data_8S2B # _entry.id 8S2B # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.409 _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 8S2B pdb_00008s2b 10.2210/pdb8s2b/pdb WWPDB D_1292134364 ? ? BMRB 34902 ? 10.13018/BMR34902 # 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 2025-02-26 ? 2 'Structure model' 1 1 2026-01-14 ? # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # _pdbx_audit_revision_group.ordinal 1 _pdbx_audit_revision_group.revision_ordinal 2 _pdbx_audit_revision_group.data_content_type 'Structure model' _pdbx_audit_revision_group.group 'Database references' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 2 'Structure model' citation 2 2 'Structure model' citation_author # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 2 'Structure model' '_citation.country' 2 2 'Structure model' '_citation.journal_abbrev' 3 2 'Structure model' '_citation.journal_id_CSD' 4 2 'Structure model' '_citation.journal_id_ISSN' 5 2 'Structure model' '_citation.page_first' 6 2 'Structure model' '_citation.page_last' 7 2 'Structure model' '_citation.pdbx_database_id_DOI' 8 2 'Structure model' '_citation.pdbx_database_id_PubMed' 9 2 'Structure model' '_citation.title' 10 2 'Structure model' '_citation.year' # _pdbx_database_status.status_code REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_mr . _pdbx_database_status.entry_id 8S2B _pdbx_database_status.recvd_initial_deposition_date 2024-02-16 _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 REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y # _pdbx_database_related.db_name BMRB _pdbx_database_related.details 'NMR structure of xantholysin A in micellar DPC solution' _pdbx_database_related.db_id 34902 _pdbx_database_related.content_type unspecified # _pdbx_contact_author.id 2 _pdbx_contact_author.email Jose.martins@ugent.be _pdbx_contact_author.name_first Jose _pdbx_contact_author.name_last Martins _pdbx_contact_author.name_mi C _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0001-7350-2253 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kovacs, B.' 1 0000-0003-2715-5793 'Geudens, N.' 2 0000-0003-0459-7142 'Martins, J.C.' 3 0000-0001-7350-2253 # _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 DE _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev 'Adv Sci' _citation.journal_id_ASTM ? _citation.journal_id_CSD ? _citation.journal_id_ISSN 2198-3844 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first e20365 _citation.page_last e20365 _citation.title 'Higher-Level Structural Classification of Pseudomonas Cyclic Lipopeptides through Their Bioactive Conformation.' _citation.year 2025 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/advs.202520365 _citation.pdbx_database_id_PubMed 41391051 _citation.pdbx_database_id_patent ? _citation.unpublished_flag ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Kovacs, B.' 1 0000-0003-2715-5793 primary 'Prasad, D.' 2 0000-0002-0266-3401 primary 'De Roo, V.' 3 0000-0002-3418-3285 primary 'Vanheede, M.' 4 0000-0002-6189-2618 primary 'Muangkaew, P.' 5 ? primary 'Madder, A.' 6 0000-0003-0179-7608 primary 'Hofte, M.' 7 0000-0002-0850-3249 primary 'De Mot, R.' 8 0000-0002-0030-9441 primary 'Geudens, N.' 9 0000-0003-0459-7142 primary 'Martins, J.C.' 10 0000-0001-7350-2253 # 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 nat 'Putisolvin I' 1300.542 1 ? ? ? ;1) The polypeptide chain of putisolvin I consists of 12 amino acids. 2) The N-terminal amino acid (Leu) is acylated with a hexanoic acid moeity which is indicated as the first residue. 3) The depsi (ester) bond is established between the SER13 carboxyl and DSN10 side-chain OH group. ; 2 non-polymer syn 'HEXANOIC ACID' 116.158 1 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type 'polypeptide(D)' _entity_poly.nstd_linkage no _entity_poly.nstd_monomer yes _entity_poly.pdbx_seq_one_letter_code 'L(DGL)(DLE)L(DGN)(DSN)(DVA)(DLE)(DSN)LVS' _entity_poly.pdbx_seq_one_letter_code_can LELLQSVLSLVS _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name 'HEXANOIC ACID' _pdbx_entity_nonpoly.comp_id 6NA # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 LEU n 1 2 DGL n 1 3 DLE n 1 4 LEU n 1 5 DGN n 1 6 DSN n 1 7 DVA n 1 8 DLE n 1 9 DSN n 1 10 LEU n 1 11 VAL n 1 12 SER n # _entity_src_nat.entity_id 1 _entity_src_nat.pdbx_src_id 1 _entity_src_nat.pdbx_alt_source_flag sample _entity_src_nat.pdbx_beg_seq_num 1 _entity_src_nat.pdbx_end_seq_num 12 _entity_src_nat.common_name ? _entity_src_nat.pdbx_organism_scientific 'Pseudomonas putida' _entity_src_nat.pdbx_ncbi_taxonomy_id 303 _entity_src_nat.genus ? _entity_src_nat.species ? _entity_src_nat.strain PCL1445 _entity_src_nat.tissue ? _entity_src_nat.tissue_fraction ? _entity_src_nat.pdbx_secretion ? _entity_src_nat.pdbx_fragment ? _entity_src_nat.pdbx_variant ? _entity_src_nat.pdbx_cell_line ? _entity_src_nat.pdbx_atcc ? _entity_src_nat.pdbx_cellular_location ? _entity_src_nat.pdbx_organ ? _entity_src_nat.pdbx_organelle ? _entity_src_nat.pdbx_cell ? _entity_src_nat.pdbx_plasmid_name ? _entity_src_nat.pdbx_plasmid_details ? _entity_src_nat.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 6NA non-polymer . 'HEXANOIC ACID' ? 'C6 H12 O2' 116.158 DGL 'D-peptide linking' . 'D-GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 DGN 'D-peptide linking' . D-GLUTAMINE ? 'C5 H10 N2 O3' 146.144 DLE 'D-peptide linking' . D-LEUCINE ? 'C6 H13 N O2' 131.173 DSN 'D-peptide linking' . D-SERINE ? 'C3 H7 N O3' 105.093 DVA 'D-peptide linking' . D-VALINE ? 'C5 H11 N O2' 117.146 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 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 LEU 1 2 2 LEU LEU A . n A 1 2 DGL 2 3 3 DGL DGL A . n A 1 3 DLE 3 4 4 DLE DLE A . n A 1 4 LEU 4 5 5 LEU LEU A . n A 1 5 DGN 5 6 6 DGN DGN A . n A 1 6 DSN 6 7 7 DSN DSN A . n A 1 7 DVA 7 8 8 DVA DVA A . n A 1 8 DLE 8 9 9 DLE DLE A . n A 1 9 DSN 9 10 10 DSN DSN A . n A 1 10 LEU 10 11 11 LEU LEU A . n A 1 11 VAL 11 12 12 VAL VAL A . n A 1 12 SER 12 13 13 SER SER A . n # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id 6NA _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 101 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id 6NA _pdbx_nonpoly_scheme.auth_mon_id HEX _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.pdb_ins_code . # _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 8S2B _exptl.crystals_number ? _exptl.details ? _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 8S2B _struct.title 'NMR structure of putisolvin I in micellar DPC solution' _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 8S2B _struct_keywords.text 'Non-ribosomal polypeptide, Cyclic lipodepsipeptide, Antimicrobial peptide, Biosurfactant, SURFACTANT PROTEIN' _struct_keywords.pdbx_keywords 'SURFACTANT PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 2 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 8S2B _struct_ref.pdbx_db_accession 8S2B _struct_ref.pdbx_db_isoform ? _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ? _struct_ref.pdbx_align_begin 1 # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 8S2B _struct_ref_seq.pdbx_strand_id A _struct_ref_seq.seq_align_beg 1 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 12 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession 8S2B _struct_ref_seq.db_align_beg 2 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 13 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 2 _struct_ref_seq.pdbx_auth_seq_align_end 13 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B # _pdbx_struct_assembly_auth_evidence.id 1 _pdbx_struct_assembly_auth_evidence.assembly_id 1 _pdbx_struct_assembly_auth_evidence.experimental_support 'NMR Distance Restraints' _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 # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id AA1 _struct_conf.beg_label_comp_id LEU _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 1 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id DSN _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 9 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id LEU _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 2 _struct_conf.end_auth_comp_id DSN _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 10 _struct_conf.pdbx_PDB_helix_class 1 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 9 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role covale1 covale both ? A LEU 1 C ? ? ? 1_555 A DGL 2 N ? ? A LEU 2 A DGL 3 1_555 ? ? ? ? ? ? ? 1.361 ? ? covale2 covale both ? A LEU 1 N ? ? ? 1_555 B 6NA . C ? ? A LEU 2 A 6NA 101 1_555 ? ? ? ? ? ? ? 1.366 ? ? covale3 covale both ? A DGL 2 C ? ? ? 1_555 A DLE 3 N ? ? A DGL 3 A DLE 4 1_555 ? ? ? ? ? ? ? 1.344 ? ? covale4 covale both ? A DLE 3 C ? ? ? 1_555 A LEU 4 N ? ? A DLE 4 A LEU 5 1_555 ? ? ? ? ? ? ? 1.341 ? ? covale5 covale both ? A LEU 4 C ? ? ? 1_555 A DGN 5 N ? ? A LEU 5 A DGN 6 1_555 ? ? ? ? ? ? ? 1.349 ? ? covale6 covale both ? A DGN 5 C ? ? ? 1_555 A DSN 6 N ? ? A DGN 6 A DSN 7 1_555 ? ? ? ? ? ? ? 1.346 ? ? covale7 covale both ? A DSN 6 C ? ? ? 1_555 A DVA 7 N ? ? A DSN 7 A DVA 8 1_555 ? ? ? ? ? ? ? 1.350 ? ? covale8 covale both ? A DVA 7 C ? ? ? 1_555 A DLE 8 N ? ? A DVA 8 A DLE 9 1_555 ? ? ? ? ? ? ? 1.314 ? ? covale9 covale both ? A DLE 8 C ? ? ? 1_555 A DSN 9 N ? ? A DLE 9 A DSN 10 1_555 ? ? ? ? ? ? ? 1.353 ? ? covale10 covale both ? A DSN 9 C ? ? ? 1_555 A LEU 10 N ? ? A DSN 10 A LEU 11 1_555 ? ? ? ? ? ? ? 1.302 ? ? # _struct_conn_type.id covale _struct_conn_type.criteria ? _struct_conn_type.reference ? # _pdbx_modification_feature.ordinal 1 _pdbx_modification_feature.label_comp_id 6NA _pdbx_modification_feature.label_asym_id B _pdbx_modification_feature.label_seq_id . _pdbx_modification_feature.label_alt_id ? _pdbx_modification_feature.modified_residue_label_comp_id LEU _pdbx_modification_feature.modified_residue_label_asym_id A _pdbx_modification_feature.modified_residue_label_seq_id 1 _pdbx_modification_feature.modified_residue_label_alt_id ? _pdbx_modification_feature.auth_comp_id 6NA _pdbx_modification_feature.auth_asym_id A _pdbx_modification_feature.auth_seq_id 101 _pdbx_modification_feature.PDB_ins_code ? _pdbx_modification_feature.symmetry 1_555 _pdbx_modification_feature.modified_residue_auth_comp_id LEU _pdbx_modification_feature.modified_residue_auth_asym_id A _pdbx_modification_feature.modified_residue_auth_seq_id 2 _pdbx_modification_feature.modified_residue_PDB_ins_code ? _pdbx_modification_feature.modified_residue_symmetry 1_555 _pdbx_modification_feature.comp_id_linking_atom C _pdbx_modification_feature.modified_residue_id_linking_atom N _pdbx_modification_feature.modified_residue_id LEU _pdbx_modification_feature.ref_pcm_id 7 _pdbx_modification_feature.ref_comp_id 6NA _pdbx_modification_feature.type Hexanoylation _pdbx_modification_feature.category Lipid/lipid-like # _pdbx_entry_details.entry_id 8S2B _pdbx_entry_details.has_ligand_of_interest N _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_protein_modification Y # loop_ _pdbx_validate_close_contact.id _pdbx_validate_close_contact.PDB_model_num _pdbx_validate_close_contact.auth_atom_id_1 _pdbx_validate_close_contact.auth_asym_id_1 _pdbx_validate_close_contact.auth_comp_id_1 _pdbx_validate_close_contact.auth_seq_id_1 _pdbx_validate_close_contact.PDB_ins_code_1 _pdbx_validate_close_contact.label_alt_id_1 _pdbx_validate_close_contact.auth_atom_id_2 _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _pdbx_validate_close_contact.PDB_ins_code_2 _pdbx_validate_close_contact.label_alt_id_2 _pdbx_validate_close_contact.dist 1 1 OG A DSN 10 ? ? C A SER 13 ? ? 1.34 2 2 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 3 3 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 4 4 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 5 5 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 6 6 OG A DSN 10 ? ? C A SER 13 ? ? 1.39 7 7 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 8 8 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 9 9 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 10 10 OG A DSN 10 ? ? C A SER 13 ? ? 1.39 11 11 OG A DSN 10 ? ? C A SER 13 ? ? 1.38 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 6 LEU A 5 ? ? 59.84 18.73 2 7 LEU A 5 ? ? 58.40 18.18 # _pdbx_nmr_ensemble.entry_id 8S2B _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 11 _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the lowest energy' _pdbx_nmr_ensemble.representative_conformer ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.entry_id 8S2B _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.selection_criteria 'closest to the average' # _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.contents '2.7 mM putisolvin I, 127.8 mM [U-2H] DPC, 90% H2O/10% D2O' _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' _pdbx_nmr_sample_details.label 1H _pdbx_nmr_sample_details.type solution _pdbx_nmr_sample_details.details ;Putisolvin I was dissolved in the micellar solution of uniformly deuterated dodecylphosphocholine (DPC-d38). Solvent: 10 mM Na2HPO4/NaH2PO4 buffer at pH 7.4. ; # loop_ _pdbx_nmr_exptl_sample.solution_id _pdbx_nmr_exptl_sample.component _pdbx_nmr_exptl_sample.concentration _pdbx_nmr_exptl_sample.concentration_range _pdbx_nmr_exptl_sample.concentration_units _pdbx_nmr_exptl_sample.isotopic_labeling 1 'putisolvin I' 2.7 ? mM 'natural abundance' 1 DPC 127.8 ? mM '[U-2H]' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.temperature 298 _pdbx_nmr_exptl_sample_conditions.pressure_units atm _pdbx_nmr_exptl_sample_conditions.pressure 1 _pdbx_nmr_exptl_sample_conditions.pH 7.4 _pdbx_nmr_exptl_sample_conditions.ionic_strength '26 (buffer only)' _pdbx_nmr_exptl_sample_conditions.details ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_err ? _pdbx_nmr_exptl_sample_conditions.ionic_strength_units mM _pdbx_nmr_exptl_sample_conditions.label conditions_1 _pdbx_nmr_exptl_sample_conditions.pH_err ? _pdbx_nmr_exptl_sample_conditions.pH_units pH _pdbx_nmr_exptl_sample_conditions.pressure_err ? _pdbx_nmr_exptl_sample_conditions.temperature_err ? _pdbx_nmr_exptl_sample_conditions.temperature_units K # loop_ _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type _pdbx_nmr_exptl.spectrometer_id _pdbx_nmr_exptl.sample_state 1 1 1 '2D NOESY' 1 isotropic 2 1 1 '2D 1H-1H TOCSY' 1 isotropic 3 1 1 '2D 1H-1H COSY' 1 isotropic 4 1 1 '2D 1H-13C HSQC' 1 isotropic # _pdbx_nmr_refine.entry_id 8S2B _pdbx_nmr_refine.method 'molecular dynamics' _pdbx_nmr_refine.details ;The lowest energy NMR structure issued from CNS was refined using unrestrained AMBER molecular dynamics simulations (against the ff14SB force field). Here, we modelled the interaction of a single peptide molecule with an explicit dodecylphosphocholine (DPC) micelle. The representative peptide conformation of the trajectory (=refined structure) was selected using cluster analysis. Solvent model: TIP3P. Occasional too-close contacts present in the NMR structure ensemble (structures #2-#11) are fully removed during the AMBER moleculary dynamics refinement (structure #1) ; _pdbx_nmr_refine.software_ordinal 1 # loop_ _pdbx_nmr_software.ordinal _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.authors 1 refinement Amber ? 'Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman' 2 'data analysis' AmberTools ? 'Case, Darden, Cheatham III, Simmerling, Wang, Duke, Luo, ... and Kollman' 3 processing TopSpin 3.x 'Bruker Biospin' 4 collection TopSpin 3.x 'Bruker Biospin' 5 'peak picking' 'CcpNmr Analysis' ? 'Vusiter et al.' 6 'structure calculation' CNS ? 'Brunger, Adams, Clore, Gros, Nilges and Read' 8 'chemical shift assignment' 'CcpNmr Analysis' ? 'Vuister et al.' # 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 6NA CA C N N 1 6NA C C N N 2 6NA O O N N 3 6NA CB C N N 4 6NA CG C N N 5 6NA CD C N N 6 6NA C6 C N N 7 6NA OXT O N N 8 6NA HAC1 H N N 9 6NA HAC2 H N N 10 6NA HBC1 H N N 11 6NA HBC2 H N N 12 6NA HGC1 H N N 13 6NA HGC2 H N N 14 6NA HDC1 H N N 15 6NA HDC2 H N N 16 6NA H6C1 H N N 17 6NA H6C2 H N N 18 6NA H6C3 H N N 19 6NA HXT H N N 20 DGL N N N N 21 DGL CA C N R 22 DGL C C N N 23 DGL O O N N 24 DGL CB C N N 25 DGL CG C N N 26 DGL CD C N N 27 DGL OE1 O N N 28 DGL OE2 O N N 29 DGL OXT O N N 30 DGL H H N N 31 DGL H2 H N N 32 DGL HA H N N 33 DGL HB2 H N N 34 DGL HB3 H N N 35 DGL HG2 H N N 36 DGL HG3 H N N 37 DGL HE2 H N N 38 DGL HXT H N N 39 DGN N N N N 40 DGN CA C N R 41 DGN C C N N 42 DGN O O N N 43 DGN OXT O N N 44 DGN CB C N N 45 DGN CG C N N 46 DGN CD C N N 47 DGN OE1 O N N 48 DGN NE2 N N N 49 DGN H H N N 50 DGN H2 H N N 51 DGN HA H N N 52 DGN HXT H N N 53 DGN HB2 H N N 54 DGN HB3 H N N 55 DGN HG2 H N N 56 DGN HG3 H N N 57 DGN HE21 H N N 58 DGN HE22 H N N 59 DLE N N N N 60 DLE CA C N R 61 DLE CB C N N 62 DLE CG C N N 63 DLE CD1 C N N 64 DLE CD2 C N N 65 DLE C C N N 66 DLE O O N N 67 DLE OXT O N N 68 DLE H H N N 69 DLE H2 H N N 70 DLE HA H N N 71 DLE HB2 H N N 72 DLE HB3 H N N 73 DLE HG H N N 74 DLE HD11 H N N 75 DLE HD12 H N N 76 DLE HD13 H N N 77 DLE HD21 H N N 78 DLE HD22 H N N 79 DLE HD23 H N N 80 DLE HXT H N N 81 DSN N N N N 82 DSN CA C N R 83 DSN C C N N 84 DSN O O N N 85 DSN OXT O N N 86 DSN CB C N N 87 DSN OG O N N 88 DSN H H N N 89 DSN H2 H N N 90 DSN HA H N N 91 DSN HXT H N N 92 DSN HB2 H N N 93 DSN HB3 H N N 94 DSN HG H N N 95 DVA N N N N 96 DVA CA C N R 97 DVA CB C N N 98 DVA CG1 C N N 99 DVA CG2 C N N 100 DVA C C N N 101 DVA O O N N 102 DVA OXT O N N 103 DVA H H N N 104 DVA H2 H N N 105 DVA HA H N N 106 DVA HB H N N 107 DVA HG11 H N N 108 DVA HG12 H N N 109 DVA HG13 H N N 110 DVA HG21 H N N 111 DVA HG22 H N N 112 DVA HG23 H N N 113 DVA HXT H N N 114 LEU N N N N 115 LEU CA C N S 116 LEU C C N N 117 LEU O O N N 118 LEU CB C N N 119 LEU CG C N N 120 LEU CD1 C N N 121 LEU CD2 C N N 122 LEU OXT O N N 123 LEU H H N N 124 LEU H2 H N N 125 LEU HA H N N 126 LEU HB2 H N N 127 LEU HB3 H N N 128 LEU HG H N N 129 LEU HD11 H N N 130 LEU HD12 H N N 131 LEU HD13 H N N 132 LEU HD21 H N N 133 LEU HD22 H N N 134 LEU HD23 H N N 135 LEU HXT H N N 136 SER N N N N 137 SER CA C N S 138 SER C C N N 139 SER O O N N 140 SER CB C N N 141 SER OG O N N 142 SER OXT O N N 143 SER H H N N 144 SER H2 H N N 145 SER HA H N N 146 SER HB2 H N N 147 SER HB3 H N N 148 SER HG H N N 149 SER HXT H N N 150 VAL N N N N 151 VAL CA C N S 152 VAL C C N N 153 VAL O O N N 154 VAL CB C N N 155 VAL CG1 C N N 156 VAL CG2 C N N 157 VAL OXT O N N 158 VAL H H N N 159 VAL H2 H N N 160 VAL HA H N N 161 VAL HB H N N 162 VAL HG11 H N N 163 VAL HG12 H N N 164 VAL HG13 H N N 165 VAL HG21 H N N 166 VAL HG22 H N N 167 VAL HG23 H N N 168 VAL HXT H N N 169 # 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 6NA CA C sing N N 1 6NA CA CB sing N N 2 6NA CA HAC1 sing N N 3 6NA CA HAC2 sing N N 4 6NA C O doub N N 5 6NA C OXT sing N N 6 6NA CB CG sing N N 7 6NA CB HBC1 sing N N 8 6NA CB HBC2 sing N N 9 6NA CG CD sing N N 10 6NA CG HGC1 sing N N 11 6NA CG HGC2 sing N N 12 6NA CD C6 sing N N 13 6NA CD HDC1 sing N N 14 6NA CD HDC2 sing N N 15 6NA C6 H6C1 sing N N 16 6NA C6 H6C2 sing N N 17 6NA C6 H6C3 sing N N 18 6NA OXT HXT sing N N 19 DGL N CA sing N N 20 DGL N H sing N N 21 DGL N H2 sing N N 22 DGL CA C sing N N 23 DGL CA CB sing N N 24 DGL CA HA sing N N 25 DGL C O doub N N 26 DGL C OXT sing N N 27 DGL CB CG sing N N 28 DGL CB HB2 sing N N 29 DGL CB HB3 sing N N 30 DGL CG CD sing N N 31 DGL CG HG2 sing N N 32 DGL CG HG3 sing N N 33 DGL CD OE1 doub N N 34 DGL CD OE2 sing N N 35 DGL OE2 HE2 sing N N 36 DGL OXT HXT sing N N 37 DGN N CA sing N N 38 DGN N H sing N N 39 DGN N H2 sing N N 40 DGN CA C sing N N 41 DGN CA CB sing N N 42 DGN CA HA sing N N 43 DGN C O doub N N 44 DGN C OXT sing N N 45 DGN OXT HXT sing N N 46 DGN CB CG sing N N 47 DGN CB HB2 sing N N 48 DGN CB HB3 sing N N 49 DGN CG CD sing N N 50 DGN CG HG2 sing N N 51 DGN CG HG3 sing N N 52 DGN CD OE1 doub N N 53 DGN CD NE2 sing N N 54 DGN NE2 HE21 sing N N 55 DGN NE2 HE22 sing N N 56 DLE N CA sing N N 57 DLE N H sing N N 58 DLE N H2 sing N N 59 DLE CA CB sing N N 60 DLE CA C sing N N 61 DLE CA HA sing N N 62 DLE CB CG sing N N 63 DLE CB HB2 sing N N 64 DLE CB HB3 sing N N 65 DLE CG CD1 sing N N 66 DLE CG CD2 sing N N 67 DLE CG HG sing N N 68 DLE CD1 HD11 sing N N 69 DLE CD1 HD12 sing N N 70 DLE CD1 HD13 sing N N 71 DLE CD2 HD21 sing N N 72 DLE CD2 HD22 sing N N 73 DLE CD2 HD23 sing N N 74 DLE C O doub N N 75 DLE C OXT sing N N 76 DLE OXT HXT sing N N 77 DSN N CA sing N N 78 DSN N H sing N N 79 DSN N H2 sing N N 80 DSN CA C sing N N 81 DSN CA CB sing N N 82 DSN CA HA sing N N 83 DSN C O doub N N 84 DSN C OXT sing N N 85 DSN OXT HXT sing N N 86 DSN CB OG sing N N 87 DSN CB HB2 sing N N 88 DSN CB HB3 sing N N 89 DSN OG HG sing N N 90 DVA N CA sing N N 91 DVA N H sing N N 92 DVA N H2 sing N N 93 DVA CA CB sing N N 94 DVA CA C sing N N 95 DVA CA HA sing N N 96 DVA CB CG1 sing N N 97 DVA CB CG2 sing N N 98 DVA CB HB sing N N 99 DVA CG1 HG11 sing N N 100 DVA CG1 HG12 sing N N 101 DVA CG1 HG13 sing N N 102 DVA CG2 HG21 sing N N 103 DVA CG2 HG22 sing N N 104 DVA CG2 HG23 sing N N 105 DVA C O doub N N 106 DVA C OXT sing N N 107 DVA OXT HXT sing N N 108 LEU N CA sing N N 109 LEU N H sing N N 110 LEU N H2 sing N N 111 LEU CA C sing N N 112 LEU CA CB sing N N 113 LEU CA HA sing N N 114 LEU C O doub N N 115 LEU C OXT sing N N 116 LEU CB CG sing N N 117 LEU CB HB2 sing N N 118 LEU CB HB3 sing N N 119 LEU CG CD1 sing N N 120 LEU CG CD2 sing N N 121 LEU CG HG sing N N 122 LEU CD1 HD11 sing N N 123 LEU CD1 HD12 sing N N 124 LEU CD1 HD13 sing N N 125 LEU CD2 HD21 sing N N 126 LEU CD2 HD22 sing N N 127 LEU CD2 HD23 sing N N 128 LEU OXT HXT sing N N 129 SER N CA sing N N 130 SER N H sing N N 131 SER N H2 sing N N 132 SER CA C sing N N 133 SER CA CB sing N N 134 SER CA HA sing N N 135 SER C O doub N N 136 SER C OXT sing N N 137 SER CB OG sing N N 138 SER CB HB2 sing N N 139 SER CB HB3 sing N N 140 SER OG HG sing N N 141 SER OXT HXT sing N N 142 VAL N CA sing N N 143 VAL N H sing N N 144 VAL N H2 sing N N 145 VAL CA C sing N N 146 VAL CA CB sing N N 147 VAL CA HA sing N N 148 VAL C O doub N N 149 VAL C OXT sing N N 150 VAL CB CG1 sing N N 151 VAL CB CG2 sing N N 152 VAL CB HB sing N N 153 VAL CG1 HG11 sing N N 154 VAL CG1 HG12 sing N N 155 VAL CG1 HG13 sing N N 156 VAL CG2 HG21 sing N N 157 VAL CG2 HG22 sing N N 158 VAL CG2 HG23 sing N N 159 VAL OXT HXT sing N N 160 # _pdbx_audit_support.funding_organization 'Research Foundation - Flanders (FWO)' _pdbx_audit_support.country Belgium _pdbx_audit_support.grant_number 'EOS project G0G3118N (EOS ID 30650620)' _pdbx_audit_support.ordinal 1 # _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.model 'AVANCE II' _pdbx_nmr_spectrometer.type ? _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.field_strength 700 _pdbx_nmr_spectrometer.details 'Prodigy Cryoprobe' # _atom_sites.entry_id 8S2B _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 H N O # loop_ #