data_6UDR # _entry.id 6UDR # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.336 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code PDB 6UDR WWPDB D_1000244445 # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 6UDR _pdbx_database_status.recvd_initial_deposition_date 2019-09-19 _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 'Mulligan, V.K.' 1 0000-0001-6038-8922 'Kang, C.S.' 2 0000-0003-0959-0783 'Antselovich, I.' 3 0000-0002-2208-9937 'Sawaya, M.R.' 4 0000-0003-0874-9043 'Yeates, T.O.' 5 0000-0001-5709-9839 'Baker, D.' 6 0000-0001-7896-6217 # _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 'Protein Sci.' _citation.journal_id_ASTM PRCIEI _citation.journal_id_CSD 0795 _citation.journal_id_ISSN 1469-896X _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 29 _citation.language ? _citation.page_first 2433 _citation.page_last 2445 _citation.title 'Computational design of mixed chirality peptide macrocycles with internal symmetry.' _citation.year 2020 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/pro.3974 _citation.pdbx_database_id_PubMed 33058266 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Mulligan, V.K.' 1 0000-0001-6038-8922 primary 'Kang, C.S.' 2 0000-0003-0959-0783 primary 'Sawaya, M.R.' 3 ? primary 'Rettie, S.' 4 ? primary 'Li, X.' 5 ? primary 'Antselovich, I.' 6 ? primary 'Craven, T.W.' 7 ? primary 'Watkins, A.M.' 8 ? primary 'Labonte, J.W.' 9 ? primary 'DiMaio, F.' 10 ? primary 'Yeates, T.O.' 11 0000-0001-5709-9839 primary 'Baker, D.' 12 ? # _cell.angle_alpha 104.177 _cell.angle_alpha_esd ? _cell.angle_beta 103.843 _cell.angle_beta_esd ? _cell.angle_gamma 116.298 _cell.angle_gamma_esd ? _cell.entry_id 6UDR _cell.details ? _cell.formula_units_Z ? _cell.length_a 11.750 _cell.length_a_esd ? _cell.length_b 12.930 _cell.length_b_esd ? _cell.length_c 12.970 _cell.length_c_esd ? _cell.volume 1569.686 _cell.volume_esd ? _cell.Z_PDB 2 _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 6UDR _symmetry.cell_setting ? _symmetry.Int_Tables_number 2 _symmetry.space_group_name_Hall '-P 1' _symmetry.space_group_name_H-M 'P -1' _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 'S2-3, Lurch crystal form 1' 1215.273 1 ? ? ? ? 2 water nat water 18.015 4 ? ? ? ? # _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 '(DGN)TRPDQ(DTH)(DAR)(DPR)(DAS)' _entity_poly.pdbx_seq_one_letter_code_can QTRPDQTRPD _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 DGN n 1 2 THR n 1 3 ARG n 1 4 PRO n 1 5 ASP n 1 6 GLN n 1 7 DTH n 1 8 DAR n 1 9 DPR n 1 10 DAS 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 ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'synthetic construct' _pdbx_entity_src_syn.organism_common_name ? _pdbx_entity_src_syn.ncbi_taxonomy_id 32630 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 6UDR _struct_ref.pdbx_db_accession 6UDR _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 6UDR _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 10 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 6UDR _struct_ref_seq.db_align_beg 1 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 10 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 10 # 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 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 DAR 'D-peptide linking' . D-ARGININE ? 'C6 H15 N4 O2 1' 175.209 DAS 'D-peptide linking' . 'D-ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 DGN 'D-peptide linking' . D-GLUTAMINE ? 'C5 H10 N2 O3' 146.144 DPR 'D-peptide linking' . D-PROLINE ? 'C5 H9 N O2' 115.130 DTH 'D-peptide linking' . D-THREONINE ? 'C4 H9 N O3' 119.119 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 HOH non-polymer . WATER ? 'H2 O' 18.015 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 # _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 6UDR _exptl.crystals_number 1 _exptl.details ? _exptl.method 'X-RAY DIFFRACTION' _exptl.method_details ? # _exptl_crystal.colour ? _exptl_crystal.density_diffrn ? _exptl_crystal.density_Matthews ? _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol ? _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.id 1 _exptl_crystal.preparation ? _exptl_crystal.size_max ? _exptl_crystal.size_mid ? _exptl_crystal.size_min ? _exptl_crystal.size_rad ? _exptl_crystal.colour_lustre ? _exptl_crystal.colour_modifier ? _exptl_crystal.colour_primary ? _exptl_crystal.density_meas ? _exptl_crystal.density_meas_esd ? _exptl_crystal.density_meas_gt ? _exptl_crystal.density_meas_lt ? _exptl_crystal.density_meas_temp ? _exptl_crystal.density_meas_temp_esd ? _exptl_crystal.density_meas_temp_gt ? _exptl_crystal.density_meas_temp_lt ? _exptl_crystal.pdbx_crystal_image_url ? _exptl_crystal.pdbx_crystal_image_format ? _exptl_crystal.pdbx_mosaicity 0.000 _exptl_crystal.pdbx_mosaicity_esd ? # _exptl_crystal_grow.apparatus ? _exptl_crystal_grow.atmosphere ? _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.details ? _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.method_ref ? _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 298 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details '1.6 M trisodium citrate, pH 6.5' _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.ambient_environment ? _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.ambient_temp_esd ? _diffrn.crystal_id 1 _diffrn.crystal_support ? _diffrn.crystal_treatment ? _diffrn.details ? _diffrn.id 1 _diffrn.ambient_pressure ? _diffrn.ambient_pressure_esd ? _diffrn.ambient_pressure_gt ? _diffrn.ambient_pressure_lt ? _diffrn.ambient_temp_gt ? _diffrn.ambient_temp_lt ? _diffrn.pdbx_serial_crystal_experiment N # _diffrn_detector.details ? _diffrn_detector.detector PIXEL _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'DECTRIS EIGER X 16M' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2018-03-22 _diffrn_detector.pdbx_frequency ? # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator 'Si (111)' _diffrn_radiation.polarisn_norm ? _diffrn_radiation.polarisn_ratio ? _diffrn_radiation.probe ? _diffrn_radiation.type ? _diffrn_radiation.xray_symbol ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_wavelength_list ? _diffrn_radiation.pdbx_wavelength ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_analyzer ? _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.9792 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.current ? _diffrn_source.details ? _diffrn_source.diffrn_id 1 _diffrn_source.power ? _diffrn_source.size ? _diffrn_source.source SYNCHROTRON _diffrn_source.target ? _diffrn_source.type 'APS BEAMLINE 24-ID-E' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.9792 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline 24-ID-E _diffrn_source.pdbx_synchrotron_site APS # _reflns.B_iso_Wilson_estimate ? _reflns.entry_id 6UDR _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.00 _reflns.d_resolution_low 11.520 _reflns.details ? _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_obs 2461 _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.percent_possible_obs 75.000 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 3.500 _reflns.pdbx_Rmerge_I_obs 0.127 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 9.500 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_d_res_high_opt ? _reflns.pdbx_d_res_low_opt ? _reflns.pdbx_d_res_opt_method ? _reflns.phase_calculation_details ? _reflns.pdbx_Rrim_I_all 0.151 _reflns.pdbx_Rpim_I_all 0.080 _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.985 _reflns.pdbx_R_split ? _reflns.pdbx_CC_star ? # _reflns_shell.d_res_high 1.050 _reflns_shell.d_res_low 1.170 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all 1742 _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs 515 _reflns_shell.percent_possible_all 62.000 _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 0.145 _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 3.400 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_netI_over_sigmaI_all ? _reflns_shell.pdbx_netI_over_sigmaI_obs 8.000 _reflns_shell.pdbx_Rrim_I_all 0.175 _reflns_shell.pdbx_Rpim_I_all 0.095 _reflns_shell.pdbx_rejects ? _reflns_shell.pdbx_ordinal 1 _reflns_shell.pdbx_diffrn_id 1 _reflns_shell.pdbx_CC_half 0.961 _reflns_shell.pdbx_R_split ? _reflns_shell.pdbx_CC_star ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 1.44 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details ? _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 6UDR _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _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 1.00 _refine.ls_d_res_low 11.52 _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 2460 _refine.ls_number_reflns_R_free 246 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 75.44 _refine.ls_percent_reflns_R_free 10.00 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.0768 _refine.ls_R_factor_R_free 0.0919 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.0751 _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 2.19 _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 'FREE R-VALUE' _refine.pdbx_method_to_determine_struct 'AB INITIO PHASING' _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii 1.1100 _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii 0.9000 _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 7.6413 _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 ? _refine.overall_SU_ML 0.0451 _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 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.details ? _refine_hist.d_res_high 1.00 _refine_hist.d_res_low 11.52 _refine_hist.number_atoms_solvent 4 _refine_hist.number_atoms_total 46 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein 42 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # 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 'X-RAY DIFFRACTION' ? 0.0129 ? 42 ? f_bond_d ? ? 'X-RAY DIFFRACTION' ? 1.5468 ? 56 ? f_angle_d ? ? 'X-RAY DIFFRACTION' ? 0.1614 ? 6 ? f_chiral_restr ? ? 'X-RAY DIFFRACTION' ? 0.0209 ? 8 ? f_plane_restr ? ? 'X-RAY DIFFRACTION' ? 14.3520 ? 18 ? f_dihedral_angle_d ? ? # loop_ _refine_ls_shell.pdbx_refine_id _refine_ls_shell.d_res_high _refine_ls_shell.d_res_low _refine_ls_shell.number_reflns_all _refine_ls_shell.number_reflns_obs _refine_ls_shell.number_reflns_R_free _refine_ls_shell.number_reflns_R_work _refine_ls_shell.percent_reflns_obs _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 _refine_ls_shell.R_factor_R_free_error _refine_ls_shell.R_factor_R_work _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 _refine_ls_shell.pdbx_phase_error _refine_ls_shell.pdbx_fsc_work _refine_ls_shell.pdbx_fsc_free 'X-RAY DIFFRACTION' 1.00 1.26 . . 92 834 57.20 . . . 0.0932 . 0.0707 . . . . . . . . . . 'X-RAY DIFFRACTION' 1.26 11.52 . . 154 1380 93.48 . . . 0.0913 . 0.0770 . . . . . . . . . . # _struct.entry_id 6UDR _struct.title 'S2 symmetric peptide design number 3 crystal form 1, Lurch' _struct.pdbx_descriptor 'S2-3, Lurch crystal form 1' _struct.pdbx_model_details 'S2 symmetric cyclic peptide' _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 6UDR _struct_keywords.text 'cyclic peptide, centrosymmetric macrocycle, L and D-amino acids, DE NOVO PROTEIN' _struct_keywords.pdbx_keywords 'DE NOVO PROTEIN' # 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 DGN 1 C ? ? ? 1_555 A THR 2 N ? ? A DGN 1 A THR 2 1_555 ? ? ? ? ? ? ? 1.330 ? ? covale2 covale both ? A DGN 1 N ? ? ? 1_555 A ASP 5 C ? ? A DGN 1 A ASP 5 2_555 ? ? ? ? ? ? ? 1.329 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _atom_sites.entry_id 6UDR _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.fract_transf_matrix[1][1] 0.085106 _atom_sites.fract_transf_matrix[1][2] 0.042058 _atom_sites.fract_transf_matrix[1][3] 0.041445 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.086268 _atom_sites.fract_transf_matrix[2][3] 0.038003 _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] 0.086771 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol _atom_type.scat_dispersion_real _atom_type.scat_dispersion_imag _atom_type.scat_Cromer_Mann_a1 _atom_type.scat_Cromer_Mann_a2 _atom_type.scat_Cromer_Mann_a3 _atom_type.scat_Cromer_Mann_a4 _atom_type.scat_Cromer_Mann_b1 _atom_type.scat_Cromer_Mann_b2 _atom_type.scat_Cromer_Mann_b3 _atom_type.scat_Cromer_Mann_b4 _atom_type.scat_Cromer_Mann_c _atom_type.scat_source _atom_type.scat_dispersion_source C ? ? 3.54356 2.42580 ? ? 25.62398 1.50364 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? H ? ? 0.53795 0.34799 0.11320 ? 10.08003 29.74760 2.57510 ? 0.0 ;3-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? N ? ? 4.01032 2.96436 ? ? 19.97189 1.75589 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? O ? ? 4.49882 3.47563 ? ? 15.80542 1.70748 ? ? 0.0 ;2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. ; ? # 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 N N . DGN A 1 1 ? -0.97900 1.13200 4.26900 1.000 0.79628 ? 1 DGN A N 1 HETATM 2 C CA . DGN A 1 1 ? -0.09600 2.27900 4.33300 1.000 1.17382 ? 1 DGN A CA 1 HETATM 3 C C . DGN A 1 1 ? 1.34100 1.89200 4.01900 1.000 1.29423 ? 1 DGN A C 1 HETATM 4 O O . DGN A 1 1 ? 2.18500 2.77600 3.82800 1.000 2.59863 ? 1 DGN A O 1 HETATM 5 C CB . DGN A 1 1 ? -0.56900 3.40700 3.41800 1.000 1.31593 ? 1 DGN A CB 1 HETATM 6 C CG . DGN A 1 1 ? -1.94100 3.93900 3.76700 1.000 1.46440 ? 1 DGN A CG 1 HETATM 7 C CD . DGN A 1 1 ? -2.15600 5.29800 3.11600 1.000 1.74064 ? 1 DGN A CD 1 HETATM 8 O OE1 . DGN A 1 1 ? -1.83200 5.49800 1.93600 1.000 2.35819 ? 1 DGN A OE1 1 HETATM 9 N NE2 . DGN A 1 1 ? -2.66500 6.25700 3.90600 1.000 1.86786 ? 1 DGN A NE2 1 HETATM 10 H H1 . DGN A 1 1 ? -1.22400 0.85900 3.49200 1.000 0.94838 ? 1 DGN A H1 1 HETATM 11 H HA . DGN A 1 1 ? -0.11600 2.61700 5.25300 1.000 1.40142 ? 1 DGN A HA 1 HETATM 12 H HB2 . DGN A 1 1 ? 0.07000 4.13600 3.46300 1.000 1.57195 ? 1 DGN A HB2 1 HETATM 13 H HB3 . DGN A 1 1 ? -0.58300 3.08300 2.50400 1.000 1.57195 ? 1 DGN A HB3 1 HETATM 14 H HG2 . DGN A 1 1 ? -2.02300 4.02100 4.73000 1.000 1.75012 ? 1 DGN A HG2 1 HETATM 15 H HG3 . DGN A 1 1 ? -2.61900 3.31800 3.45800 1.000 1.75012 ? 1 DGN A HG3 1 HETATM 16 H HE21 . DGN A 1 1 ? -2.81100 7.06600 3.58100 1.000 2.23427 ? 1 DGN A HE21 1 HETATM 17 H HE22 . DGN A 1 1 ? -2.85400 6.08000 4.75100 1.000 2.23427 ? 1 DGN A HE22 1 ATOM 18 N N . THR A 1 2 ? 1.65800 0.60200 3.94800 1.000 0.78731 ? 2 THR A N 1 ATOM 19 C CA . THR A 1 2 ? 3.00500 0.13300 3.72500 1.000 1.08838 ? 2 THR A CA 1 ATOM 20 C C . THR A 1 2 ? 3.37300 -0.02500 2.26100 1.000 0.83603 ? 2 THR A C 1 ATOM 21 O O . THR A 1 2 ? 4.55800 -0.09700 1.93200 1.000 1.18347 ? 2 THR A O 1 ATOM 22 C CB . THR A 1 2 ? 3.29900 -1.17600 4.47600 1.000 1.56981 ? 2 THR A CB 1 ATOM 23 O OG1 . THR A 1 2 ? 2.72400 -2.29500 3.81200 1.000 1.44406 ? 2 THR A OG1 1 ATOM 24 C CG2 . THR A 1 2 ? 2.85500 -1.11500 5.92300 1.000 1.91713 ? 2 THR A CG2 1 ATOM 25 H H . THR A 1 2 ? 1.03200 0.02000 4.03800 1.000 0.93761 ? 2 THR A H 1 ATOM 26 H HA . THR A 1 2 ? 3.60600 0.81300 4.09600 1.000 1.29890 ? 2 THR A HA 1 ATOM 27 H HB . THR A 1 2 ? 4.27100 -1.30200 4.47300 1.000 1.87661 ? 2 THR A HB 1 ATOM 28 H HG1 . THR A 1 2 ? 1.90600 -2.25500 3.86500 1.000 1.72571 ? 2 THR A HG1 1 ATOM 29 H HG21 . THR A 1 2 ? 3.25500 -0.35300 6.34900 1.000 2.29340 ? 2 THR A HG21 1 ATOM 30 H HG22 . THR A 1 2 ? 1.89900 -1.03800 5.96200 1.000 2.29340 ? 2 THR A HG22 1 ATOM 31 H HG23 . THR A 1 2 ? 3.13000 -1.91600 6.37600 1.000 2.29340 ? 2 THR A HG23 1 ATOM 32 N N . ARG A 1 3 ? 2.35100 -0.12100 1.38000 1.000 0.69788 ? 3 ARG A N 1 ATOM 33 C CA . ARG A 1 3 ? 2.59200 -0.37800 -0.04100 1.000 0.80283 ? 3 ARG A CA 1 ATOM 34 C C . ARG A 1 3 ? 1.55200 0.37700 -0.88800 1.000 0.71937 ? 3 ARG A C 1 ATOM 35 O O . ARG A 1 3 ? 0.66600 -0.21800 -1.51300 1.000 0.77839 ? 3 ARG A O 1 ATOM 36 C CB . ARG A 1 3 ? 2.59800 -1.85100 -0.38200 1.000 1.10490 ? 3 ARG A CB 1 ATOM 37 C CG . ARG A 1 3 ? 3.77500 -2.62000 0.20200 1.000 1.37209 ? 3 ARG A CG 1 ATOM 38 C CD . ARG A 1 3 ? 5.11200 -2.21900 -0.36200 1.000 1.56295 ? 3 ARG A CD 1 ATOM 39 N NE . ARG A 1 3 ? 5.26800 -2.52000 -1.78300 1.000 1.64340 ? 3 ARG A NE 1 ATOM 40 C CZ . ARG A 1 3 ? 6.09700 -3.39500 -2.29500 1.000 1.50322 ? 3 ARG A CZ 1 ATOM 41 N NH1 . ARG A 1 3 ? 6.75000 -4.28200 -1.53100 1.000 1.73513 ? 3 ARG A NH1 1 ATOM 42 N NH2 . ARG A 1 3 ? 6.29500 -3.39100 -3.61100 1.000 1.80368 ? 3 ARG A NH2 1 ATOM 43 H H . ARG A 1 3 ? 1.54300 -0.02800 1.66100 1.000 0.83029 ? 3 ARG A H 1 ATOM 44 H HA . ARG A 1 3 ? 3.47600 -0.01800 -0.26400 1.000 0.95624 ? 3 ARG A HA 1 ATOM 45 H HB2 . ARG A 1 3 ? 1.77500 -2.24800 -0.05800 1.000 1.31872 ? 3 ARG A HB2 1 ATOM 46 H HB3 . ARG A 1 3 ? 2.61100 -1.94700 -1.34700 1.000 1.31872 ? 3 ARG A HB3 1 ATOM 47 H HG2 . ARG A 1 3 ? 3.78900 -2.48600 1.16200 1.000 1.63935 ? 3 ARG A HG2 1 ATOM 48 H HG3 . ARG A 1 3 ? 3.63900 -3.56600 0.03900 1.000 1.63935 ? 3 ARG A HG3 1 ATOM 49 H HD2 . ARG A 1 3 ? 5.23400 -1.26600 -0.22900 1.000 1.86838 ? 3 ARG A HD2 1 ATOM 50 H HD3 . ARG A 1 3 ? 5.80900 -2.67700 0.13300 1.000 1.86838 ? 3 ARG A HD3 1 ATOM 51 H HE . ARG A 1 3 ? 4.77100 -2.08400 -2.33300 1.000 1.96492 ? 3 ARG A HE 1 ATOM 52 H HH11 . ARG A 1 3 ? 6.63100 -4.28700 -0.68000 1.000 2.07500 ? 3 ARG A HH11 1 ATOM 53 H HH12 . ARG A 1 3 ? 7.29000 -4.84600 -1.89300 1.000 2.07500 ? 3 ARG A HH12 1 ATOM 54 H HH21 . ARG A 1 3 ? 5.88200 -2.82200 -4.10600 1.000 2.15726 ? 3 ARG A HH21 1 ATOM 55 H HH22 . ARG A 1 3 ? 6.83500 -3.95800 -3.96600 1.000 2.15726 ? 3 ARG A HH22 1 ATOM 56 N N . PRO A 1 4 ? 1.69600 1.71300 -1.00500 1.000 0.83930 ? 4 PRO A N 1 ATOM 57 C CA . PRO A 1 4 ? 0.89100 2.45400 -1.98900 1.000 1.03098 ? 4 PRO A CA 1 ATOM 58 C C . PRO A 1 4 ? 0.97800 1.85200 -3.38100 1.000 0.71992 ? 4 PRO A C 1 ATOM 59 O O . PRO A 1 4 ? -0.01000 1.86300 -4.13200 1.000 0.79345 ? 4 PRO A O 1 ATOM 60 C CB . PRO A 1 4 ? 1.47700 3.85600 -1.94000 1.000 1.44305 ? 4 PRO A CB 1 ATOM 61 C CG . PRO A 1 4 ? 1.99500 3.98600 -0.49400 1.000 1.47461 ? 4 PRO A CG 1 ATOM 62 C CD . PRO A 1 4 ? 2.59000 2.60000 -0.23500 1.000 1.17745 ? 4 PRO A CD 1 ATOM 63 H HA . PRO A 1 4 ? -0.04500 2.47800 -1.69900 1.000 1.23002 ? 4 PRO A HA 1 ATOM 64 H HB2 . PRO A 1 4 ? 2.20100 3.95300 -2.57800 1.000 1.72450 ? 4 PRO A HB2 1 ATOM 65 H HB3 . PRO A 1 4 ? 0.79900 4.52300 -2.12700 1.000 1.72450 ? 4 PRO A HB3 1 ATOM 66 H HG2 . PRO A 1 4 ? 2.67000 4.67900 -0.42300 1.000 1.76238 ? 4 PRO A HG2 1 ATOM 67 H HG3 . PRO A 1 4 ? 1.27200 4.18100 0.12300 1.000 1.76238 ? 4 PRO A HG3 1 ATOM 68 H HD2 . PRO A 1 4 ? 3.50300 2.54400 -0.55800 1.000 1.40577 ? 4 PRO A HD2 1 ATOM 69 H HD3 . PRO A 1 4 ? 2.57200 2.38200 0.71000 1.000 1.40577 ? 4 PRO A HD3 1 ATOM 70 N N . ASP A 1 5 ? 2.15400 1.35300 -3.78800 1.000 0.83063 ? 5 ASP A N 1 ATOM 71 C CA . ASP A 1 5 ? 2.28800 0.77000 -5.11700 1.000 0.97688 ? 5 ASP A CA 1 ATOM 72 C C . ASP A 1 5 ? 1.43700 -0.47500 -5.32900 1.000 0.93364 ? 5 ASP A C 1 ATOM 73 O O . ASP A 1 5 ? 1.20700 -0.83000 -6.49700 1.000 1.61583 ? 5 ASP A O 1 ATOM 74 C CB . ASP A 1 5 ? 3.74100 0.49400 -5.46300 1.000 1.19548 ? 5 ASP A CB 1 ATOM 75 C CG . ASP A 1 5 ? 4.43400 -0.54000 -4.58200 1.000 1.38132 ? 5 ASP A CG 1 ATOM 76 O OD1 . ASP A 1 5 ? 3.86600 -0.89900 -3.53100 1.000 1.60990 ? 5 ASP A OD1 1 ATOM 77 O OD2 . ASP A 1 5 ? 5.54700 -0.97400 -4.99600 1.000 1.87325 ? 5 ASP A OD2 1 ATOM 78 H H . ASP A 1 5 ? 2.83400 1.37700 -3.26200 1.000 0.98960 ? 5 ASP A H 1 ATOM 79 H HA . ASP A 1 5 ? 1.96900 1.44200 -5.75500 1.000 1.16510 ? 5 ASP A HA 1 ATOM 80 H HB2 . ASP A 1 5 ? 3.78600 0.19200 -6.38400 1.000 1.42741 ? 5 ASP A HB2 1 ATOM 81 H HB3 . ASP A 1 5 ? 4.23400 1.32700 -5.40500 1.000 1.42741 ? 5 ASP A HB3 1 HETATM 82 O O . HOH B 2 . ? -1.34400 5.01400 -0.76600 1.000 5.03534 ? 101 HOH A O 1 HETATM 83 O O . HOH B 2 . ? 9.24300 -5.31800 -2.84500 1.000 1.64883 ? 102 HOH A O 1 HETATM 84 H H1 . HOH B 2 . ? 9.44100 -4.51200 -3.02900 1.000 1.97143 ? 102 HOH A H1 1 HETATM 85 H H2 . HOH B 2 . ? 8.83100 -5.63300 -3.47400 1.000 1.97143 ? 102 HOH A H2 1 HETATM 86 O O . HOH B 2 . ? 4.88400 1.87900 -2.64700 1.000 2.17779 ? 103 HOH A O 1 HETATM 87 H H1 . HOH B 2 . ? 5.52400 1.29100 -2.38000 1.000 2.60618 ? 103 HOH A H1 1 HETATM 88 H H2 . HOH B 2 . ? 5.19300 2.66000 -2.29000 1.000 2.60618 ? 103 HOH A H2 1 HETATM 89 O O . HOH B 2 . ? 6.32100 -4.58900 1.62700 1.000 2.25702 ? 104 HOH A O 1 HETATM 90 H H1 . HOH B 2 . ? 6.96400 -5.21100 1.79600 1.000 2.70127 ? 104 HOH A H1 1 HETATM 91 H H2 . HOH B 2 . ? 5.61500 -5.24500 1.55100 1.000 2.70127 ? 104 HOH A H2 1 # loop_ _atom_site_anisotrop.id _atom_site_anisotrop.type_symbol _atom_site_anisotrop.pdbx_label_atom_id _atom_site_anisotrop.pdbx_label_alt_id _atom_site_anisotrop.pdbx_label_comp_id _atom_site_anisotrop.pdbx_label_asym_id _atom_site_anisotrop.pdbx_label_seq_id _atom_site_anisotrop.pdbx_PDB_ins_code _atom_site_anisotrop.U[1][1] _atom_site_anisotrop.U[2][2] _atom_site_anisotrop.U[3][3] _atom_site_anisotrop.U[1][2] _atom_site_anisotrop.U[1][3] _atom_site_anisotrop.U[2][3] _atom_site_anisotrop.pdbx_auth_seq_id _atom_site_anisotrop.pdbx_auth_comp_id _atom_site_anisotrop.pdbx_auth_asym_id _atom_site_anisotrop.pdbx_auth_atom_id 1 N N . DGN A 1 ? 0.01578 0.00817 0.00631 -0.00107 -0.00120 -0.00251 1 DGN A N 2 C CA . DGN A 1 ? 0.01738 0.01238 0.01484 -0.00368 0.00246 -0.00009 1 DGN A CA 3 C C . DGN A 1 ? 0.01602 0.01257 0.02058 -0.00581 -0.00164 -0.00160 1 DGN A C 4 O O . DGN A 1 ? 0.02125 0.01994 0.05754 -0.00097 -0.00185 0.00707 1 DGN A O 5 C CB . DGN A 1 ? 0.01862 0.01585 0.01553 -0.00327 -0.00088 0.00124 1 DGN A CB 6 C CG . DGN A 1 ? 0.01981 0.01980 0.01603 -0.00042 0.00079 0.00548 1 DGN A CG 7 C CD . DGN A 1 ? 0.02588 0.02503 0.01522 0.00072 -0.00007 0.00524 1 DGN A CD 8 O OE1 . DGN A 1 ? 0.03734 0.03508 0.01717 0.00861 0.00678 0.00963 1 DGN A OE1 9 N NE2 . DGN A 1 ? 0.02618 0.02294 0.02185 0.00428 0.00496 0.00732 1 DGN A NE2 18 N N . THR A 2 ? 0.01100 0.01171 0.00720 -0.00456 -0.00254 -0.00107 2 THR A N 19 C CA . THR A 2 ? 0.01467 0.01528 0.01141 -0.00001 -0.00100 0.00308 2 THR A CA 20 C C . THR A 2 ? 0.01115 0.01044 0.01017 -0.00005 -0.00140 0.00001 2 THR A C 21 O O . THR A 2 ? 0.01158 0.02069 0.01271 -0.00269 -0.00254 0.00267 2 THR A O 22 C CB . THR A 2 ? 0.01959 0.02330 0.01676 0.00302 -0.00197 0.00889 2 THR A CB 23 O OG1 . THR A 2 ? 0.01816 0.01391 0.02279 0.00258 0.00327 0.00393 2 THR A OG1 24 C CG2 . THR A 2 ? 0.02422 0.03043 0.01818 0.00291 -0.00303 0.01145 2 THR A CG2 32 N N . ARG A 3 ? 0.00836 0.01302 0.00514 -0.00160 0.00016 0.00195 3 ARG A N 33 C CA . ARG A 3 ? 0.01132 0.01434 0.00484 -0.00003 0.00239 0.00044 3 ARG A CA 34 C C . ARG A 3 ? 0.01097 0.01251 0.00385 -0.00019 0.00158 0.00053 3 ARG A C 35 O O . ARG A 3 ? 0.01296 0.01271 0.00390 0.00033 0.00106 -0.00111 3 ARG A O 36 C CB . ARG A 3 ? 0.01662 0.01817 0.00718 0.00042 0.00494 -0.00059 3 ARG A CB 37 C CG . ARG A 3 ? 0.02318 0.01905 0.00991 0.00355 0.00088 0.00073 3 ARG A CG 38 C CD . ARG A 3 ? 0.02484 0.02491 0.00964 0.00878 0.00033 0.00166 3 ARG A CD 39 N NE . ARG A 3 ? 0.02639 0.02411 0.01194 0.00787 0.00071 0.00288 3 ARG A NE 40 C CZ . ARG A 3 ? 0.02656 0.01959 0.01096 0.00190 -0.00017 -0.00092 3 ARG A CZ 41 N NH1 . ARG A 3 ? 0.02953 0.02160 0.01480 0.00779 0.00526 0.00239 3 ARG A NH1 42 N NH2 . ARG A 3 ? 0.02865 0.02840 0.01148 0.00967 0.00353 0.00015 3 ARG A NH2 56 N N . PRO A 4 ? 0.01435 0.01237 0.00517 -0.00080 -0.00305 -0.00047 4 PRO A N 57 C CA . PRO A 4 ? 0.01972 0.01248 0.00697 -0.00174 -0.00158 0.00210 4 PRO A CA 58 C C . PRO A 4 ? 0.01487 0.00642 0.00607 -0.00342 -0.00147 0.00158 4 PRO A C 59 O O . PRO A 4 ? 0.01355 0.00922 0.00738 0.00013 -0.00207 0.00392 4 PRO A O 60 C CB . PRO A 4 ? 0.02646 0.01427 0.01410 0.00059 -0.00039 0.00021 4 PRO A CB 61 C CG . PRO A 4 ? 0.02766 0.01498 0.01339 0.00172 -0.00280 0.00085 4 PRO A CG 62 C CD . PRO A 4 ? 0.02219 0.01500 0.00755 0.00151 -0.00352 0.00207 4 PRO A CD 70 N N . ASP A 5 ? 0.01526 0.01104 0.00527 -0.00074 -0.00053 0.00268 5 ASP A N 71 C CA . ASP A 5 ? 0.01661 0.01438 0.00613 -0.00057 0.00192 0.00340 5 ASP A CA 72 C C . ASP A 5 ? 0.01693 0.01383 0.00472 0.00048 0.00049 -0.00097 5 ASP A C 73 O O . ASP A 5 ? 0.02805 0.02559 0.00775 -0.00224 0.00010 -0.00108 5 ASP A O 74 C CB . ASP A 5 ? 0.01814 0.01716 0.01012 -0.00310 -0.00034 0.00344 5 ASP A CB 75 C CG . ASP A 5 ? 0.02139 0.01878 0.01232 -0.00232 0.00150 0.00059 5 ASP A CG 76 O OD1 . ASP A 5 ? 0.02196 0.02490 0.01430 0.00041 0.00265 0.00984 5 ASP A OD1 77 O OD2 . ASP A 5 ? 0.02730 0.02526 0.01862 0.00650 0.00491 0.00390 5 ASP A OD2 82 O O . HOH B . ? 0.05943 0.07794 0.05395 0.00633 0.00914 0.00339 101 HOH A O 83 O O . HOH B . ? 0.03234 0.01402 0.01629 -0.00731 -0.00669 0.00458 102 HOH A O 86 O O . HOH B . ? 0.02707 0.03098 0.02470 0.00240 -0.01013 -0.00657 103 HOH A O 89 O O . HOH B . ? 0.02453 0.02520 0.03602 0.00124 -0.00195 0.01286 104 HOH A O # 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 DGN 1 1 1 DGN DGN A . n A 1 2 THR 2 2 2 THR THR A . n A 1 3 ARG 3 3 3 ARG ARG A . n A 1 4 PRO 4 4 4 PRO PRO A . n A 1 5 ASP 5 5 5 ASP ASP A . n A 1 6 GLN 6 6 ? ? ? A . n A 1 7 DTH 7 7 ? ? ? A . n A 1 8 DAR 8 8 ? ? ? A . n A 1 9 DPR 9 9 ? ? ? A . n A 1 10 DAS 10 10 ? ? ? 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 14 HOH HOH A . B 2 HOH 2 102 11 HOH HOH A . B 2 HOH 3 103 13 HOH HOH A . B 2 HOH 4 104 12 HOH HOH A . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B 1 2 A,B # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 2 'crystal symmetry operation' 2_555 -x,-y,-z -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 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 2020-09-23 2 'Structure model' 1 1 2020-12-02 # _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 ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # 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 # 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.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_ASTM' 4 2 'Structure model' '_citation.journal_id_CSD' 5 2 'Structure model' '_citation.journal_id_ISSN' 6 2 'Structure model' '_citation.journal_volume' 7 2 'Structure model' '_citation.page_first' 8 2 'Structure model' '_citation.page_last' 9 2 'Structure model' '_citation.pdbx_database_id_DOI' 10 2 'Structure model' '_citation.pdbx_database_id_PubMed' 11 2 'Structure model' '_citation.title' 12 2 'Structure model' '_citation.year' 13 2 'Structure model' '_citation_author.identifier_ORCID' 14 2 'Structure model' '_citation_author.name' # 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 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? XDS ? ? ? 20180126 1 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? Aimless ? ? ? 0.7.1 2 ? refinement ? ? ? ? ? ? ? ? ? ? ? PHENIX ? ? ? v1.16 3 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.25 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? SHELXT ? ? ? . 5 # _pdbx_entry_details.entry_id 6UDR _pdbx_entry_details.has_ligand_of_interest N _pdbx_entry_details.compound_details 'Crystallographic symmetry operator -x,-y,-z generates the C-terminal half of the cyclic peptide Q(DTH)(DAR)(DPR)(DAS)' _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 A GLN 6 ? A GLN 6 2 1 Y 1 A DTH 7 ? A DTH 7 3 1 Y 1 A DAR 8 ? A DAR 8 4 1 Y 1 A DPR 9 ? A DPR 9 5 1 Y 1 A DAS 10 ? A DAS 10 # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'Department of Energy (DOE, United States)' 'United States' DE-FC02-02ER63421 1 'Department of Energy (DOE, United States)' 'United States' DE-AC02-06CH11357 2 # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # _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 ? # _space_group.name_H-M_alt 'P -1' _space_group.name_Hall '-P 1' _space_group.IT_number 2 _space_group.crystal_system triclinic _space_group.id 1 # loop_ _space_group_symop.id _space_group_symop.operation_xyz 1 x,y,z 2 -x,-y,-z #