data_5WOR # _entry.id 5WOR # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.379 _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 5WOR pdb_00005wor 10.2210/pdb5wor/pdb WWPDB D_1000229375 ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5WOR _pdbx_database_status.recvd_initial_deposition_date 2017-08-02 _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 'Sangwan, S.' 1 ? 'Sawaya, M.R.' 2 ? 'Eisenberg, D.S.' 3 ? # _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 27 _citation.language ? _citation.page_first 1231 _citation.page_last 1242 _citation.title 'Atomic structures of corkscrew-forming segments of SOD1 reveal varied oligomer conformations.' _citation.year 2018 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/pro.3391 _citation.pdbx_database_id_PubMed 29453800 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Sangwan, S.' 1 ? primary 'Sawaya, M.R.' 2 ? primary 'Murray, K.A.' 3 ? primary 'Hughes, M.P.' 4 ? primary 'Eisenberg, D.S.' 5 ? # _cell.angle_alpha 90.000 _cell.angle_alpha_esd ? _cell.angle_beta 90.000 _cell.angle_beta_esd ? _cell.angle_gamma 120.000 _cell.angle_gamma_esd ? _cell.entry_id 5WOR _cell.details ? _cell.formula_units_Z ? _cell.length_a 59.615 _cell.length_a_esd ? _cell.length_b 59.615 _cell.length_b_esd ? _cell.length_c 98.927 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB 60 _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 5WOR _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 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 'Superoxide dismutase [Cu-Zn]' 1317.665 10 1.15.1.1 P29K,G38R 'UNP residues 29-39' ? 2 non-polymer syn 'MALONATE ION' 102.046 3 ? ? ? ? 3 non-polymer syn GLYCEROL 92.094 1 ? ? ? ? 4 water nat water 18.015 14 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Superoxide dismutase 1,hSod1' # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(L)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code KVKVWGSIKRL _entity_poly.pdbx_seq_one_letter_code_can KVKVWGSIKRL _entity_poly.pdbx_strand_id A,B,C,D,E,F,G,H,I,J _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 LYS n 1 2 VAL n 1 3 LYS n 1 4 VAL n 1 5 TRP n 1 6 GLY n 1 7 SER n 1 8 ILE n 1 9 LYS n 1 10 ARG n 1 11 LEU 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 11 _pdbx_entity_src_syn.organism_scientific 'Homo sapiens' _pdbx_entity_src_syn.organism_common_name Human _pdbx_entity_src_syn.ncbi_taxonomy_id 9606 _pdbx_entity_src_syn.details synthesized # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code SODC_HUMAN _struct_ref.pdbx_db_accession P00441 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code PVKVWGSIKGL _struct_ref.pdbx_align_begin 29 # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 5WOR A 1 ? 11 ? P00441 29 ? 39 ? 1 11 2 1 5WOR B 1 ? 11 ? P00441 29 ? 39 ? 1 11 3 1 5WOR C 1 ? 11 ? P00441 29 ? 39 ? 1 11 4 1 5WOR D 1 ? 11 ? P00441 29 ? 39 ? 1 11 5 1 5WOR E 1 ? 11 ? P00441 29 ? 39 ? 1 11 6 1 5WOR F 1 ? 11 ? P00441 29 ? 39 ? 1 11 7 1 5WOR G 1 ? 11 ? P00441 29 ? 39 ? 1 11 8 1 5WOR H 1 ? 11 ? P00441 29 ? 39 ? 1 11 9 1 5WOR I 1 ? 11 ? P00441 29 ? 39 ? 1 11 10 1 5WOR J 1 ? 11 ? P00441 29 ? 39 ? 1 11 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 5WOR LYS A 1 ? UNP P00441 PRO 29 'engineered mutation' 1 1 1 5WOR ARG A 10 ? UNP P00441 GLY 38 'engineered mutation' 10 2 2 5WOR LYS B 1 ? UNP P00441 PRO 29 'engineered mutation' 1 3 2 5WOR ARG B 10 ? UNP P00441 GLY 38 'engineered mutation' 10 4 3 5WOR LYS C 1 ? UNP P00441 PRO 29 'engineered mutation' 1 5 3 5WOR ARG C 10 ? UNP P00441 GLY 38 'engineered mutation' 10 6 4 5WOR LYS D 1 ? UNP P00441 PRO 29 'engineered mutation' 1 7 4 5WOR ARG D 10 ? UNP P00441 GLY 38 'engineered mutation' 10 8 5 5WOR LYS E 1 ? UNP P00441 PRO 29 'engineered mutation' 1 9 5 5WOR ARG E 10 ? UNP P00441 GLY 38 'engineered mutation' 10 10 6 5WOR LYS F 1 ? UNP P00441 PRO 29 'engineered mutation' 1 11 6 5WOR ARG F 10 ? UNP P00441 GLY 38 'engineered mutation' 10 12 7 5WOR LYS G 1 ? UNP P00441 PRO 29 'engineered mutation' 1 13 7 5WOR ARG G 10 ? UNP P00441 GLY 38 'engineered mutation' 10 14 8 5WOR LYS H 1 ? UNP P00441 PRO 29 'engineered mutation' 1 15 8 5WOR ARG H 10 ? UNP P00441 GLY 38 'engineered mutation' 10 16 9 5WOR LYS I 1 ? UNP P00441 PRO 29 'engineered mutation' 1 17 9 5WOR ARG I 10 ? UNP P00441 GLY 38 'engineered mutation' 10 18 10 5WOR LYS J 1 ? UNP P00441 PRO 29 'engineered mutation' 1 19 10 5WOR ARG J 10 ? UNP P00441 GLY 38 'engineered mutation' 10 20 # 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 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 GOL non-polymer . GLYCEROL 'GLYCERIN; PROPANE-1,2,3-TRIOL' 'C3 H8 O3' 92.094 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MLI non-polymer . 'MALONATE ION' ? 'C3 H2 O4 -2' 102.046 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # _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 5WOR _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 3.85 _exptl_crystal.density_method ? _exptl_crystal.density_percent_sol 68.06 _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 ? _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 7 _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 'reservoir contained 15% PEG 3350, 0.3M Sodium Malonate' _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_detector.details ? _diffrn_detector.detector CCD _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2013-06-06 # _diffrn_radiation.collimation ? _diffrn_radiation.diffrn_id 1 _diffrn_radiation.filter_edge ? _diffrn_radiation.inhomogeneity ? _diffrn_radiation.monochromator ? _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 0.9791 _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 0.9791 _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 5WOR _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 2.77 _reflns.d_resolution_low 45.8 _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 5444 _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 98.9 _reflns.R_free_details ? _reflns.Rmerge_F_all ? _reflns.Rmerge_F_obs ? _reflns.Friedel_coverage ? _reflns.number_gt ? _reflns.threshold_expression ? _reflns.pdbx_redundancy 5.0 _reflns.pdbx_Rmerge_I_obs 0.183 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 8.9 _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 ? _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half ? _reflns.pdbx_R_split ? # _reflns_shell.d_res_high 2.80 _reflns_shell.d_res_low 2.90 _reflns_shell.meanI_over_sigI_all ? _reflns_shell.meanI_over_sigI_obs ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_possible ? _reflns_shell.number_unique_all ? _reflns_shell.number_unique_obs ? _reflns_shell.percent_possible_all ? _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 0.907 _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 ? _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 1 _reflns_shell.pdbx_CC_half ? _reflns_shell.pdbx_R_split ? # _refine.aniso_B[1][1] -4.5727 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][2] -4.5727 _refine.aniso_B[2][3] 0.0000 _refine.aniso_B[3][3] 9.1454 _refine.B_iso_max 174.810 _refine.B_iso_mean 74.2400 _refine.B_iso_min 37.380 _refine.correlation_coeff_Fo_to_Fc 0.9130 _refine.correlation_coeff_Fo_to_Fc_free 0.8790 _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 5WOR _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 2.7700 _refine.ls_d_res_low 45.7700 _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 5422 _refine.ls_number_reflns_R_free 525 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 98.0000 _refine.ls_percent_reflns_R_free 9.6800 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2140 _refine.ls_R_factor_R_free 0.2470 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2110 _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 0.000 _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 'Four strands composed of residues VKVWGSI of PDBID 5DLI were used as initial model' _refine.pdbx_stereochemistry_target_values ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free ? _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _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 0.2900 _refine.pdbx_overall_SU_R_free_Blow_DPI 0.2890 _refine.pdbx_overall_SU_R_Blow_DPI 0.4760 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_diffrn_id 1 _refine.overall_SU_B ? _refine.overall_SU_ML ? _refine.overall_SU_R_Cruickshank_DPI 0.4580 _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_analyze.entry_id 5WOR _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_analyze.Luzzati_coordinate_error_free ? _refine_analyze.Luzzati_coordinate_error_obs 0.410 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.Luzzati_d_res_low_obs ? _refine_analyze.Luzzati_sigma_a_free ? _refine_analyze.Luzzati_sigma_a_free_details ? _refine_analyze.Luzzati_sigma_a_obs ? _refine_analyze.Luzzati_sigma_a_obs_details ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.RG_d_res_high ? _refine_analyze.RG_d_res_low ? _refine_analyze.RG_free ? _refine_analyze.RG_work ? _refine_analyze.RG_free_work_ratio ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? # _refine_hist.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 2.7700 _refine_hist.d_res_low 45.7700 _refine_hist.pdbx_number_atoms_ligand 27 _refine_hist.number_atoms_solvent 14 _refine_hist.number_atoms_total 959 _refine_hist.pdbx_number_residues_total 110 _refine_hist.pdbx_B_iso_mean_ligand 66.03 _refine_hist.pdbx_B_iso_mean_solvent 63.87 _refine_hist.pdbx_number_atoms_protein 918 _refine_hist.pdbx_number_atoms_nucleic_acid 0 # 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' ? ? ? 358 ? t_dihedral_angle_d 2.000 SINUSOIDAL 'X-RAY DIFFRACTION' ? ? ? 10 ? t_trig_c_planes 2.000 HARMONIC 'X-RAY DIFFRACTION' ? ? ? 124 ? t_gen_planes 5.000 HARMONIC 'X-RAY DIFFRACTION' ? ? ? 951 ? t_it 20.000 HARMONIC 'X-RAY DIFFRACTION' ? ? ? ? ? t_nbd ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? t_improper_torsion ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? t_pseud_angle ? ? 'X-RAY DIFFRACTION' ? ? ? 110 ? t_chiral_improper_torsion 5.000 SEMIHARMONIC 'X-RAY DIFFRACTION' ? ? ? ? ? t_sum_occupancies ? ? 'X-RAY DIFFRACTION' ? ? ? 72 ? t_utility_distance 1.000 HARMONIC 'X-RAY DIFFRACTION' ? ? ? ? ? t_utility_angle ? ? 'X-RAY DIFFRACTION' ? ? ? ? ? t_utility_torsion ? ? 'X-RAY DIFFRACTION' ? ? ? 1005 ? t_ideal_dist_contact 4.000 SEMIHARMONIC 'X-RAY DIFFRACTION' ? 0.010 ? 951 ? t_bond_d 2.000 HARMONIC 'X-RAY DIFFRACTION' ? 1.200 ? 1252 ? t_angle_deg 2.000 HARMONIC 'X-RAY DIFFRACTION' ? 2.440 ? ? ? t_omega_torsion ? ? 'X-RAY DIFFRACTION' ? 22.670 ? ? ? t_other_torsion ? ? # _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.d_res_high 2.7700 _refine_ls_shell.d_res_low 3.1000 _refine_ls_shell.number_reflns_all 1454 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 142 _refine_ls_shell.number_reflns_R_work 1312 _refine_ls_shell.percent_reflns_obs 94.3000 _refine_ls_shell.percent_reflns_R_free 9.7700 _refine_ls_shell.R_factor_all 0.2489 _refine_ls_shell.R_factor_obs ? _refine_ls_shell.R_factor_R_free 0.2687 _refine_ls_shell.R_factor_R_free_error 0.0000 _refine_ls_shell.R_factor_R_work 0.2468 _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 5 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? # _struct.entry_id 5WOR _struct.title 'Corkscrew assembly of SOD1 residues 28-38 with familial mutation G37R' _struct.pdbx_model_details 'amyloid-related oligomer' _struct.pdbx_formula_weight ? _struct.pdbx_formula_weight_method ? _struct.pdbx_model_type_details ? _struct.pdbx_CASP_flag N # _struct_keywords.entry_id 5WOR _struct_keywords.text 'amyloid-related oligomer, PROTEIN FIBRIL' _struct_keywords.pdbx_keywords 'PROTEIN FIBRIL' # 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 1 ? C N N 1 ? D N N 1 ? E N N 1 ? F N N 1 ? G N N 1 ? H N N 1 ? I N N 1 ? J N N 1 ? K N N 2 ? L N N 2 ? M N N 2 ? N N N 3 ? O N N 4 ? P N N 4 ? Q N N 4 ? R N N 4 ? S N N 4 ? T N N 4 ? U N N 4 ? V N N 4 ? # _struct_sheet.id AA1 _struct_sheet.type ? _struct_sheet.number_strands 10 _struct_sheet.details ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA1 4 5 ? anti-parallel AA1 5 6 ? anti-parallel AA1 6 7 ? anti-parallel AA1 7 8 ? anti-parallel AA1 8 9 ? anti-parallel AA1 9 10 ? anti-parallel # loop_ _struct_sheet_range.sheet_id _struct_sheet_range.id _struct_sheet_range.beg_label_comp_id _struct_sheet_range.beg_label_asym_id _struct_sheet_range.beg_label_seq_id _struct_sheet_range.pdbx_beg_PDB_ins_code _struct_sheet_range.end_label_comp_id _struct_sheet_range.end_label_asym_id _struct_sheet_range.end_label_seq_id _struct_sheet_range.pdbx_end_PDB_ins_code _struct_sheet_range.beg_auth_comp_id _struct_sheet_range.beg_auth_asym_id _struct_sheet_range.beg_auth_seq_id _struct_sheet_range.end_auth_comp_id _struct_sheet_range.end_auth_asym_id _struct_sheet_range.end_auth_seq_id AA1 1 VAL A 2 ? ILE A 8 ? VAL A 2 ILE A 8 AA1 2 VAL B 2 ? ILE B 8 ? VAL B 2 ILE B 8 AA1 3 VAL C 2 ? ILE C 8 ? VAL C 2 ILE C 8 AA1 4 VAL D 2 ? ILE D 8 ? VAL D 2 ILE D 8 AA1 5 VAL E 2 ? ILE E 8 ? VAL E 2 ILE E 8 AA1 6 VAL F 2 ? ILE F 8 ? VAL F 2 ILE F 8 AA1 7 VAL G 2 ? ILE G 8 ? VAL G 2 ILE G 8 AA1 8 VAL H 2 ? ILE H 8 ? VAL H 2 ILE H 8 AA1 9 VAL I 2 ? ILE I 8 ? VAL I 2 ILE I 8 AA1 10 VAL J 2 ? ILE J 8 ? VAL J 2 ILE J 8 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N VAL A 4 ? N VAL A 4 O GLY B 6 ? O GLY B 6 AA1 2 3 N TRP B 5 ? N TRP B 5 O LYS C 3 ? O LYS C 3 AA1 3 4 N VAL C 2 ? N VAL C 2 O ILE D 8 ? O ILE D 8 AA1 4 5 N TRP D 5 ? N TRP D 5 O LYS E 3 ? O LYS E 3 AA1 5 6 N GLY E 6 ? N GLY E 6 O VAL F 4 ? O VAL F 4 AA1 6 7 N TRP F 5 ? N TRP F 5 O LYS G 3 ? O LYS G 3 AA1 7 8 N GLY G 6 ? N GLY G 6 O VAL H 4 ? O VAL H 4 AA1 8 9 N LYS H 3 ? N LYS H 3 O TRP I 5 ? O TRP I 5 AA1 9 10 N VAL I 4 ? N VAL I 4 O GLY J 6 ? O GLY J 6 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MLI 101 ? 6 'binding site for residue MLI A 101' AC2 Software B MLI 101 ? 4 'binding site for residue MLI B 101' AC3 Software E MLI 101 ? 4 'binding site for residue MLI E 101' AC4 Software I GOL 101 ? 4 'binding site for residue GOL I 101' # 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 6 LYS A 3 ? LYS A 3 . ? 1_555 ? 2 AC1 6 TRP A 5 ? TRP A 5 . ? 1_555 ? 3 AC1 6 MLI L . ? MLI B 101 . ? 1_555 ? 4 AC1 6 TRP F 5 ? TRP F 5 . ? 2_545 ? 5 AC1 6 TRP G 5 ? TRP G 5 . ? 2_545 ? 6 AC1 6 TRP J 5 ? TRP J 5 . ? 6_655 ? 7 AC2 4 TRP A 5 ? TRP A 5 . ? 1_555 ? 8 AC2 4 MLI K . ? MLI A 101 . ? 1_555 ? 9 AC2 4 TRP B 5 ? TRP B 5 . ? 1_555 ? 10 AC2 4 GLY B 6 ? GLY B 6 . ? 1_555 ? 11 AC3 4 LYS E 3 ? LYS E 3 . ? 1_555 ? 12 AC3 4 TRP E 5 ? TRP E 5 . ? 1_555 ? 13 AC3 4 TRP F 5 ? TRP F 5 . ? 1_555 ? 14 AC3 4 GLY F 6 ? GLY F 6 . ? 1_555 ? 15 AC4 4 LYS I 3 ? LYS I 3 . ? 1_555 ? 16 AC4 4 VAL I 4 ? VAL I 4 . ? 1_555 ? 17 AC4 4 TRP J 5 ? TRP J 5 . ? 1_555 ? 18 AC4 4 GLY J 6 ? GLY J 6 . ? 1_555 ? # _atom_sites.entry_id 5WOR _atom_sites.fract_transf_matrix[1][1] 0.016774 _atom_sites.fract_transf_matrix[1][2] 0.009685 _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] 0.019369 _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] 0.010108 _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 # 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 LYS 1 1 1 LYS LYS A . n A 1 2 VAL 2 2 2 VAL VAL A . n A 1 3 LYS 3 3 3 LYS LYS A . n A 1 4 VAL 4 4 4 VAL VAL A . n A 1 5 TRP 5 5 5 TRP TRP A . n A 1 6 GLY 6 6 6 GLY GLY A . n A 1 7 SER 7 7 7 SER SER A . n A 1 8 ILE 8 8 8 ILE ILE A . n A 1 9 LYS 9 9 9 LYS LYS A . n A 1 10 ARG 10 10 10 ARG ARG A . n A 1 11 LEU 11 11 11 LEU LEU A . n B 1 1 LYS 1 1 1 LYS LYS B . n B 1 2 VAL 2 2 2 VAL VAL B . n B 1 3 LYS 3 3 3 LYS LYS B . n B 1 4 VAL 4 4 4 VAL VAL B . n B 1 5 TRP 5 5 5 TRP TRP B . n B 1 6 GLY 6 6 6 GLY GLY B . n B 1 7 SER 7 7 7 SER SER B . n B 1 8 ILE 8 8 8 ILE ILE B . n B 1 9 LYS 9 9 9 LYS LYS B . n B 1 10 ARG 10 10 10 ARG ARG B . n B 1 11 LEU 11 11 11 LEU LEU B . n C 1 1 LYS 1 1 1 LYS LYS C . n C 1 2 VAL 2 2 2 VAL VAL C . n C 1 3 LYS 3 3 3 LYS LYS C . n C 1 4 VAL 4 4 4 VAL VAL C . n C 1 5 TRP 5 5 5 TRP TRP C . n C 1 6 GLY 6 6 6 GLY GLY C . n C 1 7 SER 7 7 7 SER SER C . n C 1 8 ILE 8 8 8 ILE ILE C . n C 1 9 LYS 9 9 9 LYS LYS C . n C 1 10 ARG 10 10 10 ARG ARG C . n C 1 11 LEU 11 11 11 LEU LEU C . n D 1 1 LYS 1 1 1 LYS LYS D . n D 1 2 VAL 2 2 2 VAL VAL D . n D 1 3 LYS 3 3 3 LYS LYS D . n D 1 4 VAL 4 4 4 VAL VAL D . n D 1 5 TRP 5 5 5 TRP TRP D . n D 1 6 GLY 6 6 6 GLY GLY D . n D 1 7 SER 7 7 7 SER SER D . n D 1 8 ILE 8 8 8 ILE ILE D . n D 1 9 LYS 9 9 9 LYS LYS D . n D 1 10 ARG 10 10 10 ARG ARG D . n D 1 11 LEU 11 11 11 LEU LEU D . n E 1 1 LYS 1 1 1 LYS LYS E . n E 1 2 VAL 2 2 2 VAL VAL E . n E 1 3 LYS 3 3 3 LYS LYS E . n E 1 4 VAL 4 4 4 VAL VAL E . n E 1 5 TRP 5 5 5 TRP TRP E . n E 1 6 GLY 6 6 6 GLY GLY E . n E 1 7 SER 7 7 7 SER SER E . n E 1 8 ILE 8 8 8 ILE ILE E . n E 1 9 LYS 9 9 9 LYS LYS E . n E 1 10 ARG 10 10 10 ARG ARG E . n E 1 11 LEU 11 11 11 LEU LEU E . n F 1 1 LYS 1 1 1 LYS LYS F . n F 1 2 VAL 2 2 2 VAL VAL F . n F 1 3 LYS 3 3 3 LYS LYS F . n F 1 4 VAL 4 4 4 VAL VAL F . n F 1 5 TRP 5 5 5 TRP TRP F . n F 1 6 GLY 6 6 6 GLY GLY F . n F 1 7 SER 7 7 7 SER SER F . n F 1 8 ILE 8 8 8 ILE ILE F . n F 1 9 LYS 9 9 9 LYS LYS F . n F 1 10 ARG 10 10 10 ARG ARG F . n F 1 11 LEU 11 11 11 LEU LEU F . n G 1 1 LYS 1 1 1 LYS LYS G . n G 1 2 VAL 2 2 2 VAL VAL G . n G 1 3 LYS 3 3 3 LYS LYS G . n G 1 4 VAL 4 4 4 VAL VAL G . n G 1 5 TRP 5 5 5 TRP TRP G . n G 1 6 GLY 6 6 6 GLY GLY G . n G 1 7 SER 7 7 7 SER SER G . n G 1 8 ILE 8 8 8 ILE ILE G . n G 1 9 LYS 9 9 9 LYS LYS G . n G 1 10 ARG 10 10 10 ARG ARG G . n G 1 11 LEU 11 11 11 LEU LEU G . n H 1 1 LYS 1 1 1 LYS LYS H . n H 1 2 VAL 2 2 2 VAL VAL H . n H 1 3 LYS 3 3 3 LYS LYS H . n H 1 4 VAL 4 4 4 VAL VAL H . n H 1 5 TRP 5 5 5 TRP TRP H . n H 1 6 GLY 6 6 6 GLY GLY H . n H 1 7 SER 7 7 7 SER SER H . n H 1 8 ILE 8 8 8 ILE ILE H . n H 1 9 LYS 9 9 9 LYS LYS H . n H 1 10 ARG 10 10 10 ARG ARG H . n H 1 11 LEU 11 11 11 LEU LEU H . n I 1 1 LYS 1 1 1 LYS LYS I . n I 1 2 VAL 2 2 2 VAL VAL I . n I 1 3 LYS 3 3 3 LYS LYS I . n I 1 4 VAL 4 4 4 VAL VAL I . n I 1 5 TRP 5 5 5 TRP TRP I . n I 1 6 GLY 6 6 6 GLY GLY I . n I 1 7 SER 7 7 7 SER SER I . n I 1 8 ILE 8 8 8 ILE ILE I . n I 1 9 LYS 9 9 9 LYS LYS I . n I 1 10 ARG 10 10 10 ARG ARG I . n I 1 11 LEU 11 11 11 LEU LEU I . n J 1 1 LYS 1 1 1 LYS LYS J . n J 1 2 VAL 2 2 2 VAL VAL J . n J 1 3 LYS 3 3 3 LYS LYS J . n J 1 4 VAL 4 4 4 VAL VAL J . n J 1 5 TRP 5 5 5 TRP TRP J . n J 1 6 GLY 6 6 6 GLY GLY J . n J 1 7 SER 7 7 7 SER SER J . n J 1 8 ILE 8 8 8 ILE ILE J . n J 1 9 LYS 9 9 9 LYS LYS J . n J 1 10 ARG 10 10 10 ARG ARG J . n J 1 11 LEU 11 11 11 LEU LEU J . 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 K 2 MLI 1 101 2 MLI MLI A . L 2 MLI 1 101 1 MLI MLI B . M 2 MLI 1 101 3 MLI MLI E . N 3 GOL 1 101 1 GOL GOL I . O 4 HOH 1 201 7 HOH HOH A . P 4 HOH 1 201 1 HOH HOH B . P 4 HOH 2 202 9 HOH HOH B . Q 4 HOH 1 101 11 HOH HOH C . Q 4 HOH 2 102 2 HOH HOH C . R 4 HOH 1 101 10 HOH HOH D . R 4 HOH 2 102 12 HOH HOH D . S 4 HOH 1 201 13 HOH HOH E . T 4 HOH 1 101 6 HOH HOH F . T 4 HOH 2 102 3 HOH HOH F . U 4 HOH 1 101 4 HOH HOH H . U 4 HOH 2 102 8 HOH HOH H . V 4 HOH 1 101 5 HOH HOH J . V 4 HOH 2 102 14 HOH HOH J . # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details eicosameric _pdbx_struct_assembly.oligomeric_count 20 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V # 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' 6_655 -x+1,-x+y,-z+1/3 -0.5000000000 -0.8660254038 0.0000000000 59.6150000000 -0.8660254038 0.5000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 32.9756666667 # 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 2018-05-30 2 'Structure model' 1 1 2018-07-18 3 'Structure model' 1 2 2019-11-20 4 'Structure model' 1 3 2023-10-04 # _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 3 'Structure model' 'Author supporting evidence' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Database references' 6 4 'Structure model' 'Refinement description' # 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 3 'Structure model' pdbx_audit_support 3 4 'Structure model' chem_comp_atom 4 4 'Structure model' chem_comp_bond 5 4 'Structure model' database_2 6 4 'Structure model' pdbx_initial_refinement_model # 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_volume' 2 2 'Structure model' '_citation.page_first' 3 2 'Structure model' '_citation.page_last' 4 3 'Structure model' '_pdbx_audit_support.funding_organization' 5 4 'Structure model' '_database_2.pdbx_DOI' 6 4 'Structure model' '_database_2.pdbx_database_accession' # 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 ? ? ? ? ? ? ? ? ? ? ? BUSTER ? ? ? 2.10.3 1 ? 'data extraction' ? ? ? ? ? ? ? ? ? ? ? PDB_EXTRACT ? ? ? 3.22 2 ? 'data reduction' ? ? ? ? ? ? ? ? ? ? ? DENZO ? ? ? . 3 ? 'data scaling' ? ? ? ? ? ? ? ? ? ? ? SCALEPACK ? ? ? . 4 ? phasing ? ? ? ? ? ? ? ? ? ? ? PHASER ? ? ? . 5 # 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 LYS E 9 ? ? -91.01 -60.37 2 1 TRP H 5 ? ? -162.76 119.29 3 1 TRP J 5 ? ? -166.91 119.02 # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 Y 1 B ARG 10 ? CG ? B ARG 10 CG 2 1 Y 1 B ARG 10 ? CD ? B ARG 10 CD 3 1 Y 1 B ARG 10 ? NE ? B ARG 10 NE 4 1 Y 1 B ARG 10 ? CZ ? B ARG 10 CZ 5 1 Y 1 B ARG 10 ? NH1 ? B ARG 10 NH1 6 1 Y 1 B ARG 10 ? NH2 ? B ARG 10 NH2 7 1 Y 1 I ARG 10 ? CG ? I ARG 10 CG 8 1 Y 1 I ARG 10 ? CD ? I ARG 10 CD 9 1 Y 1 I ARG 10 ? NE ? I ARG 10 NE 10 1 Y 1 I ARG 10 ? CZ ? I ARG 10 CZ 11 1 Y 1 I ARG 10 ? NH1 ? I ARG 10 NH1 12 1 Y 1 I ARG 10 ? NH2 ? I ARG 10 NH2 # 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 ARG N N N N 1 ARG CA C N S 2 ARG C C N N 3 ARG O O N N 4 ARG CB C N N 5 ARG CG C N N 6 ARG CD C N N 7 ARG NE N N N 8 ARG CZ C N N 9 ARG NH1 N N N 10 ARG NH2 N N N 11 ARG OXT O N N 12 ARG H H N N 13 ARG H2 H N N 14 ARG HA H N N 15 ARG HB2 H N N 16 ARG HB3 H N N 17 ARG HG2 H N N 18 ARG HG3 H N N 19 ARG HD2 H N N 20 ARG HD3 H N N 21 ARG HE H N N 22 ARG HH11 H N N 23 ARG HH12 H N N 24 ARG HH21 H N N 25 ARG HH22 H N N 26 ARG HXT H N N 27 GLY N N N N 28 GLY CA C N N 29 GLY C C N N 30 GLY O O N N 31 GLY OXT O N N 32 GLY H H N N 33 GLY H2 H N N 34 GLY HA2 H N N 35 GLY HA3 H N N 36 GLY HXT H N N 37 GOL C1 C N N 38 GOL O1 O N N 39 GOL C2 C N N 40 GOL O2 O N N 41 GOL C3 C N N 42 GOL O3 O N N 43 GOL H11 H N N 44 GOL H12 H N N 45 GOL HO1 H N N 46 GOL H2 H N N 47 GOL HO2 H N N 48 GOL H31 H N N 49 GOL H32 H N N 50 GOL HO3 H N N 51 HOH O O N N 52 HOH H1 H N N 53 HOH H2 H N N 54 ILE N N N N 55 ILE CA C N S 56 ILE C C N N 57 ILE O O N N 58 ILE CB C N S 59 ILE CG1 C N N 60 ILE CG2 C N N 61 ILE CD1 C N N 62 ILE OXT O N N 63 ILE H H N N 64 ILE H2 H N N 65 ILE HA H N N 66 ILE HB H N N 67 ILE HG12 H N N 68 ILE HG13 H N N 69 ILE HG21 H N N 70 ILE HG22 H N N 71 ILE HG23 H N N 72 ILE HD11 H N N 73 ILE HD12 H N N 74 ILE HD13 H N N 75 ILE HXT H N N 76 LEU N N N N 77 LEU CA C N S 78 LEU C C N N 79 LEU O O N N 80 LEU CB C N N 81 LEU CG C N N 82 LEU CD1 C N N 83 LEU CD2 C N N 84 LEU OXT O N N 85 LEU H H N N 86 LEU H2 H N N 87 LEU HA H N N 88 LEU HB2 H N N 89 LEU HB3 H N N 90 LEU HG H N N 91 LEU HD11 H N N 92 LEU HD12 H N N 93 LEU HD13 H N N 94 LEU HD21 H N N 95 LEU HD22 H N N 96 LEU HD23 H N N 97 LEU HXT H N N 98 LYS N N N N 99 LYS CA C N S 100 LYS C C N N 101 LYS O O N N 102 LYS CB C N N 103 LYS CG C N N 104 LYS CD C N N 105 LYS CE C N N 106 LYS NZ N N N 107 LYS OXT O N N 108 LYS H H N N 109 LYS H2 H N N 110 LYS HA H N N 111 LYS HB2 H N N 112 LYS HB3 H N N 113 LYS HG2 H N N 114 LYS HG3 H N N 115 LYS HD2 H N N 116 LYS HD3 H N N 117 LYS HE2 H N N 118 LYS HE3 H N N 119 LYS HZ1 H N N 120 LYS HZ2 H N N 121 LYS HZ3 H N N 122 LYS HXT H N N 123 MLI C1 C N N 124 MLI C2 C N N 125 MLI C3 C N N 126 MLI O6 O N N 127 MLI O7 O N N 128 MLI O8 O N N 129 MLI O9 O N N 130 MLI H11 H N N 131 MLI H12 H N N 132 PRO N N N N 133 PRO CA C N S 134 PRO C C N N 135 PRO O O N N 136 PRO CB C N N 137 PRO CG C N N 138 PRO CD C N N 139 PRO OXT O N N 140 PRO H H N N 141 PRO HA H N N 142 PRO HB2 H N N 143 PRO HB3 H N N 144 PRO HG2 H N N 145 PRO HG3 H N N 146 PRO HD2 H N N 147 PRO HD3 H N N 148 PRO HXT H N N 149 SER N N N N 150 SER CA C N S 151 SER C C N N 152 SER O O N N 153 SER CB C N N 154 SER OG O N N 155 SER OXT O N N 156 SER H H N N 157 SER H2 H N N 158 SER HA H N N 159 SER HB2 H N N 160 SER HB3 H N N 161 SER HG H N N 162 SER HXT H N N 163 TRP N N N N 164 TRP CA C N S 165 TRP C C N N 166 TRP O O N N 167 TRP CB C N N 168 TRP CG C Y N 169 TRP CD1 C Y N 170 TRP CD2 C Y N 171 TRP NE1 N Y N 172 TRP CE2 C Y N 173 TRP CE3 C Y N 174 TRP CZ2 C Y N 175 TRP CZ3 C Y N 176 TRP CH2 C Y N 177 TRP OXT O N N 178 TRP H H N N 179 TRP H2 H N N 180 TRP HA H N N 181 TRP HB2 H N N 182 TRP HB3 H N N 183 TRP HD1 H N N 184 TRP HE1 H N N 185 TRP HE3 H N N 186 TRP HZ2 H N N 187 TRP HZ3 H N N 188 TRP HH2 H N N 189 TRP HXT H N N 190 VAL N N N N 191 VAL CA C N S 192 VAL C C N N 193 VAL O O N N 194 VAL CB C N N 195 VAL CG1 C N N 196 VAL CG2 C N N 197 VAL OXT O N N 198 VAL H H N N 199 VAL H2 H N N 200 VAL HA H N N 201 VAL HB H N N 202 VAL HG11 H N N 203 VAL HG12 H N N 204 VAL HG13 H N N 205 VAL HG21 H N N 206 VAL HG22 H N N 207 VAL HG23 H N N 208 VAL HXT H N N 209 # 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 ARG N CA sing N N 1 ARG N H sing N N 2 ARG N H2 sing N N 3 ARG CA C sing N N 4 ARG CA CB sing N N 5 ARG CA HA sing N N 6 ARG C O doub N N 7 ARG C OXT sing N N 8 ARG CB CG sing N N 9 ARG CB HB2 sing N N 10 ARG CB HB3 sing N N 11 ARG CG CD sing N N 12 ARG CG HG2 sing N N 13 ARG CG HG3 sing N N 14 ARG CD NE sing N N 15 ARG CD HD2 sing N N 16 ARG CD HD3 sing N N 17 ARG NE CZ sing N N 18 ARG NE HE sing N N 19 ARG CZ NH1 sing N N 20 ARG CZ NH2 doub N N 21 ARG NH1 HH11 sing N N 22 ARG NH1 HH12 sing N N 23 ARG NH2 HH21 sing N N 24 ARG NH2 HH22 sing N N 25 ARG OXT HXT sing N N 26 GLY N CA sing N N 27 GLY N H sing N N 28 GLY N H2 sing N N 29 GLY CA C sing N N 30 GLY CA HA2 sing N N 31 GLY CA HA3 sing N N 32 GLY C O doub N N 33 GLY C OXT sing N N 34 GLY OXT HXT sing N N 35 GOL C1 O1 sing N N 36 GOL C1 C2 sing N N 37 GOL C1 H11 sing N N 38 GOL C1 H12 sing N N 39 GOL O1 HO1 sing N N 40 GOL C2 O2 sing N N 41 GOL C2 C3 sing N N 42 GOL C2 H2 sing N N 43 GOL O2 HO2 sing N N 44 GOL C3 O3 sing N N 45 GOL C3 H31 sing N N 46 GOL C3 H32 sing N N 47 GOL O3 HO3 sing N N 48 HOH O H1 sing N N 49 HOH O H2 sing N N 50 ILE N CA sing N N 51 ILE N H sing N N 52 ILE N H2 sing N N 53 ILE CA C sing N N 54 ILE CA CB sing N N 55 ILE CA HA sing N N 56 ILE C O doub N N 57 ILE C OXT sing N N 58 ILE CB CG1 sing N N 59 ILE CB CG2 sing N N 60 ILE CB HB sing N N 61 ILE CG1 CD1 sing N N 62 ILE CG1 HG12 sing N N 63 ILE CG1 HG13 sing N N 64 ILE CG2 HG21 sing N N 65 ILE CG2 HG22 sing N N 66 ILE CG2 HG23 sing N N 67 ILE CD1 HD11 sing N N 68 ILE CD1 HD12 sing N N 69 ILE CD1 HD13 sing N N 70 ILE OXT HXT sing N N 71 LEU N CA sing N N 72 LEU N H sing N N 73 LEU N H2 sing N N 74 LEU CA C sing N N 75 LEU CA CB sing N N 76 LEU CA HA sing N N 77 LEU C O doub N N 78 LEU C OXT sing N N 79 LEU CB CG sing N N 80 LEU CB HB2 sing N N 81 LEU CB HB3 sing N N 82 LEU CG CD1 sing N N 83 LEU CG CD2 sing N N 84 LEU CG HG sing N N 85 LEU CD1 HD11 sing N N 86 LEU CD1 HD12 sing N N 87 LEU CD1 HD13 sing N N 88 LEU CD2 HD21 sing N N 89 LEU CD2 HD22 sing N N 90 LEU CD2 HD23 sing N N 91 LEU OXT HXT sing N N 92 LYS N CA sing N N 93 LYS N H sing N N 94 LYS N H2 sing N N 95 LYS CA C sing N N 96 LYS CA CB sing N N 97 LYS CA HA sing N N 98 LYS C O doub N N 99 LYS C OXT sing N N 100 LYS CB CG sing N N 101 LYS CB HB2 sing N N 102 LYS CB HB3 sing N N 103 LYS CG CD sing N N 104 LYS CG HG2 sing N N 105 LYS CG HG3 sing N N 106 LYS CD CE sing N N 107 LYS CD HD2 sing N N 108 LYS CD HD3 sing N N 109 LYS CE NZ sing N N 110 LYS CE HE2 sing N N 111 LYS CE HE3 sing N N 112 LYS NZ HZ1 sing N N 113 LYS NZ HZ2 sing N N 114 LYS NZ HZ3 sing N N 115 LYS OXT HXT sing N N 116 MLI C1 C2 sing N N 117 MLI C1 C3 sing N N 118 MLI C1 H11 sing N N 119 MLI C1 H12 sing N N 120 MLI C2 O6 doub N N 121 MLI C2 O7 sing N N 122 MLI C3 O8 doub N N 123 MLI C3 O9 sing N N 124 PRO N CA sing N N 125 PRO N CD sing N N 126 PRO N H sing N N 127 PRO CA C sing N N 128 PRO CA CB sing N N 129 PRO CA HA sing N N 130 PRO C O doub N N 131 PRO C OXT sing N N 132 PRO CB CG sing N N 133 PRO CB HB2 sing N N 134 PRO CB HB3 sing N N 135 PRO CG CD sing N N 136 PRO CG HG2 sing N N 137 PRO CG HG3 sing N N 138 PRO CD HD2 sing N N 139 PRO CD HD3 sing N N 140 PRO OXT HXT sing N N 141 SER N CA sing N N 142 SER N H sing N N 143 SER N H2 sing N N 144 SER CA C sing N N 145 SER CA CB sing N N 146 SER CA HA sing N N 147 SER C O doub N N 148 SER C OXT sing N N 149 SER CB OG sing N N 150 SER CB HB2 sing N N 151 SER CB HB3 sing N N 152 SER OG HG sing N N 153 SER OXT HXT sing N N 154 TRP N CA sing N N 155 TRP N H sing N N 156 TRP N H2 sing N N 157 TRP CA C sing N N 158 TRP CA CB sing N N 159 TRP CA HA sing N N 160 TRP C O doub N N 161 TRP C OXT sing N N 162 TRP CB CG sing N N 163 TRP CB HB2 sing N N 164 TRP CB HB3 sing N N 165 TRP CG CD1 doub Y N 166 TRP CG CD2 sing Y N 167 TRP CD1 NE1 sing Y N 168 TRP CD1 HD1 sing N N 169 TRP CD2 CE2 doub Y N 170 TRP CD2 CE3 sing Y N 171 TRP NE1 CE2 sing Y N 172 TRP NE1 HE1 sing N N 173 TRP CE2 CZ2 sing Y N 174 TRP CE3 CZ3 doub Y N 175 TRP CE3 HE3 sing N N 176 TRP CZ2 CH2 doub Y N 177 TRP CZ2 HZ2 sing N N 178 TRP CZ3 CH2 sing Y N 179 TRP CZ3 HZ3 sing N N 180 TRP CH2 HH2 sing N N 181 TRP OXT HXT sing N N 182 VAL N CA sing N N 183 VAL N H sing N N 184 VAL N H2 sing N N 185 VAL CA C sing N N 186 VAL CA CB sing N N 187 VAL CA HA sing N N 188 VAL C O doub N N 189 VAL C OXT sing N N 190 VAL CB CG1 sing N N 191 VAL CB CG2 sing N N 192 VAL CB HB sing N N 193 VAL CG1 HG11 sing N N 194 VAL CG1 HG12 sing N N 195 VAL CG1 HG13 sing N N 196 VAL CG2 HG21 sing N N 197 VAL CG2 HG22 sing N N 198 VAL CG2 HG23 sing N N 199 VAL OXT HXT sing N N 200 # loop_ _pdbx_audit_support.funding_organization _pdbx_audit_support.country _pdbx_audit_support.grant_number _pdbx_audit_support.ordinal 'National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)' 'United States' ag054022 1 'Howard Hughes Medical Institute (HHMI)' 'United States' ? 2 # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MALONATE ION' MLI 3 GLYCEROL GOL 4 water 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 5DLI _pdbx_initial_refinement_model.details 'Four strands composed of residues VKVWGSI of PDBID 5DLI were used as initial model' # _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 ? #