data_2N1C # _entry.id 2N1C # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.371 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_code _database_2.database_id _database_2.pdbx_database_accession _database_2.pdbx_DOI RCSB104297 RCSB ? ? 2N1C PDB pdb_00002n1c 10.2210/pdb2n1c/pdb 25555 BMRB ? ? D_1000104297 WWPDB ? ? # _pdbx_database_related.db_id 25555 _pdbx_database_related.db_name BMRB _pdbx_database_related.content_type unspecified _pdbx_database_related.details . # _pdbx_database_status.deposit_site BMRB _pdbx_database_status.entry_id 2N1C _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2015-03-27 _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code REL _pdbx_database_status.status_code_mr REL _pdbx_database_status.status_code_sf ? _pdbx_database_status.status_code_cs REL _pdbx_database_status.methods_development_category ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data REL # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Petit, V.W.' 1 'Rolland, J.L.' 2 'Blond, A.' 3 'Djediat, C.' 4 'Peduzzi, J.' 5 'Goulard, C.' 6 'Bachere, E.' 7 'Dupont, J.' 8 'Destoumieux-Garzon, D.' 9 'Rebuffat, S.' 10 # _citation.id primary _citation.title ;A hemocyanin-derived antimicrobial peptide from the penaeid shrimp adopts an alpha-helical structure that specifically permeabilizes fungal membranes. ; _citation.journal_abbrev Biochim.Biophys.Acta _citation.journal_volume 1860 _citation.page_first 557 _citation.page_last 568 _citation.year 2015 _citation.journal_id_ASTM BBACAQ _citation.country NE _citation.journal_id_ISSN 0006-3002 _citation.journal_id_CSD 0113 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 26708991 _citation.pdbx_database_id_DOI 10.1016/j.bbagen.2015.12.010 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Petit, V.W.' 1 ? primary 'Rolland, J.L.' 2 ? primary 'Blond, A.' 3 ? primary 'Cazevieille, C.' 4 ? primary 'Djediat, C.' 5 ? primary 'Peduzzi, J.' 6 ? primary 'Goulard, C.' 7 ? primary 'Bachere, E.' 8 ? primary 'Dupont, J.' 9 ? primary 'Destoumieux-Garzon, D.' 10 ? primary 'Rebuffat, S.' 11 ? # _entity.id 1 _entity.type polymer _entity.src_method syn _entity.pdbx_description 'Hemocyanin subunit L2' _entity.formula_weight 2758.054 _entity.pdbx_number_of_molecules 1 _entity.pdbx_ec ? _entity.pdbx_mutation ? _entity.pdbx_fragment 'C-TERMINAL REGION (UNP residues 654-676)' _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 FEDLPNFGHIQVKVFNHGEHIHH _entity_poly.pdbx_seq_one_letter_code_can FEDLPNFGHIQVKVFNHGEHIHH _entity_poly.pdbx_strand_id A _entity_poly.pdbx_target_identifier ? # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 PHE n 1 2 GLU n 1 3 ASP n 1 4 LEU n 1 5 PRO n 1 6 ASN n 1 7 PHE n 1 8 GLY n 1 9 HIS n 1 10 ILE n 1 11 GLN n 1 12 VAL n 1 13 LYS n 1 14 VAL n 1 15 PHE n 1 16 ASN n 1 17 HIS n 1 18 GLY n 1 19 GLU n 1 20 HIS n 1 21 ILE n 1 22 HIS n 1 23 HIS n # _pdbx_entity_src_syn.entity_id 1 _pdbx_entity_src_syn.pdbx_src_id 1 _pdbx_entity_src_syn.pdbx_alt_source_flag sample _pdbx_entity_src_syn.pdbx_beg_seq_num ? _pdbx_entity_src_syn.pdbx_end_seq_num ? _pdbx_entity_src_syn.organism_scientific 'Litopenaeus vannamei' _pdbx_entity_src_syn.organism_common_name 'white Pacific shrimp,white shrimp' _pdbx_entity_src_syn.ncbi_taxonomy_id 6689 _pdbx_entity_src_syn.details ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code A0A059TFW7_LITVA _struct_ref.pdbx_db_accession A0A059TFW7 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code FEDLPNFGHIQVKVFNHGEHIHH _struct_ref.pdbx_align_begin 654 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 2N1C _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 23 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession A0A059TFW7 _struct_ref_seq.db_align_beg 654 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 676 _struct_ref_seq.pdbx_db_align_end_ins_code ? _struct_ref_seq.pdbx_auth_seq_align_beg 1 _struct_ref_seq.pdbx_auth_seq_align_end 23 # 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 ASN 'L-peptide linking' y ASPARAGINE ? 'C4 H8 N2 O3' 132.118 ASP 'L-peptide linking' y 'ASPARTIC ACID' ? 'C4 H7 N O4' 133.103 GLN 'L-peptide linking' y GLUTAMINE ? 'C5 H10 N2 O3' 146.144 GLU 'L-peptide linking' y 'GLUTAMIC ACID' ? 'C5 H9 N O4' 147.129 GLY 'peptide linking' y GLYCINE ? 'C2 H5 N O2' 75.067 HIS 'L-peptide linking' y HISTIDINE ? 'C6 H10 N3 O2 1' 156.162 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 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 VAL 'L-peptide linking' y VALINE ? 'C5 H11 N O2' 117.146 # loop_ _pdbx_nmr_exptl.conditions_id _pdbx_nmr_exptl.experiment_id _pdbx_nmr_exptl.solution_id _pdbx_nmr_exptl.type 1 1 1 '2D 1H-1H COSY' 1 2 1 '2D 1H-1H TOCSY' 1 3 1 '2D 1H-1H NOESY' # _pdbx_nmr_exptl_sample_conditions.conditions_id 1 _pdbx_nmr_exptl_sample_conditions.ionic_strength ? _pdbx_nmr_exptl_sample_conditions.pH 3.5 _pdbx_nmr_exptl_sample_conditions.pressure ambient _pdbx_nmr_exptl_sample_conditions.pressure_units ? _pdbx_nmr_exptl_sample_conditions.temperature 313 _pdbx_nmr_exptl_sample_conditions.temperature_units K # _pdbx_nmr_sample_details.contents '3.5 mM protein, 350 mM [U-99% 2H] DPC, 90% H2O/10% D2O' _pdbx_nmr_sample_details.solution_id 1 _pdbx_nmr_sample_details.solvent_system '90% H2O/10% D2O' # _pdbx_nmr_spectrometer.field_strength 400 _pdbx_nmr_spectrometer.manufacturer Bruker _pdbx_nmr_spectrometer.model AVANCE _pdbx_nmr_spectrometer.spectrometer_id 1 _pdbx_nmr_spectrometer.type 'Bruker Avance' # _pdbx_nmr_refine.entry_id 2N1C _pdbx_nmr_refine.method 'simulated annealing' _pdbx_nmr_refine.details ? _pdbx_nmr_refine.software_ordinal 1 # _pdbx_nmr_ensemble.average_constraint_violations_per_residue ? _pdbx_nmr_ensemble.average_constraints_per_residue ? _pdbx_nmr_ensemble.average_distance_constraint_violation ? _pdbx_nmr_ensemble.average_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.conformer_selection_criteria 'structures with the least restraint violations' _pdbx_nmr_ensemble.conformers_calculated_total_number 100 _pdbx_nmr_ensemble.conformers_submitted_total_number 20 _pdbx_nmr_ensemble.distance_constraint_violation_method ? _pdbx_nmr_ensemble.entry_id 2N1C _pdbx_nmr_ensemble.maximum_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_lower_distance_constraint_violation ? _pdbx_nmr_ensemble.maximum_torsion_angle_constraint_violation ? _pdbx_nmr_ensemble.maximum_upper_distance_constraint_violation ? _pdbx_nmr_ensemble.torsion_angle_constraint_violation_method ? # _pdbx_nmr_representative.conformer_id 1 _pdbx_nmr_representative.entry_id 2N1C _pdbx_nmr_representative.selection_criteria 'minimized average structure' # loop_ _pdbx_nmr_software.authors _pdbx_nmr_software.classification _pdbx_nmr_software.name _pdbx_nmr_software.version _pdbx_nmr_software.ordinal 'Bruker Biospin' processing XwinNMR 3.1 1 'Bruker Biospin' 'chemical shift assignment' XwinNMR 3.1 2 'Bruker Biospin' processing TopSpin 3.2 3 'Bruker Biospin' 'chemical shift assignment' TopSpin 3.2 4 BRUKER 'peak picking' AURELIA 3.8 5 Brunger refinement X-PLOR 3.851 6 # _exptl.absorpt_coefficient_mu ? _exptl.absorpt_correction_T_max ? _exptl.absorpt_correction_T_min ? _exptl.absorpt_correction_type ? _exptl.absorpt_process_details ? _exptl.crystals_number ? _exptl.details ? _exptl.entry_id 2N1C _exptl.method 'SOLUTION NMR' _exptl.method_details ? # _struct.entry_id 2N1C _struct.title 'Structure of PvHCt, an antimicrobial peptide from shrimp litopenaeus vannamei' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details 'minimized average' # _struct_keywords.entry_id 2N1C _struct_keywords.pdbx_keywords 'ANTIMICROBIAL PEPTIDE' _struct_keywords.text 'ANTIMICROBIAL PEPTIDE' # _struct_asym.id A _struct_asym.pdbx_blank_PDB_chainid_flag N _struct_asym.pdbx_modified N _struct_asym.entity_id 1 _struct_asym.details ? # _struct_biol.id 1 _struct_biol.details ? # _struct_conf.conf_type_id HELX_P _struct_conf.id HELX_P1 _struct_conf.pdbx_PDB_helix_id 1 _struct_conf.beg_label_comp_id PRO _struct_conf.beg_label_asym_id A _struct_conf.beg_label_seq_id 5 _struct_conf.pdbx_beg_PDB_ins_code ? _struct_conf.end_label_comp_id GLU _struct_conf.end_label_asym_id A _struct_conf.end_label_seq_id 19 _struct_conf.pdbx_end_PDB_ins_code ? _struct_conf.beg_auth_comp_id PRO _struct_conf.beg_auth_asym_id A _struct_conf.beg_auth_seq_id 5 _struct_conf.end_auth_comp_id GLU _struct_conf.end_auth_asym_id A _struct_conf.end_auth_seq_id 19 _struct_conf.pdbx_PDB_helix_class 1 _struct_conf.details ? _struct_conf.pdbx_PDB_helix_length 15 # _struct_conf_type.id HELX_P _struct_conf_type.criteria ? _struct_conf_type.reference ? # _atom_sites.entry_id 2N1C _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 # loop_ _atom_type.symbol C H N O Q # 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 A . n A 1 2 GLU 2 2 2 GLU GLU A . n A 1 3 ASP 3 3 3 ASP ASP A . n A 1 4 LEU 4 4 4 LEU LEU A . n A 1 5 PRO 5 5 5 PRO PRO A . n A 1 6 ASN 6 6 6 ASN ASN A . n A 1 7 PHE 7 7 7 PHE PHE A . n A 1 8 GLY 8 8 8 GLY GLY A . n A 1 9 HIS 9 9 9 HIS HIS A . n A 1 10 ILE 10 10 10 ILE ILE A . n A 1 11 GLN 11 11 11 GLN GLN A . n A 1 12 VAL 12 12 12 VAL VAL A . n A 1 13 LYS 13 13 13 LYS LYS A . n A 1 14 VAL 14 14 14 VAL VAL A . n A 1 15 PHE 15 15 15 PHE PHE A . n A 1 16 ASN 16 16 16 ASN ASN A . n A 1 17 HIS 17 17 17 HIS HIS A . n A 1 18 GLY 18 18 18 GLY GLY A . n A 1 19 GLU 19 19 19 GLU GLU A . n A 1 20 HIS 20 20 20 HIS HIS A . n A 1 21 ILE 21 21 21 ILE ILE A . n A 1 22 HIS 22 22 22 HIS HIS A . n A 1 23 HIS 23 23 23 HIS HIS A . n # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_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 # _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] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2015-05-27 2 'Structure model' 1 1 2016-01-27 3 'Structure model' 1 2 2023-06-14 # _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 ? # 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' 'Database references' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' Other # 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 3 'Structure model' database_2 2 3 'Structure model' pdbx_database_status 3 3 'Structure model' pdbx_nmr_software 4 3 'Structure model' pdbx_nmr_spectrometer # 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 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_database_status.status_code_nmr_data' 4 3 'Structure model' '_pdbx_nmr_software.name' 5 3 'Structure model' '_pdbx_nmr_spectrometer.model' # loop_ _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 _pdbx_nmr_exptl_sample.solution_id protein-1 3.5 ? mM ? 1 DPC-2 350 ? mM '[U-99% 2H]' 1 # loop_ _pdbx_validate_torsion.id _pdbx_validate_torsion.PDB_model_num _pdbx_validate_torsion.auth_comp_id _pdbx_validate_torsion.auth_asym_id _pdbx_validate_torsion.auth_seq_id _pdbx_validate_torsion.PDB_ins_code _pdbx_validate_torsion.label_alt_id _pdbx_validate_torsion.phi _pdbx_validate_torsion.psi 1 1 GLU A 2 ? ? -88.85 -83.10 2 1 HIS A 20 ? ? -152.81 -95.13 3 2 GLU A 2 ? ? -93.19 -71.23 4 2 ASP A 3 ? ? -160.26 106.51 5 2 PRO A 5 ? ? -76.70 -168.49 6 2 GLU A 19 ? ? -116.15 64.94 7 2 HIS A 20 ? ? -91.27 -97.71 8 2 HIS A 22 ? ? -141.70 -50.92 9 3 GLU A 19 ? ? 80.21 116.58 10 3 HIS A 20 ? ? -80.02 -75.86 11 4 ASP A 3 ? ? -164.22 113.65 12 4 GLU A 19 ? ? -106.53 58.78 13 4 HIS A 20 ? ? 67.13 -118.03 14 5 GLU A 2 ? ? -83.12 -81.47 15 5 GLU A 19 ? ? 66.00 70.91 16 5 HIS A 22 ? ? -95.35 -60.74 17 6 GLU A 19 ? ? -100.44 67.45 18 6 HIS A 20 ? ? -99.05 -93.93 19 7 GLU A 2 ? ? -89.39 -84.51 20 7 GLU A 19 ? ? 61.46 78.74 21 8 GLU A 2 ? ? 79.57 -6.89 22 8 HIS A 20 ? ? -123.61 -164.65 23 9 ASP A 3 ? ? -93.08 -143.13 24 9 GLU A 19 ? ? 67.16 100.50 25 9 HIS A 22 ? ? -96.46 -65.55 26 10 GLU A 19 ? ? 66.01 81.04 27 10 ILE A 21 ? ? -87.63 -83.78 28 11 GLU A 2 ? ? 88.39 -65.94 29 11 ASP A 3 ? ? -165.12 106.24 30 11 GLU A 19 ? ? -107.38 70.26 31 11 HIS A 20 ? ? -120.91 -107.19 32 11 HIS A 22 ? ? -140.07 32.07 33 12 GLU A 2 ? ? -90.61 -84.67 34 12 GLU A 19 ? ? 58.07 96.83 35 12 HIS A 20 ? ? -96.60 -105.55 36 13 ASP A 3 ? ? 71.37 99.25 37 13 GLU A 19 ? ? -104.47 67.52 38 13 HIS A 22 ? ? -153.13 62.07 39 14 ASP A 3 ? ? -165.59 110.62 40 14 ASN A 6 ? ? -128.82 -60.09 41 14 GLU A 19 ? ? 66.50 83.04 42 14 HIS A 20 ? ? 70.63 -110.60 43 15 GLU A 19 ? ? 68.86 85.18 44 15 HIS A 20 ? ? -103.28 -167.63 45 16 ASP A 3 ? ? 73.22 112.25 46 16 GLU A 19 ? ? -150.50 48.63 47 16 HIS A 20 ? ? 72.91 156.27 48 16 ILE A 21 ? ? -100.62 -165.82 49 17 ASP A 3 ? ? 76.03 99.69 50 17 GLU A 19 ? ? 64.68 64.81 51 17 HIS A 20 ? ? -94.80 -66.50 52 17 HIS A 22 ? ? -131.14 -48.74 53 18 GLU A 2 ? ? -124.69 -70.61 54 18 GLU A 19 ? ? -104.33 44.44 55 19 ASP A 3 ? ? 77.80 102.60 56 19 ASN A 6 ? ? -121.00 -56.83 57 19 GLU A 19 ? ? -100.40 64.89 58 20 GLU A 2 ? ? 76.54 -4.34 59 20 ASP A 3 ? ? 72.00 99.43 #