data_9S7P # _entry.id 9S7P # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.416 _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 9S7P pdb_00009s7p 10.2210/pdb9s7p/pdb WWPDB D_1292147869 ? ? EMDB EMD-54646 ? ? # 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 _pdbx_audit_revision_history.part_number 1 'Structure model' 1 0 2026-08-26 ? 2 'EM metadata' 1 0 2026-08-26 ? # loop_ _pdbx_audit_revision_details.ordinal _pdbx_audit_revision_details.revision_ordinal _pdbx_audit_revision_details.data_content_type _pdbx_audit_revision_details.provider _pdbx_audit_revision_details.type _pdbx_audit_revision_details.description _pdbx_audit_revision_details.details 1 1 'Structure model' repository 'Initial release' ? ? 2 2 'EM metadata' repository 'Initial release' ? ? # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr ? _pdbx_database_status.entry_id 9S7P _pdbx_database_status.recvd_initial_deposition_date 2025-08-05 _pdbx_database_status.SG_entry N _pdbx_database_status.deposit_site PDBE _pdbx_database_status.process_site PDBE _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_database_related.db_name EMDB _pdbx_database_related.details 'Cryo-EM structure of amyloidogenic antimicrobial peptide Brevinin-1OKc polymorph 1 in PBS pH 6.5' _pdbx_database_related.db_id EMD-54646 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email meytal.landau@cssb-hamburg.de _pdbx_contact_author.name_first Meytal _pdbx_contact_author.name_last Landau _pdbx_contact_author.name_mi ? _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-1743-3430 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Ragonis-Bachar, P.' 1 ? 'Strati, F.' 2 ? 'Gustavsson, E.' 3 ? 'Khokhlov, A.' 4 ? 'Barnea, E.' 5 ? 'Rayan, B.' 6 ? 'Upchr, A.' 7 ? 'Landau, M.' 8 ? # _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 ? _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'To Be Published' _citation.journal_id_ASTM ? _citation.journal_id_CSD 0353 _citation.journal_id_ISSN ? _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Amyloidogenic Nature and Structural Polymorphism of Antimicrobial, Virulent and Defense Peptides' _citation.year ? _citation.database_id_CSD ? _citation.pdbx_database_id_DOI ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ragonis-Bachar, P.' 1 ? primary 'Strati, F.' 2 ? primary 'Gustavsson, E.' 3 ? primary 'Khokhlov, A.' 4 ? primary 'Barnea, E.' 5 ? primary 'Rayan, B.' 6 ? primary 'Upchr, A.' 7 ? primary 'Landau, M.' 8 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description Brevinin-1OKc _entity.formula_weight 1124.353 _entity.pdbx_number_of_molecules 18 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.details ? # _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 FFGSIIGALAK _entity_poly.pdbx_seq_one_letter_code_can FFGSIIGALAK _entity_poly.pdbx_strand_id G,H,I,J,K,L,A,B,C,D,E,F,M,N,O,P,Q,R _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 PHE n 1 2 PHE n 1 3 GLY n 1 4 SER n 1 5 ILE n 1 6 ILE n 1 7 GLY n 1 8 ALA n 1 9 LEU n 1 10 ALA n 1 11 LYS 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 'Nidirana okinavana' _pdbx_entity_src_syn.organism_common_name 'Kampira Falls frog' _pdbx_entity_src_syn.ncbi_taxonomy_id 156870 _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 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 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 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 # 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 1 1 PHE PHE G . n A 1 2 PHE 2 2 2 PHE PHE G . n A 1 3 GLY 3 3 3 GLY GLY G . n A 1 4 SER 4 4 4 SER SER G . n A 1 5 ILE 5 5 5 ILE ILE G . n A 1 6 ILE 6 6 6 ILE ILE G . n A 1 7 GLY 7 7 7 GLY GLY G . n A 1 8 ALA 8 8 8 ALA ALA G . n A 1 9 LEU 9 9 9 LEU LEU G . n A 1 10 ALA 10 10 10 ALA ALA G . n A 1 11 LYS 11 11 11 LYS LYS G . n B 1 1 PHE 1 1 1 PHE PHE H . n B 1 2 PHE 2 2 2 PHE PHE H . n B 1 3 GLY 3 3 3 GLY GLY H . n B 1 4 SER 4 4 4 SER SER H . n B 1 5 ILE 5 5 5 ILE ILE H . n B 1 6 ILE 6 6 6 ILE ILE H . n B 1 7 GLY 7 7 7 GLY GLY H . n B 1 8 ALA 8 8 8 ALA ALA H . n B 1 9 LEU 9 9 9 LEU LEU H . n B 1 10 ALA 10 10 10 ALA ALA H . n B 1 11 LYS 11 11 11 LYS LYS H . n C 1 1 PHE 1 1 1 PHE PHE I . n C 1 2 PHE 2 2 2 PHE PHE I . n C 1 3 GLY 3 3 3 GLY GLY I . n C 1 4 SER 4 4 4 SER SER I . n C 1 5 ILE 5 5 5 ILE ILE I . n C 1 6 ILE 6 6 6 ILE ILE I . n C 1 7 GLY 7 7 7 GLY GLY I . n C 1 8 ALA 8 8 8 ALA ALA I . n C 1 9 LEU 9 9 9 LEU LEU I . n C 1 10 ALA 10 10 10 ALA ALA I . n C 1 11 LYS 11 11 11 LYS LYS I . n D 1 1 PHE 1 1 1 PHE PHE J . n D 1 2 PHE 2 2 2 PHE PHE J . n D 1 3 GLY 3 3 3 GLY GLY J . n D 1 4 SER 4 4 4 SER SER J . n D 1 5 ILE 5 5 5 ILE ILE J . n D 1 6 ILE 6 6 6 ILE ILE J . n D 1 7 GLY 7 7 7 GLY GLY J . n D 1 8 ALA 8 8 8 ALA ALA J . n D 1 9 LEU 9 9 9 LEU LEU J . n D 1 10 ALA 10 10 10 ALA ALA J . n D 1 11 LYS 11 11 11 LYS LYS J . n E 1 1 PHE 1 1 1 PHE PHE K . n E 1 2 PHE 2 2 2 PHE PHE K . n E 1 3 GLY 3 3 3 GLY GLY K . n E 1 4 SER 4 4 4 SER SER K . n E 1 5 ILE 5 5 5 ILE ILE K . n E 1 6 ILE 6 6 6 ILE ILE K . n E 1 7 GLY 7 7 7 GLY GLY K . n E 1 8 ALA 8 8 8 ALA ALA K . n E 1 9 LEU 9 9 9 LEU LEU K . n E 1 10 ALA 10 10 10 ALA ALA K . n E 1 11 LYS 11 11 11 LYS LYS K . n F 1 1 PHE 1 1 1 PHE PHE L . n F 1 2 PHE 2 2 2 PHE PHE L . n F 1 3 GLY 3 3 3 GLY GLY L . n F 1 4 SER 4 4 4 SER SER L . n F 1 5 ILE 5 5 5 ILE ILE L . n F 1 6 ILE 6 6 6 ILE ILE L . n F 1 7 GLY 7 7 7 GLY GLY L . n F 1 8 ALA 8 8 8 ALA ALA L . n F 1 9 LEU 9 9 9 LEU LEU L . n F 1 10 ALA 10 10 10 ALA ALA L . n F 1 11 LYS 11 11 11 LYS LYS L . n G 1 1 PHE 1 1 1 PHE PHE A . n G 1 2 PHE 2 2 2 PHE PHE A . n G 1 3 GLY 3 3 3 GLY GLY A . n G 1 4 SER 4 4 4 SER SER A . n G 1 5 ILE 5 5 5 ILE ILE A . n G 1 6 ILE 6 6 6 ILE ILE A . n G 1 7 GLY 7 7 7 GLY GLY A . n G 1 8 ALA 8 8 8 ALA ALA A . n G 1 9 LEU 9 9 9 LEU LEU A . n G 1 10 ALA 10 10 10 ALA ALA A . n G 1 11 LYS 11 11 11 LYS LYS A . n H 1 1 PHE 1 1 1 PHE PHE B . n H 1 2 PHE 2 2 2 PHE PHE B . n H 1 3 GLY 3 3 3 GLY GLY B . n H 1 4 SER 4 4 4 SER SER B . n H 1 5 ILE 5 5 5 ILE ILE B . n H 1 6 ILE 6 6 6 ILE ILE B . n H 1 7 GLY 7 7 7 GLY GLY B . n H 1 8 ALA 8 8 8 ALA ALA B . n H 1 9 LEU 9 9 9 LEU LEU B . n H 1 10 ALA 10 10 10 ALA ALA B . n H 1 11 LYS 11 11 11 LYS LYS B . n I 1 1 PHE 1 1 1 PHE PHE C . n I 1 2 PHE 2 2 2 PHE PHE C . n I 1 3 GLY 3 3 3 GLY GLY C . n I 1 4 SER 4 4 4 SER SER C . n I 1 5 ILE 5 5 5 ILE ILE C . n I 1 6 ILE 6 6 6 ILE ILE C . n I 1 7 GLY 7 7 7 GLY GLY C . n I 1 8 ALA 8 8 8 ALA ALA C . n I 1 9 LEU 9 9 9 LEU LEU C . n I 1 10 ALA 10 10 10 ALA ALA C . n I 1 11 LYS 11 11 11 LYS LYS C . n J 1 1 PHE 1 1 1 PHE PHE D . n J 1 2 PHE 2 2 2 PHE PHE D . n J 1 3 GLY 3 3 3 GLY GLY D . n J 1 4 SER 4 4 4 SER SER D . n J 1 5 ILE 5 5 5 ILE ILE D . n J 1 6 ILE 6 6 6 ILE ILE D . n J 1 7 GLY 7 7 7 GLY GLY D . n J 1 8 ALA 8 8 8 ALA ALA D . n J 1 9 LEU 9 9 9 LEU LEU D . n J 1 10 ALA 10 10 10 ALA ALA D . n J 1 11 LYS 11 11 11 LYS LYS D . n K 1 1 PHE 1 1 1 PHE PHE E . n K 1 2 PHE 2 2 2 PHE PHE E . n K 1 3 GLY 3 3 3 GLY GLY E . n K 1 4 SER 4 4 4 SER SER E . n K 1 5 ILE 5 5 5 ILE ILE E . n K 1 6 ILE 6 6 6 ILE ILE E . n K 1 7 GLY 7 7 7 GLY GLY E . n K 1 8 ALA 8 8 8 ALA ALA E . n K 1 9 LEU 9 9 9 LEU LEU E . n K 1 10 ALA 10 10 10 ALA ALA E . n K 1 11 LYS 11 11 11 LYS LYS E . n L 1 1 PHE 1 1 1 PHE PHE F . n L 1 2 PHE 2 2 2 PHE PHE F . n L 1 3 GLY 3 3 3 GLY GLY F . n L 1 4 SER 4 4 4 SER SER F . n L 1 5 ILE 5 5 5 ILE ILE F . n L 1 6 ILE 6 6 6 ILE ILE F . n L 1 7 GLY 7 7 7 GLY GLY F . n L 1 8 ALA 8 8 8 ALA ALA F . n L 1 9 LEU 9 9 9 LEU LEU F . n L 1 10 ALA 10 10 10 ALA ALA F . n L 1 11 LYS 11 11 11 LYS LYS F . n M 1 1 PHE 1 1 1 PHE PHE M . n M 1 2 PHE 2 2 2 PHE PHE M . n M 1 3 GLY 3 3 3 GLY GLY M . n M 1 4 SER 4 4 4 SER SER M . n M 1 5 ILE 5 5 5 ILE ILE M . n M 1 6 ILE 6 6 6 ILE ILE M . n M 1 7 GLY 7 7 7 GLY GLY M . n M 1 8 ALA 8 8 8 ALA ALA M . n M 1 9 LEU 9 9 9 LEU LEU M . n M 1 10 ALA 10 10 10 ALA ALA M . n M 1 11 LYS 11 11 11 LYS LYS M . n N 1 1 PHE 1 1 1 PHE PHE N . n N 1 2 PHE 2 2 2 PHE PHE N . n N 1 3 GLY 3 3 3 GLY GLY N . n N 1 4 SER 4 4 4 SER SER N . n N 1 5 ILE 5 5 5 ILE ILE N . n N 1 6 ILE 6 6 6 ILE ILE N . n N 1 7 GLY 7 7 7 GLY GLY N . n N 1 8 ALA 8 8 8 ALA ALA N . n N 1 9 LEU 9 9 9 LEU LEU N . n N 1 10 ALA 10 10 10 ALA ALA N . n N 1 11 LYS 11 11 11 LYS LYS N . n O 1 1 PHE 1 1 1 PHE PHE O . n O 1 2 PHE 2 2 2 PHE PHE O . n O 1 3 GLY 3 3 3 GLY GLY O . n O 1 4 SER 4 4 4 SER SER O . n O 1 5 ILE 5 5 5 ILE ILE O . n O 1 6 ILE 6 6 6 ILE ILE O . n O 1 7 GLY 7 7 7 GLY GLY O . n O 1 8 ALA 8 8 8 ALA ALA O . n O 1 9 LEU 9 9 9 LEU LEU O . n O 1 10 ALA 10 10 10 ALA ALA O . n O 1 11 LYS 11 11 11 LYS LYS O . n P 1 1 PHE 1 1 1 PHE PHE P . n P 1 2 PHE 2 2 2 PHE PHE P . n P 1 3 GLY 3 3 3 GLY GLY P . n P 1 4 SER 4 4 4 SER SER P . n P 1 5 ILE 5 5 5 ILE ILE P . n P 1 6 ILE 6 6 6 ILE ILE P . n P 1 7 GLY 7 7 7 GLY GLY P . n P 1 8 ALA 8 8 8 ALA ALA P . n P 1 9 LEU 9 9 9 LEU LEU P . n P 1 10 ALA 10 10 10 ALA ALA P . n P 1 11 LYS 11 11 11 LYS LYS P . n Q 1 1 PHE 1 1 1 PHE PHE Q . n Q 1 2 PHE 2 2 2 PHE PHE Q . n Q 1 3 GLY 3 3 3 GLY GLY Q . n Q 1 4 SER 4 4 4 SER SER Q . n Q 1 5 ILE 5 5 5 ILE ILE Q . n Q 1 6 ILE 6 6 6 ILE ILE Q . n Q 1 7 GLY 7 7 7 GLY GLY Q . n Q 1 8 ALA 8 8 8 ALA ALA Q . n Q 1 9 LEU 9 9 9 LEU LEU Q . n Q 1 10 ALA 10 10 10 ALA ALA Q . n Q 1 11 LYS 11 11 11 LYS LYS Q . n R 1 1 PHE 1 1 1 PHE PHE R . n R 1 2 PHE 2 2 2 PHE PHE R . n R 1 3 GLY 3 3 3 GLY GLY R . n R 1 4 SER 4 4 4 SER SER R . n R 1 5 ILE 5 5 5 ILE ILE R . n R 1 6 ILE 6 6 6 ILE ILE R . n R 1 7 GLY 7 7 7 GLY GLY R . n R 1 8 ALA 8 8 8 ALA ALA R . n R 1 9 LEU 9 9 9 LEU LEU R . n R 1 10 ALA 10 10 10 ALA ALA R . n R 1 11 LYS 11 11 11 LYS LYS R . n # _cell.angle_alpha 90.00 _cell.angle_alpha_esd ? _cell.angle_beta 90.00 _cell.angle_beta_esd ? _cell.angle_gamma 90.00 _cell.angle_gamma_esd ? _cell.entry_id 9S7P _cell.details ? _cell.formula_units_Z ? _cell.length_a 1.00 _cell.length_a_esd ? _cell.length_b 1.00 _cell.length_b_esd ? _cell.length_c 1.00 _cell.length_c_esd ? _cell.volume ? _cell.volume_esd ? _cell.Z_PDB ? _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 ? _cell.pdbx_esd_method ? # _symmetry.entry_id 9S7P _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 9S7P _exptl.crystals_number ? _exptl.details ? _exptl.method 'ELECTRON MICROSCOPY' _exptl.method_details ? # _refine.aniso_B[1][1] ? _refine.aniso_B[1][2] ? _refine.aniso_B[1][3] ? _refine.aniso_B[2][2] ? _refine.aniso_B[2][3] ? _refine.aniso_B[3][3] ? _refine.B_iso_max ? _refine.B_iso_mean 57.722 _refine.B_iso_min ? _refine.correlation_coeff_Fo_to_Fc 0.757 _refine.correlation_coeff_Fo_to_Fc_free ? _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.diff_density_max ? _refine.diff_density_max_esd ? _refine.diff_density_min ? _refine.diff_density_min_esd ? _refine.diff_density_rms ? _refine.diff_density_rms_esd ? _refine.entry_id 9S7P _refine.pdbx_refine_id 'ELECTRON MICROSCOPY' _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 2.17 _refine.ls_d_res_low 2.17 _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 42654 _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs 100.00 _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.42971 _refine.ls_R_factor_R_free ? _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_R_factor_R_work 0.42971 _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 'PARAMETERS FOR MASK CACLULATION' _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.correlation_coeff_I_to_Fcsqd_work ? _refine.correlation_coeff_I_to_Fcsqd_free ? _refine.pdbx_R_complete ? _refine.ls_R_factor_gt ? _refine.ls_goodness_of_fit_gt ? _refine.ls_goodness_of_fit_ref ? _refine.ls_shift_over_su_max ? _refine.ls_shift_over_su_max_lt ? _refine.ls_shift_over_su_mean ? _refine.ls_shift_over_su_mean_lt ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_ls_sigma_Fsqd ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_ls_cross_valid_method ? _refine.pdbx_method_to_determine_struct ? _refine.pdbx_starting_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD WITH PHASES' _refine.pdbx_R_Free_selection_details ? _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_overall_ESU_R 0.194 _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 ? _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 ? _refine.overall_SU_B 6.198 _refine.overall_SU_ML 0.137 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_average_fsc_overall ? _refine.pdbx_average_fsc_work ? _refine.pdbx_average_fsc_free ? # _refine_hist.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_hist.cycle_id 1 _refine_hist.details ? _refine_hist.d_res_high . _refine_hist.d_res_low . _refine_hist.number_atoms_solvent ? _refine_hist.number_atoms_total 1422 _refine_hist.number_reflns_all ? _refine_hist.number_reflns_obs ? _refine_hist.number_reflns_R_free ? _refine_hist.number_reflns_R_work ? _refine_hist.R_factor_all ? _refine_hist.R_factor_obs ? _refine_hist.R_factor_R_free ? _refine_hist.R_factor_R_work ? _refine_hist.pdbx_number_residues_total ? _refine_hist.pdbx_B_iso_mean_ligand ? _refine_hist.pdbx_B_iso_mean_solvent ? _refine_hist.pdbx_number_atoms_protein ? _refine_hist.pdbx_number_atoms_nucleic_acid ? _refine_hist.pdbx_number_atoms_ligand ? _refine_hist.pdbx_number_atoms_lipid ? _refine_hist.pdbx_number_atoms_carb ? _refine_hist.pdbx_pseudo_atom_details ? # loop_ _refine_ls_restr.pdbx_refine_id _refine_ls_restr.criterion _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.number _refine_ls_restr.rejects _refine_ls_restr.type _refine_ls_restr.weight _refine_ls_restr.pdbx_Zscore _refine_ls_restr.pdbx_restraint_function 'ELECTRON MICROSCOPY' ? 0.007 0.012 1440 ? r_bond_refined_d ? ? ? 'ELECTRON MICROSCOPY' ? 0.000 0.015 1548 ? r_bond_other_d ? ? ? 'ELECTRON MICROSCOPY' ? 1.242 1.714 1890 ? r_angle_refined_deg ? ? ? 'ELECTRON MICROSCOPY' ? 0.471 1.717 3528 ? r_angle_other_deg ? ? ? 'ELECTRON MICROSCOPY' ? 6.111 5.000 180 ? r_dihedral_angle_1_deg ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_dihedral_angle_2_deg ? ? ? 'ELECTRON MICROSCOPY' ? 5.746 10.000 234 ? r_dihedral_angle_3_deg ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_dihedral_angle_4_deg ? ? ? 'ELECTRON MICROSCOPY' ? 0.052 0.200 216 ? r_chiral_restr ? ? ? 'ELECTRON MICROSCOPY' ? 0.008 0.020 1512 ? r_gen_planes_refined ? ? ? 'ELECTRON MICROSCOPY' ? 0.001 0.020 360 ? r_gen_planes_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbd_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbd_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbtor_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_nbtor_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_xyhbond_nbd_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_xyhbond_nbd_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_metal_ion_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_metal_ion_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_vdw_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_vdw_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_hbond_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_hbond_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_metal_ion_refined ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_symmetry_metal_ion_other ? ? ? 'ELECTRON MICROSCOPY' ? 5.071 5.476 774 ? r_mcbond_it ? ? ? 'ELECTRON MICROSCOPY' ? 5.071 5.476 774 ? r_mcbond_other ? ? ? 'ELECTRON MICROSCOPY' ? 8.888 9.665 936 ? r_mcangle_it ? ? ? 'ELECTRON MICROSCOPY' ? 8.883 9.676 937 ? r_mcangle_other ? ? ? 'ELECTRON MICROSCOPY' ? 3.620 5.279 666 ? r_scbond_it ? ? ? 'ELECTRON MICROSCOPY' ? 3.617 5.295 667 ? r_scbond_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_scangle_it ? ? ? 'ELECTRON MICROSCOPY' ? 6.580 9.567 955 ? r_scangle_other ? ? ? 'ELECTRON MICROSCOPY' ? 15.492 54.66 3706 ? r_long_range_B_refined ? ? ? 'ELECTRON MICROSCOPY' ? 15.492 54.63 3704 ? r_long_range_B_other ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_rigid_bond_restr ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_sphericity_free ? ? ? 'ELECTRON MICROSCOPY' ? ? ? ? ? r_sphericity_bonded ? ? ? # _refine_ls_shell.pdbx_refine_id 'ELECTRON MICROSCOPY' _refine_ls_shell.d_res_high 2.300 _refine_ls_shell.d_res_low 2.360 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.number_reflns_R_free 0 _refine_ls_shell.number_reflns_R_work 3078 _refine_ls_shell.percent_reflns_obs 100.00 _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_error ? _refine_ls_shell.R_factor_R_work 0.608 _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_R_complete ? _refine_ls_shell.correlation_coeff_Fo_to_Fc ? _refine_ls_shell.correlation_coeff_Fo_to_Fc_free ? _refine_ls_shell.correlation_coeff_I_to_Fcsqd_work ? _refine_ls_shell.correlation_coeff_I_to_Fcsqd_free ? _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.pdbx_phase_error ? _refine_ls_shell.pdbx_fsc_work ? _refine_ls_shell.pdbx_fsc_free ? _refine_ls_shell.R_factor_R_free 0.000 # _struct.entry_id 9S7P _struct.title 'Cryo-EM structure of amyloidogenic antimicrobial peptide Brevinin-1OKc polymorph 1 in PBS pH 6.5' _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 9S7P _struct_keywords.text 'Amyloid, Antimicrobial, ANTIMICROBIAL PROTEIN' _struct_keywords.pdbx_keywords 'ANTIMICROBIAL PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 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 1 ? L N N 1 ? M N N 1 ? N N N 1 ? O N N 1 ? P N N 1 ? Q N N 1 ? R N N 1 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code BR1C_NIDOK _struct_ref.pdbx_db_accession C0HL10 _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code FFGSIIGALAK _struct_ref.pdbx_align_begin 1 # 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 9S7P G 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 2 1 9S7P H 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 3 1 9S7P I 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 4 1 9S7P J 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 5 1 9S7P K 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 6 1 9S7P L 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 7 1 9S7P A 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 8 1 9S7P B 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 9 1 9S7P C 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 10 1 9S7P D 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 11 1 9S7P E 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 12 1 9S7P F 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 13 1 9S7P M 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 14 1 9S7P N 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 15 1 9S7P O 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 16 1 9S7P P 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 17 1 9S7P Q 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 18 1 9S7P R 1 ? 11 ? C0HL10 1 ? 11 ? 1 11 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details 18-meric _pdbx_struct_assembly.oligomeric_count 18 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _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 # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'electron microscopy' _pdbx_struct_assembly_auth_evidence.details 'not applicable' # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0 _pdbx_struct_oper_list.matrix[1][2] 0.0 _pdbx_struct_oper_list.matrix[1][3] 0.0 _pdbx_struct_oper_list.vector[1] 0.0 _pdbx_struct_oper_list.matrix[2][1] 0.0 _pdbx_struct_oper_list.matrix[2][2] 1.0 _pdbx_struct_oper_list.matrix[2][3] 0.0 _pdbx_struct_oper_list.vector[2] 0.0 _pdbx_struct_oper_list.matrix[3][1] 0.0 _pdbx_struct_oper_list.matrix[3][2] 0.0 _pdbx_struct_oper_list.matrix[3][3] 1.0 _pdbx_struct_oper_list.vector[3] 0.0 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 3 ? AA2 ? 3 ? AA3 ? 3 ? AA4 ? 3 ? AA5 ? 3 ? AA6 ? 3 ? # 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 ? parallel AA1 2 3 ? parallel AA2 1 2 ? parallel AA2 2 3 ? parallel AA3 1 2 ? parallel AA3 2 3 ? parallel AA4 1 2 ? parallel AA4 2 3 ? parallel AA5 1 2 ? parallel AA5 2 3 ? parallel AA6 1 2 ? parallel AA6 2 3 ? 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 ILE G 5 ? ILE G 6 ? ILE A 5 ILE A 6 AA1 2 ILE A 5 ? ILE A 6 ? ILE G 5 ILE G 6 AA1 3 ILE M 5 ? ILE M 6 ? ILE M 5 ILE M 6 AA2 1 ILE H 5 ? ILE H 6 ? ILE B 5 ILE B 6 AA2 2 ILE B 5 ? ILE B 6 ? ILE H 5 ILE H 6 AA2 3 ILE N 5 ? ILE N 6 ? ILE N 5 ILE N 6 AA3 1 ILE I 5 ? ILE I 6 ? ILE C 5 ILE C 6 AA3 2 ILE C 5 ? ILE C 6 ? ILE I 5 ILE I 6 AA3 3 ILE O 5 ? ILE O 6 ? ILE O 5 ILE O 6 AA4 1 ILE J 5 ? ILE J 6 ? ILE D 5 ILE D 6 AA4 2 ILE D 5 ? ILE D 6 ? ILE J 5 ILE J 6 AA4 3 ILE P 5 ? ILE P 6 ? ILE P 5 ILE P 6 AA5 1 ILE K 5 ? ILE K 6 ? ILE E 5 ILE E 6 AA5 2 ILE E 5 ? ILE E 6 ? ILE K 5 ILE K 6 AA5 3 ILE Q 5 ? ILE Q 6 ? ILE Q 5 ILE Q 6 AA6 1 ILE L 5 ? ILE L 6 ? ILE F 5 ILE F 6 AA6 2 ILE F 5 ? ILE F 6 ? ILE L 5 ILE L 6 AA6 3 ILE R 5 ? ILE R 6 ? ILE R 5 ILE R 6 # 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 O ILE G 5 ? O ILE A 5 N ILE A 6 ? N ILE G 6 AA1 2 3 N ILE A 5 ? N ILE G 5 O ILE M 6 ? O ILE M 6 AA2 1 2 O ILE H 5 ? O ILE B 5 N ILE B 6 ? N ILE H 6 AA2 2 3 N ILE B 5 ? N ILE H 5 O ILE N 6 ? O ILE N 6 AA3 1 2 O ILE I 5 ? O ILE C 5 N ILE C 6 ? N ILE I 6 AA3 2 3 N ILE C 5 ? N ILE I 5 O ILE O 6 ? O ILE O 6 AA4 1 2 O ILE J 5 ? O ILE D 5 N ILE D 6 ? N ILE J 6 AA4 2 3 N ILE D 5 ? N ILE J 5 O ILE P 6 ? O ILE P 6 AA5 1 2 O ILE K 5 ? O ILE E 5 N ILE E 6 ? N ILE K 6 AA5 2 3 N ILE E 5 ? N ILE K 5 O ILE Q 6 ? O ILE Q 6 AA6 1 2 O ILE L 5 ? O ILE F 5 N ILE F 6 ? N ILE L 6 AA6 2 3 N ILE F 5 ? N ILE L 5 O ILE R 6 ? O ILE R 6 # _pdbx_entry_details.entry_id 9S7P _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.has_ligand_of_interest ? _pdbx_entry_details.has_protein_modification N # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 9S7P _em_3d_fitting.method ? _em_3d_fitting.target_criteria ? _em_3d_fitting.details ? _em_3d_fitting.overall_b_value ? _em_3d_fitting.ref_space ? _em_3d_fitting.ref_protocol 'FLEXIBLE FIT' # _em_3d_fitting_list.id 1 _em_3d_fitting_list.3d_fitting_id 1 _em_3d_fitting_list.pdb_entry_id . _em_3d_fitting_list.pdb_chain_id . _em_3d_fitting_list.pdb_chain_residue_range . _em_3d_fitting_list.details 'De novo generated in Coot' _em_3d_fitting_list.chain_id ? _em_3d_fitting_list.chain_residue_range ? _em_3d_fitting_list.source_name Other _em_3d_fitting_list.type other _em_3d_fitting_list.accession_code ? _em_3d_fitting_list.initial_refinement_model_id ? # _em_3d_reconstruction.entry_id 9S7P _em_3d_reconstruction.id 1 _em_3d_reconstruction.method ? _em_3d_reconstruction.algorithm ? _em_3d_reconstruction.citation_id ? _em_3d_reconstruction.details ? _em_3d_reconstruction.resolution 2.17 _em_3d_reconstruction.resolution_method 'FSC 0.143 CUT-OFF' _em_3d_reconstruction.magnification_calibration ? _em_3d_reconstruction.nominal_pixel_size ? _em_3d_reconstruction.actual_pixel_size ? _em_3d_reconstruction.num_particles 498395 _em_3d_reconstruction.euler_angles_details ? _em_3d_reconstruction.num_class_averages ? _em_3d_reconstruction.refinement_type ? _em_3d_reconstruction.image_processing_id 1 _em_3d_reconstruction.symmetry_type HELICAL # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details '1xPBS pH 6.5 from Sigma Aldrich' _em_buffer.pH 6.5 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source NATURAL _em_entity_assembly.type COMPLEX _em_entity_assembly.name Brevinin-1OKc _em_entity_assembly.details ? _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1 # _em_imaging.entry_id 9S7P _em_imaging.id 1 _em_imaging.astigmatism ? _em_imaging.electron_beam_tilt_params ? _em_imaging.residual_tilt ? _em_imaging.microscope_model 'TFS KRIOS' _em_imaging.specimen_holder_type ? _em_imaging.specimen_holder_model 'FEI TITAN KRIOS AUTOGRID HOLDER' _em_imaging.details ? _em_imaging.date ? _em_imaging.accelerating_voltage 300 _em_imaging.illumination_mode 'FLOOD BEAM' _em_imaging.mode 'BRIGHT FIELD' _em_imaging.nominal_cs ? _em_imaging.nominal_defocus_min 500 _em_imaging.nominal_defocus_max 2000 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification ? _em_imaging.calibrated_magnification ? _em_imaging.electron_source 'FIELD EMISSION GUN' _em_imaging.citation_id ? _em_imaging.temperature ? _em_imaging.detector_distance ? _em_imaging.recording_temperature_minimum ? _em_imaging.recording_temperature_maximum ? _em_imaging.alignment_procedure ? _em_imaging.c2_aperture_diameter ? _em_imaging.specimen_id 1 _em_imaging.cryogen NITROGEN _em_imaging.objective_aperture ? _em_imaging.microscope_serial_number ? _em_imaging.microscope_version ? # _em_vitrification.entry_id 9S7P _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE-PROPANE _em_vitrification.humidity 95 _em_vitrification.temp ? _em_vitrification.chamber_temperature 298 _em_vitrification.instrument 'FEI VITROBOT MARK IV' _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 9S7P _em_experiment.id 1 _em_experiment.reconstruction_method HELICAL _em_experiment.aggregation_state FILAMENT _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 GLY N N N N 14 GLY CA C N N 15 GLY C C N N 16 GLY O O N N 17 GLY OXT O N N 18 GLY H H N N 19 GLY H2 H N N 20 GLY HA2 H N N 21 GLY HA3 H N N 22 GLY HXT H N N 23 ILE N N N N 24 ILE CA C N S 25 ILE C C N N 26 ILE O O N N 27 ILE CB C N S 28 ILE CG1 C N N 29 ILE CG2 C N N 30 ILE CD1 C N N 31 ILE OXT O N N 32 ILE H H N N 33 ILE H2 H N N 34 ILE HA H N N 35 ILE HB H N N 36 ILE HG12 H N N 37 ILE HG13 H N N 38 ILE HG21 H N N 39 ILE HG22 H N N 40 ILE HG23 H N N 41 ILE HD11 H N N 42 ILE HD12 H N N 43 ILE HD13 H N N 44 ILE HXT H N N 45 LEU N N N N 46 LEU CA C N S 47 LEU C C N N 48 LEU O O N N 49 LEU CB C N N 50 LEU CG C N N 51 LEU CD1 C N N 52 LEU CD2 C N N 53 LEU OXT O N N 54 LEU H H N N 55 LEU H2 H N N 56 LEU HA H N N 57 LEU HB2 H N N 58 LEU HB3 H N N 59 LEU HG H N N 60 LEU HD11 H N N 61 LEU HD12 H N N 62 LEU HD13 H N N 63 LEU HD21 H N N 64 LEU HD22 H N N 65 LEU HD23 H N N 66 LEU HXT H N N 67 LYS N N N N 68 LYS CA C N S 69 LYS C C N N 70 LYS O O N N 71 LYS CB C N N 72 LYS CG C N N 73 LYS CD C N N 74 LYS CE C N N 75 LYS NZ N N N 76 LYS OXT O N N 77 LYS H H N N 78 LYS H2 H N N 79 LYS HA H N N 80 LYS HB2 H N N 81 LYS HB3 H N N 82 LYS HG2 H N N 83 LYS HG3 H N N 84 LYS HD2 H N N 85 LYS HD3 H N N 86 LYS HE2 H N N 87 LYS HE3 H N N 88 LYS HZ1 H N N 89 LYS HZ2 H N N 90 LYS HZ3 H N N 91 LYS HXT H N N 92 PHE N N N N 93 PHE CA C N S 94 PHE C C N N 95 PHE O O N N 96 PHE CB C N N 97 PHE CG C Y N 98 PHE CD1 C Y N 99 PHE CD2 C Y N 100 PHE CE1 C Y N 101 PHE CE2 C Y N 102 PHE CZ C Y N 103 PHE OXT O N N 104 PHE H H N N 105 PHE H2 H N N 106 PHE HA H N N 107 PHE HB2 H N N 108 PHE HB3 H N N 109 PHE HD1 H N N 110 PHE HD2 H N N 111 PHE HE1 H N N 112 PHE HE2 H N N 113 PHE HZ H N N 114 PHE HXT H N N 115 SER N N N N 116 SER CA C N S 117 SER C C N N 118 SER O O N N 119 SER CB C N N 120 SER OG O N N 121 SER OXT O N N 122 SER H H N N 123 SER H2 H N N 124 SER HA H N N 125 SER HB2 H N N 126 SER HB3 H N N 127 SER HG H N N 128 SER HXT H N N 129 # 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 GLY N CA sing N N 13 GLY N H sing N N 14 GLY N H2 sing N N 15 GLY CA C sing N N 16 GLY CA HA2 sing N N 17 GLY CA HA3 sing N N 18 GLY C O doub N N 19 GLY C OXT sing N N 20 GLY OXT HXT sing N N 21 ILE N CA sing N N 22 ILE N H sing N N 23 ILE N H2 sing N N 24 ILE CA C sing N N 25 ILE CA CB sing N N 26 ILE CA HA sing N N 27 ILE C O doub N N 28 ILE C OXT sing N N 29 ILE CB CG1 sing N N 30 ILE CB CG2 sing N N 31 ILE CB HB sing N N 32 ILE CG1 CD1 sing N N 33 ILE CG1 HG12 sing N N 34 ILE CG1 HG13 sing N N 35 ILE CG2 HG21 sing N N 36 ILE CG2 HG22 sing N N 37 ILE CG2 HG23 sing N N 38 ILE CD1 HD11 sing N N 39 ILE CD1 HD12 sing N N 40 ILE CD1 HD13 sing N N 41 ILE OXT HXT sing N N 42 LEU N CA sing N N 43 LEU N H sing N N 44 LEU N H2 sing N N 45 LEU CA C sing N N 46 LEU CA CB sing N N 47 LEU CA HA sing N N 48 LEU C O doub N N 49 LEU C OXT sing N N 50 LEU CB CG sing N N 51 LEU CB HB2 sing N N 52 LEU CB HB3 sing N N 53 LEU CG CD1 sing N N 54 LEU CG CD2 sing N N 55 LEU CG HG sing N N 56 LEU CD1 HD11 sing N N 57 LEU CD1 HD12 sing N N 58 LEU CD1 HD13 sing N N 59 LEU CD2 HD21 sing N N 60 LEU CD2 HD22 sing N N 61 LEU CD2 HD23 sing N N 62 LEU OXT HXT sing N N 63 LYS N CA sing N N 64 LYS N H sing N N 65 LYS N H2 sing N N 66 LYS CA C sing N N 67 LYS CA CB sing N N 68 LYS CA HA sing N N 69 LYS C O doub N N 70 LYS C OXT sing N N 71 LYS CB CG sing N N 72 LYS CB HB2 sing N N 73 LYS CB HB3 sing N N 74 LYS CG CD sing N N 75 LYS CG HG2 sing N N 76 LYS CG HG3 sing N N 77 LYS CD CE sing N N 78 LYS CD HD2 sing N N 79 LYS CD HD3 sing N N 80 LYS CE NZ sing N N 81 LYS CE HE2 sing N N 82 LYS CE HE3 sing N N 83 LYS NZ HZ1 sing N N 84 LYS NZ HZ2 sing N N 85 LYS NZ HZ3 sing N N 86 LYS OXT HXT sing N N 87 PHE N CA sing N N 88 PHE N H sing N N 89 PHE N H2 sing N N 90 PHE CA C sing N N 91 PHE CA CB sing N N 92 PHE CA HA sing N N 93 PHE C O doub N N 94 PHE C OXT sing N N 95 PHE CB CG sing N N 96 PHE CB HB2 sing N N 97 PHE CB HB3 sing N N 98 PHE CG CD1 doub Y N 99 PHE CG CD2 sing Y N 100 PHE CD1 CE1 sing Y N 101 PHE CD1 HD1 sing N N 102 PHE CD2 CE2 doub Y N 103 PHE CD2 HD2 sing N N 104 PHE CE1 CZ doub Y N 105 PHE CE1 HE1 sing N N 106 PHE CE2 CZ sing Y N 107 PHE CE2 HE2 sing N N 108 PHE CZ HZ sing N N 109 PHE OXT HXT sing N N 110 SER N CA sing N N 111 SER N H sing N N 112 SER N H2 sing N N 113 SER CA C sing N N 114 SER CA CB sing N N 115 SER CA HA sing N N 116 SER C O doub N N 117 SER C OXT sing N N 118 SER CB OG sing N N 119 SER CB HB2 sing N N 120 SER CB HB3 sing N N 121 SER OG HG sing N N 122 SER OXT HXT sing N N 123 # _em_admin.current_status REL _em_admin.deposition_date 2025-08-05 _em_admin.deposition_site PDBE _em_admin.entry_id 9S7P _em_admin.last_update 2026-08-26 _em_admin.map_release_date 2026-08-26 _em_admin.title 'Cryo-EM structure of amyloidogenic antimicrobial peptide Brevinin-1OKc polymorph 1 in PBS pH 6.5' # _em_ctf_correction.details ? _em_ctf_correction.em_image_processing_id 1 _em_ctf_correction.id 1 _em_ctf_correction.type 'PHASE FLIPPING AND AMPLITUDE CORRECTION' # _em_entity_assembly_molwt.entity_assembly_id 1 _em_entity_assembly_molwt.experimental_flag NO _em_entity_assembly_molwt.id 1 _em_entity_assembly_molwt.units ? _em_entity_assembly_molwt.value ? # _em_entity_assembly_naturalsource.cell ? _em_entity_assembly_naturalsource.cellular_location ? _em_entity_assembly_naturalsource.entity_assembly_id 1 _em_entity_assembly_naturalsource.id 2 _em_entity_assembly_naturalsource.ncbi_tax_id 156870 _em_entity_assembly_naturalsource.organism 'Nidirana okinavana' _em_entity_assembly_naturalsource.organelle ? _em_entity_assembly_naturalsource.organ ? _em_entity_assembly_naturalsource.strain ? _em_entity_assembly_naturalsource.tissue ? _em_entity_assembly_naturalsource.details ? # _em_helical_entity.id 1 _em_helical_entity.image_processing_id 1 _em_helical_entity.details ? _em_helical_entity.axial_symmetry C2 _em_helical_entity.angular_rotation_per_subunit 59.49 _em_helical_entity.axial_rise_per_subunit 1.6 # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time ? _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 50 _em_image_recording.details ? _em_image_recording.detector_mode ? _em_image_recording.film_or_detector_model 'GATAN K3 BIOQUANTUM (6k x 4k)' _em_image_recording.id 1 _em_image_recording.imaging_id 1 _em_image_recording.num_diffraction_images ? _em_image_recording.num_grids_imaged ? _em_image_recording.num_real_images ? # _em_particle_selection.details ? _em_particle_selection.id 1 _em_particle_selection.image_processing_id 1 _em_particle_selection.method ? _em_particle_selection.num_particles_selected 1523940 _em_particle_selection.reference_model ? # loop_ _em_software.category _em_software.details _em_software.id _em_software.image_processing_id _em_software.fitting_id _em_software.imaging_id _em_software.name _em_software.version _em_software.reference_DOI 'PARTICLE SELECTION' ? 1 1 ? ? Topaz ? ? 'IMAGE ACQUISITION' ? 2 ? ? 1 EPU ? ? MASKING ? 3 ? ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? CTFFIND 4.1 ? 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? Coot 0.9.8.92 ? OTHER ? 8 ? ? ? ? ? ? 'MODEL REFINEMENT' ? 9 ? 1 ? Servalcat ? ? 'INITIAL EULER ASSIGNMENT' ? 10 1 ? ? RELION 5 ? 'FINAL EULER ASSIGNMENT' ? 11 1 ? ? RELION 5 ? CLASSIFICATION ? 12 1 ? ? RELION 5 ? RECONSTRUCTION ? 13 1 ? ? RELION 5 ? # _em_specimen.concentration ? _em_specimen.details 'This sample was fibrillated in PBS pH 6.5' _em_specimen.embedding_applied NO _em_specimen.experiment_id 1 _em_specimen.id 1 _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 'European Research Council (ERC)' 'European Union' 101087140 1 'Israel Science Foundation' Israel 2111/20 2 'Volkswagen Foundation' Germany '76251-4659/2022 (ZN 4042)' 3 'German Research Foundation (DFG)' Germany 152/772-1 4 'German Research Foundation (DFG)' Germany 152/774-1 5 'German Research Foundation (DFG)' Germany 152/775-1 6 'German Research Foundation (DFG)' Germany 152/776-1 7 'German Research Foundation (DFG)' Germany '152/777-1 FUGG' 8 # _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type other _pdbx_initial_refinement_model.source_name Other _pdbx_initial_refinement_model.accession_code ? _pdbx_initial_refinement_model.details ? # _atom_sites.entry_id 9S7P _atom_sites.Cartn_transf_matrix[1][1] ? _atom_sites.Cartn_transf_matrix[1][2] ? _atom_sites.Cartn_transf_matrix[1][3] ? _atom_sites.Cartn_transf_matrix[2][1] ? _atom_sites.Cartn_transf_matrix[2][2] ? _atom_sites.Cartn_transf_matrix[2][3] ? _atom_sites.Cartn_transf_matrix[3][1] ? _atom_sites.Cartn_transf_matrix[3][2] ? _atom_sites.Cartn_transf_matrix[3][3] ? _atom_sites.Cartn_transf_vector[1] ? _atom_sites.Cartn_transf_vector[2] ? _atom_sites.Cartn_transf_vector[3] ? _atom_sites.Cartn_transform_axes ? _atom_sites.fract_transf_matrix[1][1] 1.000000 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 1.000000 _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] 1.000000 _atom_sites.fract_transf_vector[1] 0.00000 _atom_sites.fract_transf_vector[2] 0.00000 _atom_sites.fract_transf_vector[3] 0.00000 _atom_sites.solution_primary ? _atom_sites.solution_secondary ? _atom_sites.solution_hydrogens ? _atom_sites.special_details ? # loop_ _atom_type.symbol C N O # loop_ #