542 3.868 -7.573 1.00 4.99 ? 6 BB9 A C 1 HETATM 47 O O . BB9 A 1 7 ? 11.628 2.663 -7.295 1.00 4.90 ? 6 BB9 A O 1 HETATM 48 C CB . BB9 A 1 7 ? 13.785 4.396 -6.782 1.00 5.16 ? 6 BB9 A CB 1 HETATM 49 S SG . BB9 A 1 7 ? 14.688 5.664 -6.084 1.00 5.00 ? 6 BB9 A SG 1 ATOM 50 N N . THR A 1 8 ? 10.301 4.501 -7.857 1.00 5.32 ? 7 THR A N 1 ATOM 51 C CA . THR A 1 8 ? 9.102 3.767 -8.259 1.00 5.40 ? 7 THR A CA 1 ATOM 52 C C . THR A 1 8 ? 8.444 4.551 -9.398 1.00 5.72 ? 7 THR A C 1 ATOM 53 O O . THR A 1 8 ? 8.763 5.760 -9.558 1.00 5.34 ? 7 THR A O 1 ATOM 54 C CB . THR A 1 8 ? 8.206 3.517 -7.033 1.00 5.43 ? 7 THR A CB 1 ATOM 55 O OG1 . THR A 1 8 ? 7.218 2.536 -7.355 1.00 5.43 ? 7 THR A OG1 1 ATOM 56 C CG2 . THR A 1 8 ? 7.506 4.766 -6.534 1.00 5.56 ? 7 THR A CG2 1 HETATM 57 N N . DBU A 1 9 ? 7.345 4.161 -10.090 1.00 6.64 ? 8 DBU A N 1 HETATM 58 C CA . DBU A 1 9 ? 6.567 4.862 -10.920 1.00 6.72 ? 8 DBU A CA 1 HETATM 59 C CB . DBU A 1 9 ? 7.054 5.379 -12.070 1.00 7.02 ? 8 DBU A CB 1 HETATM 60 C CG . DBU A 1 9 ? 8.490 5.160 -12.530 1.00 7.08 ? 8 DBU A CG 1 HETATM 61 C C . DBU A 1 9 ? 5.153 5.100 -10.618 1.00 7.34 ? 8 DBU A C 1 HETATM 62 N N . DCY A 1 10 ? 4.604 4.402 -9.518 1.00 8.16 ? 9 DCY A N 1 HETATM 63 C CA . DCY A 1 10 ? 3.163 4.403 -9.614 1.00 8.49 ? 9 DCY A CA 1 HETATM 64 C C . DCY A 1 10 ? 2.485 4.728 -8.275 1.00 9.26 ? 9 DCY A C 1 HETATM 65 O O . DCY A 1 10 ? 1.240 4.758 -8.286 1.00 9.42 ? 9 DCY A O 1 HETATM 66 C CB . DCY A 1 10 ? 2.775 5.393 -10.698 1.00 8.31 ? 9 DCY A CB 1 HETATM 67 S SG . DCY A 1 10 ? 4.103 5.543 -11.905 1.00 7.60 ? 9 DCY A SG 1 HETATM 68 N N . TS9 A 1 11 ? 3.231 4.932 -7.175 1.00 9.21 ? 10 TS9 A N 1 HETATM 69 C CA . TS9 A 1 11 ? 2.644 5.261 -5.845 1.00 9.94 ? 10 TS9 A CA 1 HETATM 70 C C . TS9 A 1 11 ? 3.047 6.676 -5.398 1.00 8.20 ? 10 TS9 A C 1 HETATM 71 C CB . TS9 A 1 11 ? 2.939 4.176 -4.798 1.00 10.91 ? 10 TS9 A CB 1 HETATM 72 O OG3 . TS9 A 1 11 ? 4.363 4.010 -4.756 1.00 11.48 ? 10 TS9 A OG3 1 HETATM 73 C CG2 . TS9 A 1 11 ? 2.489 4.637 -3.413 1.00 11.34 ? 10 TS9 A CG2 1 HETATM 74 C CG1 . TS9 A 1 11 ? 2.251 2.864 -5.257 1.00 12.21 ? 10 TS9 A CG1 1 HETATM 75 O OD2 . TS9 A 1 11 ? 0.827 3.035 -5.400 1.00 12.20 ? 10 TS9 A OD2 1 HETATM 76 C CD1 . TS9 A 1 11 ? 2.500 1.710 -4.306 1.00 12.61 ? 10 TS9 A CD1 1 HETATM 77 N N . BB9 A 1 12 ? 4.312 7.001 -5.147 1.00 6.87 ? 11 BB9 A N 1 HETATM 78 C CA . BB9 A 1 12 ? 4.502 8.323 -5.118 1.00 6.56 ? 11 BB9 A CA 1 HETATM 79 C C . BB9 A 1 12 ? 5.814 8.913 -4.817 1.00 5.98 ? 11 BB9 A C 1 HETATM 80 O O . BB9 A 1 12 ? 6.055 10.127 -4.989 1.00 6.29 ? 11 BB9 A O 1 HETATM 81 C CB . BB9 A 1 12 ? 3.403 9.032 -5.430 1.00 6.52 ? 11 BB9 A CB 1 HETATM 82 S SG . BB9 A 1 12 ? 2.070 8.044 -5.706 1.00 6.50 ? 11 BB9 A SG 1 ATOM 83 N N . THR A 1 13 ? 6.872 8.037 -4.580 1.00 5.28 ? 12 THR A N 1 ATOM 84 C CA . THR A 1 13 ? 8.243 8.480 -4.163 1.00 4.99 ? 12 THR A CA 1 ATOM 85 C C . THR A 1 13 ? 9.150 8.418 -5.392 1.00 4.75 ? 12 THR A C 1 ATOM 86 C CB . THR A 1 13 ? 8.735 7.628 -2.997 1.00 5.05 ? 12 THR A CB 1 ATOM 87 O OG1 . THR A 1 13 ? 8.745 6.259 -3.416 1.00 5.11 ? 12 THR A OG1 1 ATOM 88 C CG2 . THR A 1 13 ? 7.869 7.776 -1.759 1.00 5.19 ? 12 THR A CG2 1 HETATM 89 N N . BB9 A 1 14 ? 10.438 8.693 -5.242 1.00 4.68 ? 13 BB9 A N 1 HETATM 90 C CA . BB9 A 1 14 ? 11.025 8.757 -6.413 1.00 4.73 ? 13 BB9 A CA 1 HETATM 91 C C . BB9 A 1 14 ? 12.462 9.086 -6.566 1.00 5.14 ? 13 BB9 A C 1 HETATM 92 C CB . BB9 A 1 14 ? 10.179 8.514 -7.428 1.00 4.65 ? 13 BB9 A CB 1 HETATM 93 S SG . BB9 A 1 14 ? 8.570 8.233 -6.992 1.00 4.36 ? 13 BB9 A SG 1 HETATM 94 N N . MH6 A 1 15 ? 12.677 10.395 -6.191 1.00 5.74 ? 14 MH6 A N 1 HETATM 95 C CA . MH6 A 1 15 ? 13.704 10.877 -5.607 1.00 5.72 ? 14 MH6 A CA 1 HETATM 96 C C . MH6 A 1 15 ? 13.803 12.303 -5.171 1.00 9.27 ? 14 MH6 A C 1 HETATM 97 C CB . MH6 A 1 15 ? 15.011 10.219 -5.309 1.00 5.95 ? 14 MH6 A CB 1 HETATM 98 N N . BB9 A 1 16 ? 14.625 12.665 -4.176 1.00 11.23 ? 15 BB9 A N 1 HETATM 99 C CA . BB9 A 1 16 ? 14.458 13.946 -3.941 1.00 11.87 ? 15 BB9 A CA 1 HETATM 100 C C . BB9 A 1 16 ? 15.449 14.750 -3.201 1.00 12.66 ? 15 BB9 A C 1 HETATM 101 O O . BB9 A 1 16 ? 15.078 15.904 -2.867 1.00 13.48 ? 15 BB9 A O 1 HETATM 102 C CB . BB9 A 1 16 ? 13.347 14.425 -4.459 1.00 11.78 ? 15 BB9 A CB 1 HETATM 103 S SG . BB9 A 1 16 ? 12.434 13.267 -5.281 1.00 11.74 ? 15 BB9 A SG 1 HETATM 104 N N . DHA A 1 17 ? 16.710 14.367 -2.976 1.00 14.44 ? 16 DHA A N 1 HETATM 105 C CA . DHA A 1 17 ? 17.908 14.746 -2.561 1.00 15.77 ? 16 DHA A CA 1 HETATM 106 C CB . DHA A 1 17 ? 17.955 15.671 -1.613 1.00 18.20 ? 16 DHA A CB 1 HETATM 107 C C . DHA A 1 17 ? 19.124 14.169 -3.134 1.00 16.09 ? 16 DHA A C 1 HETATM 108 O O . DHA A 1 17 ? 19.041 13.635 -4.287 1.00 15.91 ? 16 DHA A O 1 HETATM 109 N N . DHA A 1 18 ? 20.286 14.114 -2.382 1.00 15.70 ? 17 DHA A N 1 HETATM 110 C CA . DHA A 1 18 ? 21.522 13.704 -2.713 1.00 15.41 ? 17 DHA A CA 1 HETATM 111 C CB . DHA A 1 18 ? 21.709 12.667 -3.524 1.00 15.59 ? 17 DHA A CB 1 HETATM 112 C C . DHA A 1 18 ? 22.719 14.354 -2.172 1.00 14.77 ? 17 DHA A C 1 HETATM 113 O O . DHA A 1 18 ? 22.595 14.984 -1.101 1.00 14.89 ? 17 DHA A O 1 HETATM 114 N N . NH2 A 1 19 ? 23.856 14.504 -2.745 1.00 14.10 ? 18 NH2 A N 1 HETATM 115 O O . HOH B 2 . ? 5.403 5.113 0.255 0.50 4.25 ? 101 HOH A O 1 HETATM 116 O O . HOH B 2 . ? 5.975 5.285 -2.864 1.00 12.00 ? 102 HOH A O 1 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 QUA 1 0 0 QUA QUA A . n A 1 2 ILE 2 1 1 ILE ILE A . n A 1 3 ALA 3 2 2 ALA ALA A . n A 1 4 DHA 4 3 3 DHA DHA A . n A 1 5 ALA 5 4 4 ALA ALA A . n A 1 6 SER 6 5 5 SER SER A . n A 1 7 BB9 7 6 6 BB9 BB9 A . n A 1 8 THR 8 7 7 THR THR A . n A 1 9 DBU 9 8 8 DBU DBU A . n A 1 10 DCY 10 9 9 DCY DCY A . n A 1 11 TS9 11 10 10 TS9 TS9 A . n A 1 12 BB9 12 11 11 BB9 BB9 A . n A 1 13 THR 13 12 12 THR THR A . n A 1 14 BB9 14 13 13 BB9 BB9 A . n A 1 15 MH6 15 14 14 MH6 MH6 A . n A 1 16 BB9 16 15 15 BB9 BB9 A . n A 1 17 DHA 17 16 16 DHA DHA A . n A 1 18 DHA 18 17 17 DHA DHA A . n A 1 19 NH2 19 18 18 NH2 NH2 A . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code B 2 HOH 1 101 1 HOH HOH A . B 2 HOH 2 102 2 HOH HOH A . # _pdbx_molecule_features.prd_id PRD_000223 _pdbx_molecule_features.name THIOSTREPTON _pdbx_molecule_features.type Thiopeptide _pdbx_molecule_features.class Antibiotic _pdbx_molecule_features.details ;Thiostrepton is a hetrocyclic thiopeptide belonging to the thiocillin family, consisting of four thiazole, one thiozoline and one piperideine rings. A modified quinoline linked to main-chain residue 1 and side-chain of residue 12. Post translational maturation of thiazole and oxazole containing antibiotics involves the enzymic condensation of a Cys or Ser with the alpha-carbonyl of the preceding amino acid to form a thioether or ether bond, then dehydration to form a double bond with the alpha-amino nitrogen. Thiazoline or oxazoline ring are dehydrogenated to form thiazole or oxazole rings. the pyridinyl involves the cross-linking of a Ser and a Cys-Ser pair usually separated by 7 or 8 residues along the peptide chain. The Ser residues are dehydrated to didehydroalanines, then bonded between their beta carbons. The alpha carbonyl of the Cys condenses with alpha carbon of the first Ser to form a pyridinyl ring. The ring may be mutiply dehydrogenated to form a pyridine ring with loss of the amino nitrogen of the first Ser. The amidation of Ser-17 probably does not occur by the same mechanism, oxidative cleavage of glycine, as in eukaryotes. ; # _pdbx_molecule.instance_id 1 _pdbx_molecule.prd_id PRD_000223 _pdbx_molecule.asym_id A # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 400 ? 1 MORE 1 ? 1 'SSA (A^2)' 1690 ? # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2018-11-21 2 'Structure model' 1 1 2019-01-02 3 'Structure model' 1 2 2019-02-06 4 'Structure model' 2 0 2019-11-27 5 'Structure model' 2 1 2023-10-11 6 'Structure model' 2 2 2023-11-15 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Data collection' 2 2 'Structure model' 'Database references' 3 2 'Structure model' 'Derived calculations' 4 3 'Structure model' 'Data collection' 5 3 'Structure model' 'Database references' 6 4 'Structure model' 'Author supporting evidence' 7 4 'Structure model' 'Polymer sequence' 8 5 'Structure model' 'Data collection' 9 5 'Structure model' 'Database references' 10 5 'Structure model' 'Derived calculations' 11 5 'Structure model' 'Refinement description' 12 6 'Structure model' 'Data collection' 13 6 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author 3 2 'Structure model' diffrn_radiation_wavelength 4 2 'Structure model' diffrn_source 5 2 'Structure model' struct_site 6 2 'Structure model' struct_site_gen 7 3 'Structure model' struct_ref 8 4 'Structure model' entity_poly 9 4 'Structure model' pdbx_audit_support 10 5 'Structure model' chem_comp_atom 11 5 'Structure model' chem_comp_bond 12 5 'Structure model' database_2 13 5 'Structure model' em_3d_fitting_list 14 5 'Structure model' pdbx_initial_refinement_model 15 5 'Structure model' struct_conn 16 6 'Structure model' chem_comp_atom 17 6 'Structure model' chem_comp_bond 18 6 'Structure model' struct_conn # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.journal_abbrev' 2 2 'Structure model' '_citation.journal_id_ISSN' 3 2 'Structure model' '_citation.journal_volume' 4 2 'Structure model' '_citation.page_first' 5 2 'Structure model' '_citation.page_last' 6 2 'Structure model' '_citation.pdbx_database_id_PubMed' 7 2 'Structure model' '_citation.title' 8 2 'Structure model' '_citation_author.identifier_ORCID' 9 2 'Structure model' '_citation_author.name' 10 3 'Structure model' '_struct_ref.db_name' 11 3 'Structure model' '_struct_ref.pdbx_db_accession' 12 4 'Structure model' '_entity_poly.pdbx_seq_one_letter_code_can' 13 4 'Structure model' '_pdbx_audit_support.funding_organization' 14 5 'Structure model' '_database_2.pdbx_DOI' 15 5 'Structure model' '_database_2.pdbx_database_accession' 16 5 'Structure model' '_em_3d_fitting_list.accession_code' 17 5 'Structure model' '_em_3d_fitting_list.initial_refinement_model_id' 18 5 'Structure model' '_em_3d_fitting_list.source_name' 19 5 'Structure model' '_em_3d_fitting_list.type' 20 5 'Structure model' '_struct_conn.pdbx_dist_value' 21 5 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' 22 5 'Structure model' '_struct_conn.ptnr1_label_atom_id' 23 5 'Structure model' '_struct_conn.ptnr2_auth_comp_id' 24 5 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 25 5 'Structure model' '_struct_conn.ptnr2_label_atom_id' 26 5 'Structure model' '_struct_conn.ptnr2_label_comp_id' 27 5 'Structure model' '_struct_conn.ptnr2_label_seq_id' 28 6 'Structure model' '_chem_comp_atom.atom_id' 29 6 'Structure model' '_chem_comp_bond.atom_id_2' 30 6 'Structure model' '_struct_conn.pdbx_leaving_atom_flag' # loop_ _software.citation_id _software.classification _software.compiler_name _software.compiler_version _software.contact_author _software.contact_author_email _software.date _software.description _software.dependencies _software.hardware _software.language _software.location _software.mods _software.name _software.os _software.os_version _software.type _software.version _software.pdbx_ordinal ? refinement ? ? ? ? ? ? ? ? ? ? ? REFMAC ? ? ? 5.8.0238 1 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? MOSFLM ? ? ? 7.2.2 2 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 0.7.3 3 ? phasing ? ? ? ? ? ? ? ? ? ? ? MOLREP ? ? ? 11.6.04 4 # _pdbx_entry_details.entry_id 6MXF _pdbx_entry_details.compound_details ;THIOSTREPTON IS A MEMBER OF A SULPHUR-RICH HETEROCYCLIC PEPTIDES CLASS. ALL SHARE A MACROCYLIC CORE, CONSISTING OF A NITROGEN CONTAINING, SIX-MEMBERED RING CENTRAL TO DEHYDROAMINO ACIDS AND A SUBSET OF FIVE MEMBER RING STRUCTURES INCLUDING THIAZOLES, THIAZOLINES AND OXAZOLES. HERE, THIOSTREPTON IS REPRESENTED BY THE SEQUENCE (SEQRES) ; _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? # _em_3d_fitting.entry_id 6MXF _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value 2.6 _em_3d_fitting.ref_protocol OTHER _em_3d_fitting.ref_space RECIPROCAL _em_3d_fitting.target_criteria ? _em_3d_fitting.method ? # _em_3d_fitting_list.3d_fitting_id 1 _em_3d_fitting_list.id 1 _em_3d_fitting_list.details ? _em_3d_fitting_list.pdb_chain_id A _em_3d_fitting_list.pdb_chain_residue_range 0-18 _em_3d_fitting_list.pdb_entry_id 1E9W _em_3d_fitting_list.initial_refinement_model_id 1 _em_3d_fitting_list.chain_id ? _em_3d_fitting_list.chain_residue_range ? _em_3d_fitting_list.source_name PDB _em_3d_fitting_list.type 'experimental model' _em_3d_fitting_list.accession_code 1E9W # _em_3d_reconstruction.entry_id 6MXF _em_3d_reconstruction.id 1 _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.details ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.num_particles ? _em_3d_reconstruction.resolution 1.91 _em_3d_reconstruction.resolution_method 'DIFFRACTION PATTERN/LAYERLINES' _em_3d_reconstruction.symmetry_type '3D CRYSTAL' _em_3d_reconstruction.method ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.magnification_calibration ? # _em_buffer.id 1 _em_buffer.details Powder _em_buffer.pH 7 _em_buffer.specimen_id 1 _em_buffer.name ? # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.details ? _em_entity_assembly.name Thiostrepton _em_entity_assembly.source NATURAL _em_entity_assembly.type 'ORGANELLE OR CELLULAR COMPONENT' _em_entity_assembly.entity_id_list 1 _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_image_scans.entry_id 6MXF _em_image_scans.id 1 _em_image_scans.dimension_height 2048 _em_image_scans.dimension_width 2048 _em_image_scans.frames_per_image ? _em_image_scans.image_recording_id 1 _em_image_scans.sampling_size 28 _em_image_scans.scanner_model ? _em_image_scans.used_frames_per_image ? _em_image_scans.citation_id ? _em_image_scans.number_digital_images ? _em_image_scans.od_range ? _em_image_scans.quant_bit_size ? _em_image_scans.details ? # _em_imaging.id 1 _em_imaging.entry_id 6MXF _em_imaging.accelerating_voltage 200 _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.calibrated_defocus_max ? _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_magnification ? _em_imaging.cryogen NITROGEN _em_imaging.details ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.microscope_model 'FEI TALOS ARCTICA' _em_imaging.mode DIFFRACTION _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_max ? _em_imaging.nominal_defocus_min ? _em_imaging.nominal_magnification ? _em_imaging.recording_temperature_maximum ? _em_imaging.recording_temperature_minimum ? _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.specimen_id 1 _em_imaging.citation_id ? _em_imaging.date ? _em_imaging.temperature ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.astigmatism ? _em_imaging.detector_distance ? _em_imaging.electron_beam_tilt_params ? _em_imaging.specimen_holder_type ? # _em_sample_support.id 1 _em_sample_support.specimen_id 1 _em_sample_support.details ? _em_sample_support.grid_material COPPER _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Quantifoil R2/2' _em_sample_support.method ? _em_sample_support.film_material ? # _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature 298 _em_vitrification.cryogen_name NITROGEN _em_vitrification.details Hand-plunged _em_vitrification.humidity 100 _em_vitrification.instrument ? _em_vitrification.entry_id 6MXF _em_vitrification.citation_id ? _em_vitrification.method ? _em_vitrification.temp ? _em_vitrification.time_resolved_state ? # _em_experiment.entry_id 6MXF _em_experiment.id 1 _em_experiment.aggregation_state '3D ARRAY' _em_experiment.reconstruction_method CRYSTALLOGRAPHY _em_experiment.entity_assembly_id 1 # _pdbx_validate_close_contact.id 1 _pdbx_validate_close_contact.PDB_model_num 1 _pdbx_validate_close_contact.auth_atom_id_1 O12 _pdbx_validate_close_contact.auth_asym_id_1 A _pdbx_validate_close_contact.auth_comp_id_1 QUA _pdbx_validate_close_contact.auth_seq_id_1 0 _pdbx_validate_close_contact.PDB_ins_code_1 ? _pdbx_validate_close_contact.label_alt_id_1 ? _pdbx_validate_close_contact.auth_atom_id_2 OG1 _pdbx_validate_close_contact.auth_asym_id_2 A _pdbx_validate_close_contact.auth_comp_id_2 THR _pdbx_validate_close_contact.auth_seq_id_2 12 _pdbx_validate_close_contact.PDB_ins_code_2 ? _pdbx_validate_close_contact.label_alt_id_2 ? _pdbx_validate_close_contact.dist 2.13 # _pdbx_validate_rmsd_angle.id 1 _pdbx_validate_rmsd_angle.PDB_model_num 1 _pdbx_validate_rmsd_angle.auth_atom_id_1 C _pdbx_validate_rmsd_angle.auth_asym_id_1 A _pdbx_validate_rmsd_angle.auth_comp_id_1 BB9 _pdbx_validate_rmsd_angle.auth_seq_id_1 15 _pdbx_validate_rmsd_angle.PDB_ins_code_1 ? _pdbx_validate_rmsd_angle.label_alt_id_1 ? _pdbx_validate_rmsd_angle.auth_atom_id_2 N _pdbx_validate_rmsd_angle.auth_asym_id_2 A _pdbx_validate_rmsd_angle.auth_comp_id_2 DHA _pdbx_validate_rmsd_angle.auth_seq_id_2 16 _pdbx_validate_rmsd_angle.PDB_ins_code_2 ? _pdbx_validate_rmsd_angle.label_alt_id_2 ? _pdbx_validate_rmsd_angle.auth_atom_id_3 CA _pdbx_validate_rmsd_angle.auth_asym_id_3 A _pdbx_validate_rmsd_angle.auth_comp_id_3 DHA _pdbx_validate_rmsd_angle.auth_seq_id_3 16 _pdbx_validate_rmsd_angle.PDB_ins_code_3 ? _pdbx_validate_rmsd_angle.label_alt_id_3 ? _pdbx_validate_rmsd_angle.angle_value 145.55 _pdbx_validate_rmsd_angle.angle_target_value 121.70 _pdbx_validate_rmsd_angle.angle_deviation 23.85 _pdbx_validate_rmsd_angle.angle_standard_deviation 2.50 _pdbx_validate_rmsd_angle.linker_flag Y # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 SER A 5 ? ? 63.70 77.93 2 1 DCY A 9 ? ? -135.15 -2.00 # _pdbx_validate_peptide_omega.id 1 _pdbx_validate_peptide_omega.PDB_model_num 1 _pdbx_validate_peptide_omega.auth_comp_id_1 BB9 _pdbx_validate_peptide_omega.auth_asym_id_1 A _pdbx_validate_peptide_omega.auth_seq_id_1 13 _pdbx_validate_peptide_omega.PDB_ins_code_1 ? _pdbx_validate_peptide_omega.label_alt_id_1 ? _pdbx_validate_peptide_omega.auth_comp_id_2 MH6 _pdbx_validate_peptide_omega.auth_asym_id_2 A _pdbx_validate_peptide_omega.auth_seq_id_2 14 _pdbx_validate_peptide_omega.PDB_ins_code_2 ? _pdbx_validate_peptide_omega.label_alt_id_2 ? _pdbx_validate_peptide_omega.omega 145.15 # _pdbx_validate_main_chain_plane.id 1 _pdbx_validate_main_chain_plane.PDB_model_num 1 _pdbx_validate_main_chain_plane.auth_comp_id BB9 _pdbx_validate_main_chain_plane.auth_asym_id A _pdbx_validate_main_chain_plane.auth_seq_id 6 _pdbx_validate_main_chain_plane.PDB_ins_code ? _pdbx_validate_main_chain_plane.label_alt_id ? _pdbx_validate_main_chain_plane.improper_torsion_angle 14.10 # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal ALA N N N N 1 ALA CA C N S 2 ALA C C N N 3 ALA O O N N 4 ALA CB C N N 5 ALA OXT O N N 6 ALA H H N N 7 ALA H2 H N N 8 ALA HA H N N 9 ALA HB1 H N N 10 ALA HB2 H N N 11 ALA HB3 H N N 12 ALA HXT H N N 13 BB9 N N N N 14 BB9 CA C N N 15 BB9 C C N N 16 BB9 O O N N 17 BB9 CB C N N 18 BB9 SG S N N 19 BB9 OXT O N N 20 BB9 H H N N 21 BB9 H2 H N N 22 BB9 HB H N N 23 BB9 HXT H N N 24 BB9 HG H N N 25 DBU N N N N 26 DBU CA C N N 27 DBU CB C N N 28 DBU CG C N N 29 DBU C C N N 30 DBU O O N N 31 DBU OXT O N N 32 DBU H H N N 33 DBU H2 H N N 34 DBU HB H N N 35 DBU HG1 H N N 36 DBU HG2 H N N 37 DBU HG3 H N N 38 DBU HXT H N N 39 DCY N N N N 40 DCY CA C N S 41 DCY C C N N 42 DCY O O N N 43 DCY CB C N N 44 DCY SG S N N 45 DCY OXT O N N 46 DCY H H N N 47 DCY H2 H N N 48 DCY HA H N N 49 DCY HB2 H N N 50 DCY HB3 H N N 51 DCY HG H N N 52 DCY HXT H N N 53 DHA N N N N 54 DHA CA C N N 55 DHA CB C N N 56 DHA C C N N 57 DHA O O N N 58 DHA OXT O N N 59 DHA H H N N 60 DHA H2 H N N 61 DHA HB1 H N N 62 DHA HB2 H N N 63 DHA HXT H N N 64 HOH O O N N 65 HOH H1 H N N 66 HOH H2 H N N 67 ILE N N N N 68 ILE CA C N S 69 ILE C C N N 70 ILE O O N N 71 ILE CB C N S 72 ILE CG1 C N N 73 ILE CG2 C N N 74 ILE CD1 C N N 75 ILE OXT O N N 76 ILE H H N N 77 ILE H2 H N N 78 ILE HA H N N 79 ILE HB H N N 80 ILE HG12 H N N 81 ILE HG13 H N N 82 ILE HG21 H N N 83 ILE HG22 H N N 84 ILE HG23 H N N 85 ILE HD11 H N N 86 ILE HD12 H N N 87 ILE HD13 H N N 88 ILE HXT H N N 89 MH6 N N N N 90 MH6 CA C N N 91 MH6 C C N N 92 MH6 CB C N N 93 MH6 OG O N N 94 MH6 O O N N 95 MH6 OXT O N N 96 MH6 H H N N 97 MH6 HB2 H N N 98 MH6 HB3 H N N 99 MH6 HXT H N N 100 MH6 HG H N N 101 NH2 N N N N 102 NH2 HN1 H N N 103 NH2 HN2 H N N 104 QUA O12 O N N 105 QUA C11 C N N 106 QUA C2 C Y N 107 QUA N1 N Y N 108 QUA C3 C Y N 109 QUA C9 C Y N 110 QUA C4 C Y N 111 QUA C8 C N S 112 QUA C10 C Y N 113 QUA O16 O N N 114 QUA C7 C N N 115 QUA C13 C N S 116 QUA O15 O N N 117 QUA C5 C N N 118 QUA C14 C N N 119 QUA C6 C N N 120 QUA "O1'" O N N 121 QUA HC3 H N N 122 QUA HC8 H N N 123 QUA H16 H N N 124 QUA HC71 H N N 125 QUA HC72 H N N 126 QUA H13 H N N 127 QUA H15 H N N 128 QUA HC5 H N N 129 QUA H141 H N N 130 QUA H142 H N N 131 QUA H143 H N N 132 QUA HC6 H N N 133 QUA "H1'" H N N 134 SER N N N N 135 SER CA C N S 136 SER C C N N 137 SER O O N N 138 SER CB C N N 139 SER OG O N N 140 SER OXT O N N 141 SER H H N N 142 SER H2 H N N 143 SER HA H N N 144 SER HB2 H N N 145 SER HB3 H N N 146 SER HG H N N 147 SER HXT H N N 148 THR N N N N 149 THR CA C N S 150 THR C C N N 151 THR O O N N 152 THR CB C N R 153 THR OG1 O N N 154 THR CG2 C N N 155 THR OXT O N N 156 THR H H N N 157 THR H2 H N N 158 THR HA H N N 159 THR HB H N N 160 THR HG1 H N N 161 THR HG21 H N N 162 THR HG22 H N N 163 THR HG23 H N N 164 THR HXT H N N 165 TS9 N N N N 166 TS9 CA C N S 167 TS9 C C N N 168 TS9 CB C N S 169 TS9 OG3 O N N 170 TS9 CG2 C N N 171 TS9 CG1 C N R 172 TS9 OD2 O N N 173 TS9 CD1 C N N 174 TS9 OXT O N N 175 TS9 O O N N 176 TS9 H H N N 177 TS9 H2 H N N 178 TS9 HA H N N 179 TS9 HXT H N N 180 TS9 HG3 H N N 181 TS9 HG21 H N N 182 TS9 HG22 H N N 183 TS9 HG23 H N N 184 TS9 HG1 H N N 185 TS9 HD2 H N N 186 TS9 HD11 H N N 187 TS9 HD12 H N N 188 TS9 HD13 H N N 189 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal ALA N CA sing N N 1 ALA N H sing N N 2 ALA N H2 sing N N 3 ALA CA C sing N N 4 ALA CA CB sing N N 5 ALA CA HA sing N N 6 ALA C O doub N N 7 ALA C OXT sing N N 8 ALA CB HB1 sing N N 9 ALA CB HB2 sing N N 10 ALA CB HB3 sing N N 11 ALA OXT HXT sing N N 12 BB9 N CA sing N N 13 BB9 CA C sing N N 14 BB9 CA CB doub N N 15 BB9 C O doub N N 16 BB9 C OXT sing N Z 17 BB9 CB SG sing N N 18 BB9 N H sing N N 19 BB9 N H2 sing N N 20 BB9 CB HB sing N N 21 BB9 OXT HXT sing N N 22 BB9 SG HG sing N N 23 DBU N CA sing N N 24 DBU N H sing N N 25 DBU N H2 sing N N 26 DBU CA CB doub N Z 27 DBU CA C sing N N 28 DBU CB CG sing N N 29 DBU CB HB sing N N 30 DBU CG HG1 sing N N 31 DBU CG HG2 sing N N 32 DBU CG HG3 sing N N 33 DBU C O doub N N 34 DBU C OXT sing N N 35 DBU OXT HXT sing N N 36 DCY N CA sing N N 37 DCY N H sing N N 38 DCY N H2 sing N N 39 DCY CA C sing N N 40 DCY CA CB sing N N 41 DCY CA HA sing N N 42 DCY C O doub N N 43 DCY C OXT sing N N 44 DCY CB SG sing N N 45 DCY CB HB2 sing N N 46 DCY CB HB3 sing N N 47 DCY SG HG sing N N 48 DCY OXT HXT sing N N 49 DHA N CA sing N N 50 DHA N H sing N N 51 DHA N H2 sing N N 52 DHA CA CB doub N N 53 DHA CA C sing N N 54 DHA CB HB1 sing N N 55 DHA CB HB2 sing N N 56 DHA C O doub N N 57 DHA C OXT sing N N 58 DHA OXT HXT sing N N 59 HOH O H1 sing N N 60 HOH O H2 sing N N 61 ILE N CA sing N N 62 ILE N H sing N N 63 ILE N H2 sing N N 64 ILE CA C sing N N 65 ILE CA CB sing N N 66 ILE CA HA sing N N 67 ILE C O doub N N 68 ILE C OXT sing N N 69 ILE CB CG1 sing N N 70 ILE CB CG2 sing N N 71 ILE CB HB sing N N 72 ILE CG1 CD1 sing N N 73 ILE CG1 HG12 sing N N 74 ILE CG1 HG13 sing N N 75 ILE CG2 HG21 sing N N 76 ILE CG2 HG22 sing N N 77 ILE CG2 HG23 sing N N 78 ILE CD1 HD11 sing N N 79 ILE CD1 HD12 sing N N 80 ILE CD1 HD13 sing N N 81 ILE OXT HXT sing N N 82 MH6 N CA doub N N 83 MH6 CA C sing N N 84 MH6 CA CB sing N N 85 MH6 C O doub N N 86 MH6 C OXT sing N N 87 MH6 CB OG sing N N 88 MH6 N H sing N N 89 MH6 CB HB2 sing N N 90 MH6 CB HB3 sing N N 91 MH6 OXT HXT sing N N 92 MH6 OG HG sing N N 93 NH2 N HN1 sing N N 94 NH2 N HN2 sing N N 95 QUA O12 C11 doub N N 96 QUA C11 C2 sing N N 97 QUA C11 "O1'" sing N N 98 QUA C2 N1 doub Y N 99 QUA C2 C3 sing Y N 100 QUA N1 C9 sing Y N 101 QUA C3 C4 doub Y N 102 QUA C3 HC3 sing N N 103 QUA C9 C8 sing N N 104 QUA C9 C10 doub Y N 105 QUA C4 C10 sing Y N 106 QUA C4 C13 sing N N 107 QUA C8 O16 sing N N 108 QUA C8 C7 sing N N 109 QUA C8 HC8 sing N N 110 QUA C10 C5 sing N N 111 QUA O16 H16 sing N N 112 QUA C7 C6 sing N N 113 QUA C7 HC71 sing N N 114 QUA C7 HC72 sing N N 115 QUA C13 O15 sing N N 116 QUA C13 C14 sing N N 117 QUA C13 H13 sing N N 118 QUA O15 H15 sing N N 119 QUA C5 C6 doub N N 120 QUA C5 HC5 sing N N 121 QUA C14 H141 sing N N 122 QUA C14 H142 sing N N 123 QUA C14 H143 sing N N 124 QUA C6 HC6 sing N N 125 QUA "O1'" "H1'" sing N N 126 SER N CA sing N N 127 SER N H sing N N 128 SER N H2 sing N N 129 SER CA C sing N N 130 SER CA CB sing N N 131 SER CA HA sing N N 132 SER C O doub N N 133 SER C OXT sing N N 134 SER CB OG sing N N 135 SER CB HB2 sing N N 136 SER CB HB3 sing N N 137 SER OG HG sing N N 138 SER OXT HXT sing N N 139 THR N CA sing N N 140 THR N H sing N N 141 THR N H2 sing N N 142 THR CA C sing N N 143 THR CA CB sing N N 144 THR CA HA sing N N 145 THR C O doub N N 146 THR C OXT sing N N 147 THR CB OG1 sing N N 148 THR CB CG2 sing N N 149 THR CB HB sing N N 150 THR OG1 HG1 sing N N 151 THR CG2 HG21 sing N N 152 THR CG2 HG22 sing N N 153 THR CG2 HG23 sing N N 154 THR OXT HXT sing N N 155 TS9 N CA sing N N 156 TS9 CA C sing N N 157 TS9 CA CB sing N N 158 TS9 C OXT sing N N 159 TS9 C O doub N N 160 TS9 CB OG3 sing N N 161 TS9 CB CG2 sing N N 162 TS9 CB CG1 sing N N 163 TS9 CG1 OD2 sing N N 164 TS9 CG1 CD1 sing N N 165 TS9 N H sing N N 166 TS9 N H2 sing N N 167 TS9 CA HA sing N N 168 TS9 OXT HXT sing N N 169 TS9 OG3 HG3 sing N N 170 TS9 CG2 HG21 sing N N 171 TS9 CG2 HG22 sing N N 172 TS9 CG2 HG23 sing N N 173 TS9 CG1 HG1 sing N N 174 TS9 OD2 HD2 sing N N 175 TS9 CD1 HD11 sing N N 176 TS9 CD1 HD12 sing N N 177 TS9 CD1 HD13 sing N N 178 # _em_3d_crystal_entity.id 1 _em_3d_crystal_entity.image_processing_id 1 _em_3d_crystal_entity.angle_alpha 90 _em_3d_crystal_entity.angle_beta 90 _em_3d_crystal_entity.angle_gamma 90 _em_3d_crystal_entity.length_a 26.219 _em_3d_crystal_entity.length_b 26.219 _em_3d_crystal_entity.length_c 27.534 _em_3d_crystal_entity.space_group_name 'P 43 21 2' _em_3d_crystal_entity.space_group_num 96 # _em_crystal_formation.id 1 _em_crystal_formation.specimen_id 1 _em_crystal_formation.atmosphere ? _em_crystal_formation.details Powder _em_crystal_formation.instrument ? _em_crystal_formation.lipid_mixture ? _em_crystal_formation.lipid_protein_ratio ? _em_crystal_formation.temperature ? _em_crystal_formation.time ? _em_crystal_formation.time_unit ? # _em_ctf_correction.id 1 _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.type NONE _em_ctf_correction.details ? # _em_diffraction.id 1 _em_diffraction.camera_length 960 _em_diffraction.imaging_id 1 _em_diffraction.tilt_angle_list ? # _em_diffraction_shell.id 1 _em_diffraction_shell.em_diffraction_stats_id 1 _em_diffraction_shell.fourier_space_coverage 40.3 _em_diffraction_shell.high_resolution 1.91 _em_diffraction_shell.low_resolution 2.13 _em_diffraction_shell.multiplicity 4.9 _em_diffraction_shell.num_structure_factors 92 _em_diffraction_shell.phase_residual 29.19 # _em_diffraction_stats.id 1 _em_diffraction_stats.details ? _em_diffraction_stats.image_processing_id 1 _em_diffraction_stats.fourier_space_coverage 78.6 _em_diffraction_stats.high_resolution 1.91 _em_diffraction_stats.num_intensities_measured 5578 _em_diffraction_stats.num_structure_factors 686 _em_diffraction_stats.overall_phase_error 26.93 _em_diffraction_stats.overall_phase_residual 26.93 _em_diffraction_stats.phase_error_rejection_criteria 0 _em_diffraction_stats.r_merge 0.236 _em_diffraction_stats.r_sym 0.236 # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.units MEGADALTONS _em_entity_assembly_molwt.value .001619538000 # _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.ncbi_tax_id 146537 _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organism 'Streptomyces azureus' _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details 'FEI Ceta' # _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.avg_electron_dose_per_image 0.09 _em_image_recording.average_exposure_time 2.21 _em_image_recording.details 'FEI CetaD' _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'FEI CETA (4k x 4k)' _em_image_recording.num_diffraction_images 214 _em_image_recording.num_grids_imaged 1 _em_image_recording.num_real_images ? # _em_imaging_optics.id 1 _em_imaging_optics.imaging_id 1 _em_imaging_optics.chr_aberration_corrector ? _em_imaging_optics.energyfilter_lower ? _em_imaging_optics.energyfilter_name ? _em_imaging_optics.energyfilter_upper ? _em_imaging_optics.energyfilter_slit_width ? _em_imaging_optics.phase_plate ? _em_imaging_optics.sph_aberration_corrector ? # loop_ _em_software.id _em_software.category _em_software.details _em_software.name _em_software.version _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id 1 'IMAGE ACQUISITION' ? ? ? ? ? 1 2 MASKING ? ? ? ? ? ? 3 'CTF CORRECTION' ? ? ? 1 ? ? 4 'LAYERLINE INDEXING' ? ? ? ? ? ? 5 'DIFFRACTION INDEXING' ? ? ? ? ? ? 6 'MODEL FITTING' ? MOLREP 11.6.04 ? 1 ? 7 OTHER ? ? ? ? ? ? 8 'MOLECULAR REPLACEMENT' ? MOLREP 11.6.04 1 ? ? 9 'LATTICE DISTORTION CORRECTION' ? ? ? 1 ? ? 10 'SYMMETRY DETERMINATION' ? POINTLESS 1.11.14 1 ? ? 11 'CRYSTALLOGRAPHY MERGING' ? AIMLESS 0.7.3 1 ? ? 12 RECONSTRUCTION ? ? ? 1 ? ? 13 'MODEL REFINEMENT' ? REFMAC 5.8.0232 ? 1 ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration ? _em_specimen.details Powder _em_specimen.embedding_applied NO _em_specimen.shadowing_applied NO _em_specimen.staining_applied NO _em_specimen.vitrification_applied YES # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Science Foundation (NSF, United States)' 'United States' DGE-1650604 1 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' 'United States' R01GM080269 2 'Department of Energy (DOE, United States)' 'United States' DE-FC02-02ER63421 3 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' 'United States' R35GM128867 4 'National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)' 'United States' R35GM128936 5 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.accession_code 1E9W _pdbx_initial_refinement_model.details ? # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support none _pdbx_struct_assembly_auth_evidence.details ? #