data_5KO0 # _entry.id 5KO0 # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _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 5KO0 pdb_00005ko0 10.2210/pdb5ko0/pdb WWPDB D_1000222506 ? ? EMDB EMD-8273 ? ? # 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 2016-12-21 2 'Structure model' 1 1 2017-09-13 3 'Structure model' 1 2 2018-04-25 4 'Structure model' 1 3 2018-06-06 5 'Structure model' 1 4 2019-09-04 6 'Structure model' 1 5 2019-11-20 7 'Structure model' 1 6 2021-06-30 8 'Structure model' 1 7 2024-03-06 # _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' 'Author supporting evidence' 2 2 'Structure model' 'Data collection' 3 3 'Structure model' 'Data collection' 4 4 'Structure model' 'Data collection' 5 4 'Structure model' 'Experimental preparation' 6 4 'Structure model' 'Refinement description' 7 5 'Structure model' 'Data collection' 8 5 'Structure model' 'Database references' 9 6 'Structure model' 'Author supporting evidence' 10 7 'Structure model' 'Data collection' 11 8 'Structure model' 'Data collection' 12 8 'Structure model' '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' em_software 2 2 'Structure model' pdbx_audit_support 3 3 'Structure model' diffrn_source 4 4 'Structure model' diffrn_radiation 5 4 'Structure model' exptl_crystal_grow 6 4 'Structure model' software 7 5 'Structure model' citation 8 5 'Structure model' citation_author 9 6 'Structure model' pdbx_audit_support 10 7 'Structure model' diffrn_detector 11 8 'Structure model' chem_comp_atom 12 8 'Structure model' chem_comp_bond 13 8 'Structure model' database_2 # 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' '_em_software.name' 2 2 'Structure model' '_pdbx_audit_support.funding_organization' 3 3 'Structure model' '_diffrn_source.source' 4 4 'Structure model' '_diffrn_radiation.pdbx_monochromatic_or_laue_m_l' 5 4 'Structure model' '_diffrn_radiation.pdbx_scattering_type' 6 4 'Structure model' '_exptl_crystal_grow.method' 7 4 'Structure model' '_software.classification' 8 5 'Structure model' '_citation.country' 9 5 'Structure model' '_citation.journal_abbrev' 10 5 'Structure model' '_citation.journal_id_CSD' 11 5 'Structure model' '_citation.journal_id_ISSN' 12 5 'Structure model' '_citation.journal_volume' 13 5 'Structure model' '_citation.pdbx_database_id_DOI' 14 5 'Structure model' '_citation.pdbx_database_id_PubMed' 15 5 'Structure model' '_citation.title' 16 5 'Structure model' '_citation.year' 17 6 'Structure model' '_pdbx_audit_support.funding_organization' 18 7 'Structure model' '_diffrn_detector.detector' 19 8 'Structure model' '_database_2.pdbx_DOI' 20 8 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 5KO0 _pdbx_database_status.recvd_initial_deposition_date 2016-06-28 _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_ _pdbx_database_related.db_name _pdbx_database_related.details _pdbx_database_related.db_id _pdbx_database_related.content_type EMDB . EMD-8273 'associated EM volume' EMDB . EMD-8272 'other EM volume' PDB . 5KNZ unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Krotee, P.A.L.' 1 'Rodriguez, J.A.' 2 'Sawaya, M.R.' 3 'Cascio, D.' 4 'Shi, D.' 5 'Nannenga, B.L.' 6 'Hattne, J.' 7 'Reyes, F.E.' 8 'Gonen, T.' 9 'Eisenberg, D.S.' 10 # _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 Elife _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2050-084X _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume 6 _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Atomic structures of fibrillar segments of hIAPP suggest tightly mated beta-sheets are important for cytotoxicity.' _citation.year 2017 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.7554/eLife.19273 _citation.pdbx_database_id_PubMed 28045370 _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Krotee, P.' 1 0000-0002-9582-658X primary 'Rodriguez, J.A.' 2 ? primary 'Sawaya, M.R.' 3 0000-0003-0874-9043 primary 'Cascio, D.' 4 0000-0002-3877-6803 primary 'Reyes, F.E.' 5 ? primary 'Shi, D.' 6 ? primary 'Hattne, J.' 7 0000-0002-8936-0912 primary 'Nannenga, B.L.' 8 ? primary 'Oskarsson, M.E.' 9 ? primary 'Philipp, S.' 10 ? primary 'Griner, S.' 11 ? primary 'Jiang, L.' 12 ? primary 'Glabe, C.G.' 13 ? primary 'Westermark, G.T.' 14 ? primary 'Gonen, T.' 15 ? primary 'Eisenberg, D.S.' 16 ? # 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 'hIAPP(15-25)WT' 1193.289 2 ? ? ? 'islet amyloid' 2 non-polymer syn 'THIOCYANATE ION' 58.082 1 ? ? ? ? 3 water nat water 18.015 6 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'Amylin, Diabetes-associated peptide, DAP, Insulinoma amyloid peptide' # _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 FLVHSSNNFGA _entity_poly.pdbx_seq_one_letter_code_can FLVHSSNNFGA _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'THIOCYANATE ION' SCN 3 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 PHE n 1 2 LEU n 1 3 VAL n 1 4 HIS n 1 5 SER n 1 6 SER n 1 7 ASN n 1 8 ASN n 1 9 PHE n 1 10 GLY n 1 11 ALA 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 ? # 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 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 HOH non-polymer . WATER ? 'H2 O' 18.015 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 SCN non-polymer . 'THIOCYANATE ION' ? 'C N S -1' 58.082 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # 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 PHE 1 15 15 PHE PHE A . n A 1 2 LEU 2 16 16 LEU LEU A . n A 1 3 VAL 3 17 17 VAL VAL A . n A 1 4 HIS 4 18 18 HIS HIS A . n A 1 5 SER 5 19 19 SER SER A . n A 1 6 SER 6 20 20 SER SER A . n A 1 7 ASN 7 21 21 ASN ASN A . n A 1 8 ASN 8 22 22 ASN ASN A . n A 1 9 PHE 9 23 23 PHE PHE A . n A 1 10 GLY 10 24 24 GLY GLY A . n A 1 11 ALA 11 25 25 ALA ALA A . n B 1 1 PHE 1 15 15 PHE PHE B . n B 1 2 LEU 2 16 16 LEU LEU B . n B 1 3 VAL 3 17 17 VAL VAL B . n B 1 4 HIS 4 18 18 HIS HIS B . n B 1 5 SER 5 19 19 SER SER B . n B 1 6 SER 6 20 20 SER SER B . n B 1 7 ASN 7 21 21 ASN ASN B . n B 1 8 ASN 8 22 22 ASN ASN B . n B 1 9 PHE 9 23 23 PHE PHE B . n B 1 10 GLY 10 24 24 GLY GLY B . n B 1 11 ALA 11 25 25 ALA ALA B . 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 C 2 SCN 1 101 1 SCN SCN B . D 3 HOH 1 101 1 HOH HOH A . D 3 HOH 2 102 4 HOH HOH A . E 3 HOH 1 201 2 HOH HOH B . E 3 HOH 2 202 3 HOH HOH B . E 3 HOH 3 203 6 HOH HOH B . E 3 HOH 4 204 5 HOH HOH B . # 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 scaling' ? ? 'Wolfgang Kabsch' ? ? ? ? ? ? http://www.mpimf-heidelberg.mpg.de/~kabsch/xds/html_doc/xscale_program.html ? XSCALE ? ? package . 1 ? phasing ? ? 'Randy J. Read' cimr-phaser@lists.cam.ac.uk 'Tue May 20 11:52:06 2014' ? ? ? ? http://www-structmed.cimr.cam.ac.uk/phaser/ ? PHASER ? ? program 2.5.6 2 ? refinement ? ? 'Paul D. Adams' PDAdams@lbl.gov ? ? ? ? C++ http://www.phenix-online.org/ ? PHENIX ? ? package . 3 ? 'data extraction' ? ? PDB deposit@deposit.rcsb.org 'June. 20, 2015' ? ? ? C++ http://sw-tools.pdb.org/apps/PDB_EXTRACT/ ? PDB_EXTRACT ? ? package 3.20 4 # _cell.angle_alpha 62.840 _cell.angle_alpha_esd ? _cell.angle_beta 88.900 _cell.angle_beta_esd ? _cell.angle_gamma 87.600 _cell.angle_gamma_esd ? _cell.entry_id 5KO0 _cell.details ? _cell.formula_units_Z ? _cell.length_a 11.680 _cell.length_a_esd ? _cell.length_b 18.180 _cell.length_b_esd ? _cell.length_c 19.930 _cell.length_c_esd ? _cell.volume ? _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 5KO0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' _symmetry.pdbx_full_space_group_name_H-M ? # _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 5KO0 _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON CRYSTALLOGRAPHY' _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 ? _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 ? _exptl_crystal_grow.pressure ? _exptl_crystal_grow.pressure_esd ? _exptl_crystal_grow.seeding ? _exptl_crystal_grow.seeding_ref ? _exptl_crystal_grow.temp 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.temp_esd ? _exptl_crystal_grow.time ? _exptl_crystal_grow.pdbx_details ;2 uL 20 mg/mL FLVHSSNNFGA + 1 uL 35% MPD, 0.35 M sodium thiocyanate against a reservoir of 35% MPD, 0.35 M sodium thiocyanate. Crystals appeared within several hours. ; _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 ? # _diffrn_detector.details ? _diffrn_detector.detector CMOS _diffrn_detector.diffrn_id 1 _diffrn_detector.type 'TVIPS F416 CMOS CAMERA' _diffrn_detector.area_resol_mean ? _diffrn_detector.dtime ? _diffrn_detector.pdbx_frames_total ? _diffrn_detector.pdbx_collection_time_total ? _diffrn_detector.pdbx_collection_date 2014-11-04 # _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 electron # _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.power ? _diffrn_source.size ? _diffrn_source.source 'ELECTRON MICROSCOPE' _diffrn_source.target ? _diffrn_source.type 'TECNAI F20 TEM' _diffrn_source.voltage ? _diffrn_source.take-off_angle ? _diffrn_source.pdbx_wavelength_list 0.0251 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_beamline ? _diffrn_source.pdbx_synchrotron_site ? # _reflns.B_iso_Wilson_estimate 7.760 _reflns.entry_id 5KO0 _reflns.data_reduction_details ? _reflns.data_reduction_method ? _reflns.d_resolution_high 1.400 _reflns.d_resolution_low 17.733 _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 2180 _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 -3.000 _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 ? _reflns.pdbx_Rmerge_I_obs 0.193 _reflns.pdbx_Rmerge_I_all ? _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_av_sigmaI ? _reflns.pdbx_netI_over_sigmaI 4.330 _reflns.pdbx_res_netI_over_av_sigmaI_2 ? _reflns.pdbx_res_netI_over_sigmaI_2 ? _reflns.pdbx_chi_squared 0.847 _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 0.215 _reflns.pdbx_Rpim_I_all ? _reflns.pdbx_d_opt ? _reflns.pdbx_number_measured_all 9014 _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 _reflns.pdbx_CC_half 0.985 _reflns.pdbx_R_split ? # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _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 _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 _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_CC_half _reflns_shell.pdbx_R_split 1.400 1.440 ? 1.100 ? 153 238 ? 84 35.300 ? ? ? ? 0.505 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.648 ? 0 1 1 ? ? 1.440 1.470 ? 1.200 ? 240 189 ? 119 63.000 ? ? ? ? 0.559 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.710 ? 0 2 1 ? ? 1.470 1.520 ? 1.720 ? 344 217 ? 144 66.400 ? ? ? ? 0.409 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.512 ? 0 3 1 0.644 ? 1.520 1.560 ? 1.920 ? 389 180 ? 140 77.800 ? ? ? ? 0.279 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.329 ? 0 4 1 0.956 ? 1.560 1.620 ? 2.320 ? 586 207 ? 166 80.200 ? ? ? ? 0.415 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.472 ? 0 5 1 0.841 ? 1.620 1.670 ? 2.560 ? 615 188 ? 152 80.900 ? ? ? ? 0.389 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.442 ? 0 6 1 0.896 ? 1.670 1.730 ? 2.540 ? 496 152 ? 124 81.600 ? ? ? ? 0.460 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.521 ? 0 7 1 0.842 ? 1.730 1.810 ? 3.230 ? 634 185 ? 151 81.600 ? ? ? ? 0.321 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.364 ? 0 8 1 0.916 ? 1.810 1.890 ? 3.950 ? 652 168 ? 138 82.100 ? ? ? ? 0.283 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.315 ? 0 9 1 0.961 ? 1.890 1.980 ? 4.770 ? 672 160 ? 132 82.500 ? ? ? ? 0.270 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.302 ? 0 10 1 0.909 ? 1.980 2.090 ? 5.830 ? 593 143 ? 121 84.600 ? ? ? ? 0.202 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.221 ? 0 11 1 0.933 ? 2.090 2.210 ? 6.950 ? 646 149 ? 123 82.600 ? ? ? ? 0.225 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.246 ? 0 12 1 0.976 ? 2.210 2.360 ? 6.040 ? 585 134 ? 115 85.800 ? ? ? ? 0.184 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.202 ? 0 13 1 0.979 ? 2.360 2.550 ? 6.100 ? 505 125 ? 99 79.200 ? ? ? ? 0.261 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.290 ? 0 14 1 0.900 ? 2.550 2.800 ? 6.470 ? 458 109 ? 87 79.800 ? ? ? ? 0.242 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.267 ? 0 15 1 0.951 ? 2.800 3.130 ? 6.950 ? 407 100 ? 83 83.000 ? ? ? ? 0.217 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.245 ? 0 16 1 0.979 ? 3.130 3.610 ? 9.230 ? 369 91 ? 73 80.200 ? ? ? ? 0.158 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.175 ? 0 17 1 0.977 ? 3.610 4.420 ? 10.190 ? 337 81 ? 61 75.300 ? ? ? ? 0.133 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.146 ? 0 18 1 0.983 ? 4.420 6.260 ? 9.930 ? 237 59 ? 45 76.300 ? ? ? ? 0.129 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.140 ? 0 19 1 0.997 ? 6.260 17.733 ? 8.300 ? 96 32 ? 23 71.900 ? ? ? ? 0.140 ? ? ? ? ? ? ? ? ? ? ? ? ? 0.158 ? 0 20 1 0.984 ? # _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 21.980 _refine.B_iso_mean 9.0302 _refine.B_iso_min 1.100 _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 5KO0 _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 1.400 _refine.ls_d_res_low 9.7490 _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 2177 _refine.ls_number_reflns_R_free 218 _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 75.5600 _refine.ls_percent_reflns_R_free 10.0100 _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.2287 _refine.ls_R_factor_R_free 0.2590 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.2247 _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 2.010 _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 NONE _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _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 29.8300 _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 0.2100 _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.cycle_id final _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.d_res_high 1.3990 _refine_hist.d_res_low 9.7490 _refine_hist.pdbx_number_atoms_ligand 3 _refine_hist.number_atoms_solvent 6 _refine_hist.number_atoms_total 179 _refine_hist.pdbx_number_residues_total 22 _refine_hist.pdbx_B_iso_mean_ligand 17.67 _refine_hist.pdbx_B_iso_mean_solvent 11.86 _refine_hist.pdbx_number_atoms_protein 170 _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 'ELECTRON CRYSTALLOGRAPHY' ? 0.008 ? 176 ? f_bond_d ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 1.216 ? 235 ? f_angle_d ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.047 ? 24 ? f_chiral_restr ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 0.004 ? 32 ? f_plane_restr ? ? 'ELECTRON CRYSTALLOGRAPHY' ? 12.170 ? 52 ? 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 'ELECTRON CRYSTALLOGRAPHY' 1.400 1.7605 . . 99 897 69.0000 . . . 0.3155 . 0.2506 . . . . . . . . . . 'ELECTRON CRYSTALLOGRAPHY' 1.7605 9.7490 . . 119 1062 82.0000 . . . 0.2401 . 0.2152 . . . . . . . . . . # _struct.entry_id 5KO0 _struct.title 'Human Islet Amyloid Polypeptide Segment 15-FLVHSSNNFGA-25 Determined by MicroED' _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 5KO0 _struct_keywords.text 'Amyloid, islet amyloid polypeptide, Type II Diabetes, Toxic Spine, MicroED, 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 2 ? D N N 3 ? E N N 3 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code IAPP_HUMAN _struct_ref.pdbx_db_accession P10997 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code FLVHSSNNFGA _struct_ref.pdbx_align_begin 48 # 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 5KO0 A 1 ? 11 ? P10997 48 ? 58 ? 15 25 2 1 5KO0 B 1 ? 11 ? P10997 48 ? 58 ? 15 25 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octadecameric _pdbx_struct_assembly.oligomeric_count 18 # loop_ _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression _pdbx_struct_assembly_gen.asym_id_list 1 1 A,B,C,D,E 1 2 A,B,C,D,E 1 3 A,B,C,D,E 1 4 A,B,C,D,E 1 5 A,B,C,D,E 1 6 A,B,C,D,E 1 7 A,B,C,D,E 1 8 A,B,C,D,E 1 9 A,B,C,D,E # 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' 1_155 x-4,y,z 1.0000000000 0.0000000000 0.0000000000 -46.7200000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 3 'crystal symmetry operation' 1_255 x-3,y,z 1.0000000000 0.0000000000 0.0000000000 -35.0400000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 4 'crystal symmetry operation' 1_355 x-2,y,z 1.0000000000 0.0000000000 0.0000000000 -23.3600000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 5 'crystal symmetry operation' 1_455 x-1,y,z 1.0000000000 0.0000000000 0.0000000000 -11.6800000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 6 'crystal symmetry operation' 1_655 x+1,y,z 1.0000000000 0.0000000000 0.0000000000 11.6800000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 7 'crystal symmetry operation' 1_755 x+2,y,z 1.0000000000 0.0000000000 0.0000000000 23.3600000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 8 'crystal symmetry operation' 1_855 x+3,y,z 1.0000000000 0.0000000000 0.0000000000 35.0400000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 9 'crystal symmetry operation' 1_955 x+4,y,z 1.0000000000 0.0000000000 0.0000000000 46.7200000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 # _struct_biol.id 1 _struct_biol.details 'The biological unit is an extended beta sheet comprising peptides repeated ad infinitum along the a crystal axis.' # _struct_sheet.id AA1 _struct_sheet.type ? _struct_sheet.number_strands 2 _struct_sheet.details ? # _struct_sheet_order.sheet_id AA1 _struct_sheet_order.range_id_1 1 _struct_sheet_order.range_id_2 2 _struct_sheet_order.offset ? _struct_sheet_order.sense 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 LEU A 2 ? GLY A 10 ? LEU A 16 GLY A 24 AA1 2 LEU B 2 ? GLY B 10 ? LEU B 16 GLY B 24 # _pdbx_struct_sheet_hbond.sheet_id AA1 _pdbx_struct_sheet_hbond.range_id_1 1 _pdbx_struct_sheet_hbond.range_id_2 2 _pdbx_struct_sheet_hbond.range_1_label_atom_id N _pdbx_struct_sheet_hbond.range_1_label_comp_id PHE _pdbx_struct_sheet_hbond.range_1_label_asym_id A _pdbx_struct_sheet_hbond.range_1_label_seq_id 9 _pdbx_struct_sheet_hbond.range_1_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_1_auth_atom_id N _pdbx_struct_sheet_hbond.range_1_auth_comp_id PHE _pdbx_struct_sheet_hbond.range_1_auth_asym_id A _pdbx_struct_sheet_hbond.range_1_auth_seq_id 23 _pdbx_struct_sheet_hbond.range_2_label_atom_id O _pdbx_struct_sheet_hbond.range_2_label_comp_id VAL _pdbx_struct_sheet_hbond.range_2_label_asym_id B _pdbx_struct_sheet_hbond.range_2_label_seq_id 3 _pdbx_struct_sheet_hbond.range_2_PDB_ins_code ? _pdbx_struct_sheet_hbond.range_2_auth_atom_id O _pdbx_struct_sheet_hbond.range_2_auth_comp_id VAL _pdbx_struct_sheet_hbond.range_2_auth_asym_id B _pdbx_struct_sheet_hbond.range_2_auth_seq_id 17 # _struct_site.id AC1 _struct_site.pdbx_evidence_code Software _struct_site.pdbx_auth_asym_id B _struct_site.pdbx_auth_comp_id SCN _struct_site.pdbx_auth_seq_id 101 _struct_site.pdbx_auth_ins_code ? _struct_site.pdbx_num_residues 2 _struct_site.details 'binding site for residue SCN B 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 2 ASN A 8 ? ASN A 22 . ? 1_555 ? 2 AC1 2 SER B 5 ? SER B 19 . ? 1_555 ? # _pdbx_phasing_MR.entry_id 5KO0 _pdbx_phasing_MR.method_rotation ? _pdbx_phasing_MR.method_translation ? _pdbx_phasing_MR.model_details 'Phaser MODE: MR_AUTO' _pdbx_phasing_MR.R_factor ? _pdbx_phasing_MR.R_rigid_body ? _pdbx_phasing_MR.correlation_coeff_Fo_to_Fc ? _pdbx_phasing_MR.correlation_coeff_Io_to_Ic ? _pdbx_phasing_MR.d_res_high_rotation ? _pdbx_phasing_MR.d_res_low_rotation ? _pdbx_phasing_MR.d_res_high_translation ? _pdbx_phasing_MR.d_res_low_translation ? _pdbx_phasing_MR.packing ? _pdbx_phasing_MR.reflns_percent_rotation ? _pdbx_phasing_MR.reflns_percent_translation ? _pdbx_phasing_MR.sigma_F_rotation ? _pdbx_phasing_MR.sigma_F_translation ? _pdbx_phasing_MR.sigma_I_rotation ? _pdbx_phasing_MR.sigma_I_translation ? # _phasing.method MR # _em_3d_fitting.entry_id 5KO0 _em_3d_fitting.id 1 _em_3d_fitting.details ? _em_3d_fitting.overall_b_value 9.03 _em_3d_fitting.ref_protocol OTHER _em_3d_fitting.ref_space RECIPROCAL _em_3d_fitting.target_criteria 'maximum likelihood' _em_3d_fitting.method ? # _em_3d_reconstruction.entry_id 5KO0 _em_3d_reconstruction.id 1 _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.details ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.num_particles ? _em_3d_reconstruction.resolution 1.400 _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_3d_reconstruction.citation_id ? _em_3d_reconstruction.euler_angles_details ? # _em_buffer.id 1 _em_buffer.details ? _em_buffer.pH 7.0 _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 'Amyloid fiber' _em_entity_assembly.source 'MULTIPLE SOURCES' _em_entity_assembly.type COMPLEX _em_entity_assembly.entity_id_list 1 _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? # _em_image_scans.entry_id 5KO0 _em_image_scans.id 1 _em_image_scans.dimension_height 4096 _em_image_scans.dimension_width 4096 _em_image_scans.frames_per_image ? _em_image_scans.image_recording_id 1 _em_image_scans.sampling_size 15.6 _em_image_scans.scanner_model ? _em_image_scans.used_frames_per_image ? _em_image_scans.number_digital_images ? _em_image_scans.details ? _em_image_scans.od_range ? _em_image_scans.quant_bit_size ? _em_image_scans.citation_id ? # _em_imaging.id 1 _em_imaging.entry_id 5KO0 _em_imaging.accelerating_voltage 200 _em_imaging.alignment_procedure BASIC _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 TECNAI 20' _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 100 _em_imaging.recording_temperature_minimum 100 _em_imaging.residual_tilt ? _em_imaging.specimen_holder_model 'GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER' _em_imaging.specimen_id 1 _em_imaging.date ? _em_imaging.temperature ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.specimen_holder_type ? _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.citation_id ? _em_imaging.detector_distance ? # _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_sample_support.citation_id ? # _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.chamber_temperature ? _em_vitrification.cryogen_name ETHANE _em_vitrification.details ? _em_vitrification.humidity ? _em_vitrification.instrument ? _em_vitrification.entry_id 5KO0 _em_vitrification.temp ? _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? # _em_experiment.entry_id 5KO0 _em_experiment.id 1 _em_experiment.aggregation_state '3D ARRAY' _em_experiment.reconstruction_method CRYSTALLOGRAPHY _em_experiment.entity_assembly_id 1 # 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 ASN N N N N 14 ASN CA C N S 15 ASN C C N N 16 ASN O O N N 17 ASN CB C N N 18 ASN CG C N N 19 ASN OD1 O N N 20 ASN ND2 N N N 21 ASN OXT O N N 22 ASN H H N N 23 ASN H2 H N N 24 ASN HA H N N 25 ASN HB2 H N N 26 ASN HB3 H N N 27 ASN HD21 H N N 28 ASN HD22 H N N 29 ASN HXT H N N 30 GLY N N N N 31 GLY CA C N N 32 GLY C C N N 33 GLY O O N N 34 GLY OXT O N N 35 GLY H H N N 36 GLY H2 H N N 37 GLY HA2 H N N 38 GLY HA3 H N N 39 GLY HXT H N N 40 HIS N N N N 41 HIS CA C N S 42 HIS C C N N 43 HIS O O N N 44 HIS CB C N N 45 HIS CG C Y N 46 HIS ND1 N Y N 47 HIS CD2 C Y N 48 HIS CE1 C Y N 49 HIS NE2 N Y N 50 HIS OXT O N N 51 HIS H H N N 52 HIS H2 H N N 53 HIS HA H N N 54 HIS HB2 H N N 55 HIS HB3 H N N 56 HIS HD1 H N N 57 HIS HD2 H N N 58 HIS HE1 H N N 59 HIS HE2 H N N 60 HIS HXT H N N 61 HOH O O N N 62 HOH H1 H N N 63 HOH H2 H N N 64 LEU N N N N 65 LEU CA C N S 66 LEU C C N N 67 LEU O O N N 68 LEU CB C N N 69 LEU CG C N N 70 LEU CD1 C N N 71 LEU CD2 C N N 72 LEU OXT O N N 73 LEU H H N N 74 LEU H2 H N N 75 LEU HA H N N 76 LEU HB2 H N N 77 LEU HB3 H N N 78 LEU HG H N N 79 LEU HD11 H N N 80 LEU HD12 H N N 81 LEU HD13 H N N 82 LEU HD21 H N N 83 LEU HD22 H N N 84 LEU HD23 H N N 85 LEU HXT H N N 86 PHE N N N N 87 PHE CA C N S 88 PHE C C N N 89 PHE O O N N 90 PHE CB C N N 91 PHE CG C Y N 92 PHE CD1 C Y N 93 PHE CD2 C Y N 94 PHE CE1 C Y N 95 PHE CE2 C Y N 96 PHE CZ C Y N 97 PHE OXT O N N 98 PHE H H N N 99 PHE H2 H N N 100 PHE HA H N N 101 PHE HB2 H N N 102 PHE HB3 H N N 103 PHE HD1 H N N 104 PHE HD2 H N N 105 PHE HE1 H N N 106 PHE HE2 H N N 107 PHE HZ H N N 108 PHE HXT H N N 109 SCN S S N N 110 SCN C C N N 111 SCN N N N N 112 SER N N N N 113 SER CA C N S 114 SER C C N N 115 SER O O N N 116 SER CB C N N 117 SER OG O N N 118 SER OXT O N N 119 SER H H N N 120 SER H2 H N N 121 SER HA H N N 122 SER HB2 H N N 123 SER HB3 H N N 124 SER HG H N N 125 SER HXT H N N 126 VAL N N N N 127 VAL CA C N S 128 VAL C C N N 129 VAL O O N N 130 VAL CB C N N 131 VAL CG1 C N N 132 VAL CG2 C N N 133 VAL OXT O N N 134 VAL H H N N 135 VAL H2 H N N 136 VAL HA H N N 137 VAL HB H N N 138 VAL HG11 H N N 139 VAL HG12 H N N 140 VAL HG13 H N N 141 VAL HG21 H N N 142 VAL HG22 H N N 143 VAL HG23 H N N 144 VAL HXT H N N 145 # 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 ASN N CA sing N N 13 ASN N H sing N N 14 ASN N H2 sing N N 15 ASN CA C sing N N 16 ASN CA CB sing N N 17 ASN CA HA sing N N 18 ASN C O doub N N 19 ASN C OXT sing N N 20 ASN CB CG sing N N 21 ASN CB HB2 sing N N 22 ASN CB HB3 sing N N 23 ASN CG OD1 doub N N 24 ASN CG ND2 sing N N 25 ASN ND2 HD21 sing N N 26 ASN ND2 HD22 sing N N 27 ASN OXT HXT sing N N 28 GLY N CA sing N N 29 GLY N H sing N N 30 GLY N H2 sing N N 31 GLY CA C sing N N 32 GLY CA HA2 sing N N 33 GLY CA HA3 sing N N 34 GLY C O doub N N 35 GLY C OXT sing N N 36 GLY OXT HXT sing N N 37 HIS N CA sing N N 38 HIS N H sing N N 39 HIS N H2 sing N N 40 HIS CA C sing N N 41 HIS CA CB sing N N 42 HIS CA HA sing N N 43 HIS C O doub N N 44 HIS C OXT sing N N 45 HIS CB CG sing N N 46 HIS CB HB2 sing N N 47 HIS CB HB3 sing N N 48 HIS CG ND1 sing Y N 49 HIS CG CD2 doub Y N 50 HIS ND1 CE1 doub Y N 51 HIS ND1 HD1 sing N N 52 HIS CD2 NE2 sing Y N 53 HIS CD2 HD2 sing N N 54 HIS CE1 NE2 sing Y N 55 HIS CE1 HE1 sing N N 56 HIS NE2 HE2 sing N N 57 HIS OXT HXT sing N N 58 HOH O H1 sing N N 59 HOH O H2 sing N N 60 LEU N CA sing N N 61 LEU N H sing N N 62 LEU N H2 sing N N 63 LEU CA C sing N N 64 LEU CA CB sing N N 65 LEU CA HA sing N N 66 LEU C O doub N N 67 LEU C OXT sing N N 68 LEU CB CG sing N N 69 LEU CB HB2 sing N N 70 LEU CB HB3 sing N N 71 LEU CG CD1 sing N N 72 LEU CG CD2 sing N N 73 LEU CG HG sing N N 74 LEU CD1 HD11 sing N N 75 LEU CD1 HD12 sing N N 76 LEU CD1 HD13 sing N N 77 LEU CD2 HD21 sing N N 78 LEU CD2 HD22 sing N N 79 LEU CD2 HD23 sing N N 80 LEU OXT HXT sing N N 81 PHE N CA sing N N 82 PHE N H sing N N 83 PHE N H2 sing N N 84 PHE CA C sing N N 85 PHE CA CB sing N N 86 PHE CA HA sing N N 87 PHE C O doub N N 88 PHE C OXT sing N N 89 PHE CB CG sing N N 90 PHE CB HB2 sing N N 91 PHE CB HB3 sing N N 92 PHE CG CD1 doub Y N 93 PHE CG CD2 sing Y N 94 PHE CD1 CE1 sing Y N 95 PHE CD1 HD1 sing N N 96 PHE CD2 CE2 doub Y N 97 PHE CD2 HD2 sing N N 98 PHE CE1 CZ doub Y N 99 PHE CE1 HE1 sing N N 100 PHE CE2 CZ sing Y N 101 PHE CE2 HE2 sing N N 102 PHE CZ HZ sing N N 103 PHE OXT HXT sing N N 104 SCN S C sing N N 105 SCN C N trip N N 106 SER N CA sing N N 107 SER N H sing N N 108 SER N H2 sing N N 109 SER CA C sing N N 110 SER CA CB sing N N 111 SER CA HA sing N N 112 SER C O doub N N 113 SER C OXT sing N N 114 SER CB OG sing N N 115 SER CB HB2 sing N N 116 SER CB HB3 sing N N 117 SER OG HG sing N N 118 SER OXT HXT sing N N 119 VAL N CA sing N N 120 VAL N H sing N N 121 VAL N H2 sing N N 122 VAL CA C sing N N 123 VAL CA CB sing N N 124 VAL CA HA sing N N 125 VAL C O doub N N 126 VAL C OXT sing N N 127 VAL CB CG1 sing N N 128 VAL CB CG2 sing N N 129 VAL CB HB sing N N 130 VAL CG1 HG11 sing N N 131 VAL CG1 HG12 sing N N 132 VAL CG1 HG13 sing N N 133 VAL CG2 HG21 sing N N 134 VAL CG2 HG22 sing N N 135 VAL CG2 HG23 sing N N 136 VAL OXT HXT sing N N 137 # _em_3d_crystal_entity.id 1 _em_3d_crystal_entity.image_processing_id 1 _em_3d_crystal_entity.angle_alpha 62.8 _em_3d_crystal_entity.angle_beta 88.9 _em_3d_crystal_entity.angle_gamma 87.6 _em_3d_crystal_entity.length_a 11.68 _em_3d_crystal_entity.length_b 18.18 _em_3d_crystal_entity.length_c 19.93 _em_3d_crystal_entity.space_group_name P1 _em_3d_crystal_entity.space_group_num 1 # loop_ _em_buffer_component.buffer_id _em_buffer_component.id _em_buffer_component.concentration _em_buffer_component.concentration_units _em_buffer_component.formula _em_buffer_component.name 1 1 0.35 M NaSCN 'sodium thiocyanate' 1 2 35 % ? MPD # _em_crystal_formation.id 1 _em_crystal_formation.specimen_id 1 _em_crystal_formation.atmosphere 'Air, sealed chamber' _em_crystal_formation.details ;20 mg/mL Lyophilized peptide in ice-cold water. Crystals were grown using the hanging drop vapor diffusion method at 4 degrees C in 0.35 M sodium thiocyanate and 35% MPD. ; _em_crystal_formation.instrument 'Hanging Drop Vapor Diffusion Tray' _em_crystal_formation.lipid_mixture ? _em_crystal_formation.lipid_protein_ratio ? _em_crystal_formation.temperature 277 _em_crystal_formation.time 7 _em_crystal_formation.time_unit DAY # _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 1840 _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 75.0 _em_diffraction_shell.high_resolution 1.40 _em_diffraction_shell.low_resolution 22 _em_diffraction_shell.multiplicity 4.1 _em_diffraction_shell.num_structure_factors 2180 _em_diffraction_shell.phase_residual 0.01 # _em_diffraction_stats.id 1 _em_diffraction_stats.details 'Phasing statistics are not applicable. No imaging was used. The phases were obtained using molecular replacement.' _em_diffraction_stats.image_processing_id 1 _em_diffraction_stats.fourier_space_coverage 75 _em_diffraction_stats.high_resolution 1.4 _em_diffraction_stats.num_intensities_measured 9014 _em_diffraction_stats.num_structure_factors 2180 _em_diffraction_stats.overall_phase_error 0.01 _em_diffraction_stats.overall_phase_residual 0.01 _em_diffraction_stats.phase_error_rejection_criteria 0 _em_diffraction_stats.r_merge 0.193 _em_diffraction_stats.r_sym 0.193 # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.experimental_flag YES _em_entity_assembly_molwt.units KILODALTONS/NANOMETER _em_entity_assembly_molwt.value 4.075 # _em_image_processing.id 1 _em_image_processing.image_recording_id 1 _em_image_processing.details ? # _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.avg_electron_dose_per_image 0.01 _em_image_recording.average_exposure_time 2 _em_image_recording.details 'The detector was operated in rolling shutter mode with 2x2 pixel binning.' _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'TVIPS TEMCAM-F416 (4k x 4k)' _em_image_recording.num_diffraction_images 879 _em_image_recording.num_grids_imaged 2 _em_image_recording.num_real_images ? # 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' ? EM-Menu ? ? ? 1 2 MASKING ? ? ? ? ? ? 3 'CTF CORRECTION' ? ? ? 1 ? ? 4 'LAYERLINE INDEXING' ? ? ? ? ? ? 5 'DIFFRACTION INDEXING' ? XDS ? ? ? ? 6 'MODEL FITTING' ? Coot 0.8.2 ? 1 ? 7 OTHER ? ? ? ? ? ? 8 'MOLECULAR REPLACEMENT' ? Phaser 2.5.6 1 ? ? 9 'LATTICE DISTORTION CORRECTION' ? ? ? 1 ? ? 10 'SYMMETRY DETERMINATION' ? ? ? 1 ? ? 11 'CRYSTALLOGRAPHY MERGING' ? ? ? 1 ? ? 12 RECONSTRUCTION ? ? ? 1 ? ? 13 'MODEL REFINEMENT' ? PHENIX 1.9 ? 1 ? # _em_specimen.id 1 _em_specimen.experiment_id 1 _em_specimen.concentration 20 _em_specimen.details ? _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 Institutes of Health/National Institute on Aging (NIH/NIA)' 'United States' 'R01 AG029430' 1 'Howard Hughes Medical Institute (HHMI)' 'United States' ? 2 # _atom_sites.entry_id 5KO0 _atom_sites.fract_transf_matrix[1][1] 0.085616 _atom_sites.fract_transf_matrix[1][2] -0.003584 _atom_sites.fract_transf_matrix[1][3] -0.000010 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.055054 _atom_sites.fract_transf_matrix[2][3] -0.028217 _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] 0.056392 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C N O S # loop_