data_9I5N # _entry.id 9I5N # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.410 _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 9I5N pdb_00009i5n 10.2210/pdb9i5n/pdb WWPDB D_1292144669 ? ? EMDB EMD-52634 ? ? # 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 2026-02-25 ? 2 'EM metadata' 1 0 2026-02-25 ? 3 FSC 1 0 2026-02-25 ? 4 'Half map' 1 0 2026-02-25 1 5 'Half map' 1 0 2026-02-25 2 6 Image 1 0 2026-02-25 ? 7 Mask 1 0 2026-02-25 1 8 'Primary map' 1 0 2026-02-25 ? # 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' ? ? 3 3 FSC repository 'Initial release' ? ? 4 4 'Half map' repository 'Initial release' ? ? 5 5 'Half map' repository 'Initial release' ? ? 6 6 Image repository 'Initial release' ? ? 7 7 Mask repository 'Initial release' ? ? 8 8 'Primary map' 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 9I5N _pdbx_database_status.recvd_initial_deposition_date 2025-01-28 _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 'Single particle cryo electron microscopy of a Fab fragment bound to recombinant human CD40 ligand' _pdbx_database_related.db_id EMD-52634 _pdbx_database_related.content_type 'associated EM volume' # _pdbx_contact_author.id 2 _pdbx_contact_author.email esa@inano.au.dk _pdbx_contact_author.name_first Ebbe _pdbx_contact_author.name_last Andersen _pdbx_contact_author.name_mi S _pdbx_contact_author.role 'principal investigator/group leader' _pdbx_contact_author.identifier_ORCID 0000-0002-6236-8164 # loop_ _audit_author.name _audit_author.pdbx_ordinal _audit_author.identifier_ORCID 'Kristoffersen, E.L.' 1 0000-0001-8965-8201 'Schinkel, T.' 2 0000-0002-1891-2660 'Andersen, E.S.' 3 0000-0002-6236-8164 # _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 GW _citation.database_id_Medline ? _citation.details ? _citation.id primary _citation.journal_abbrev Eur.J.Immunol. _citation.journal_id_ASTM EJIMAF _citation.journal_id_CSD 0794 _citation.journal_id_ISSN 0014-2980 _citation.journal_full ? _citation.journal_issue ? _citation.journal_volume ? _citation.language ? _citation.page_first ? _citation.page_last ? _citation.title 'Curbing Autoimmunity: A Fab Fragment Targeting CD40-CD40L Halts B-Cell Activation and Differentiation' _citation.year 2026 _citation.database_id_CSD ? _citation.pdbx_database_id_DOI 10.1002/eji.70158 _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 'Pedersen, K.' 1 ? primary 'Laursen, N.S.' 2 ? primary 'Green, K.' 3 ? primary 'Hansen, A.G.' 4 ? primary 'Palarasah, Y.' 5 ? primary 'Rovsing, A.B.' 6 ? primary 'Kristoffersen, E.L.' 7 0000-0001-8965-8201 primary 'Schinkel, T.' 8 0000-0002-1891-2660 primary 'Andersen, E.S.' 9 0000-0002-6236-8164 primary 'Valero, J.' 10 ? primary 'Civit, L.' 11 ? primary 'Troldborg, A.' 12 ? primary 'Degn, S.E.' 13 ? primary 'Thiel, S.' 14 ? # 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 man 'Fab20 heavy chain' 12772.167 1 ? ? ? 'Fab fragment heavy chain, only the variable region' 2 polymer man 'Fab20 light chain' 11825.098 1 ? ? ? 'Fab fragment light chain, only the variable region' 3 polymer man 'CD40 ligand, soluble form' 15512.547 1 ? ? ? 'One subunit of extracellular domain of trimeric hCD40L' 4 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 5 water nat water 18.015 13 ? ? ? ? # _entity_name_com.entity_id 3 _entity_name_com.name sCD40L # loop_ _entity_poly.entity_id _entity_poly.type _entity_poly.nstd_linkage _entity_poly.nstd_monomer _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _entity_poly.pdbx_strand_id _entity_poly.pdbx_target_identifier 1 'polypeptide(L)' no no ;QVQLKQSGPGLVQPSQSLSITCTVSGFSLTGYGVHWVRQSPGKGLEWLGMIWSGGSTDYNAAFISRLSISKDSSKSQVFF KMNSLQANDTAIYYCARSSGNYGEDAMDYWGQGTSVTV ; ;QVQLKQSGPGLVQPSQSLSITCTVSGFSLTGYGVHWVRQSPGKGLEWLGMIWSGGSTDYNAAFISRLSISKDSSKSQVFF KMNSLQANDTAIYYCARSSGNYGEDAMDYWGQGTSVTV ; B ? 2 'polypeptide(L)' no no ;ETTVTQSPASLSMAIGEKVTIRCITSTDIDDDMNWYQQKPGEPPELLISEDNTLRPGVPSRFSSSGYGTDFVFAIENMLP EDVADYFCLQSDNLPFTFGSGTKLEIK ; ;ETTVTQSPASLSMAIGEKVTIRCITSTDIDDDMNWYQQKPGEPPELLISEDNTLRPGVPSRFSSSGYGTDFVFAIENMLP EDVADYFCLQSDNLPFTFGSGTKLEIK ; A ? 3 'polypeptide(L)' no no ;NPQIAAHVISEASSKTTSVLQWAEKGYYTMSNNLVTLENGKQLTVKRQGLYYIYAQVTFCSNREASSQAPFIASLCLKSP GRFERILLRAANTHSSAKPCGQQSIHLGGVFELQPGASVFVNVTDPSQVSHGTGFTSFGLLKL ; ;NPQIAAHVISEASSKTTSVLQWAEKGYYTMSNNLVTLENGKQLTVKRQGLYYIYAQVTFCSNREASSQAPFIASLCLKSP GRFERILLRAANTHSSAKPCGQQSIHLGGVFELQPGASVFVNVTDPSQVSHGTGFTSFGLLKL ; C ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 4 'MAGNESIUM ION' MG 5 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 GLN n 1 2 VAL n 1 3 GLN n 1 4 LEU n 1 5 LYS n 1 6 GLN n 1 7 SER n 1 8 GLY n 1 9 PRO n 1 10 GLY n 1 11 LEU n 1 12 VAL n 1 13 GLN n 1 14 PRO n 1 15 SER n 1 16 GLN n 1 17 SER n 1 18 LEU n 1 19 SER n 1 20 ILE n 1 21 THR n 1 22 CYS n 1 23 THR n 1 24 VAL n 1 25 SER n 1 26 GLY n 1 27 PHE n 1 28 SER n 1 29 LEU n 1 30 THR n 1 31 GLY n 1 32 TYR n 1 33 GLY n 1 34 VAL n 1 35 HIS n 1 36 TRP n 1 37 VAL n 1 38 ARG n 1 39 GLN n 1 40 SER n 1 41 PRO n 1 42 GLY n 1 43 LYS n 1 44 GLY n 1 45 LEU n 1 46 GLU n 1 47 TRP n 1 48 LEU n 1 49 GLY n 1 50 MET n 1 51 ILE n 1 52 TRP n 1 53 SER n 1 54 GLY n 1 55 GLY n 1 56 SER n 1 57 THR n 1 58 ASP n 1 59 TYR n 1 60 ASN n 1 61 ALA n 1 62 ALA n 1 63 PHE n 1 64 ILE n 1 65 SER n 1 66 ARG n 1 67 LEU n 1 68 SER n 1 69 ILE n 1 70 SER n 1 71 LYS n 1 72 ASP n 1 73 SER n 1 74 SER n 1 75 LYS n 1 76 SER n 1 77 GLN n 1 78 VAL n 1 79 PHE n 1 80 PHE n 1 81 LYS n 1 82 MET n 1 83 ASN n 1 84 SER n 1 85 LEU n 1 86 GLN n 1 87 ALA n 1 88 ASN n 1 89 ASP n 1 90 THR n 1 91 ALA n 1 92 ILE n 1 93 TYR n 1 94 TYR n 1 95 CYS n 1 96 ALA n 1 97 ARG n 1 98 SER n 1 99 SER n 1 100 GLY n 1 101 ASN n 1 102 TYR n 1 103 GLY n 1 104 GLU n 1 105 ASP n 1 106 ALA n 1 107 MET n 1 108 ASP n 1 109 TYR n 1 110 TRP n 1 111 GLY n 1 112 GLN n 1 113 GLY n 1 114 THR n 1 115 SER n 1 116 VAL n 1 117 THR n 1 118 VAL n 2 1 GLU n 2 2 THR n 2 3 THR n 2 4 VAL n 2 5 THR n 2 6 GLN n 2 7 SER n 2 8 PRO n 2 9 ALA n 2 10 SER n 2 11 LEU n 2 12 SER n 2 13 MET n 2 14 ALA n 2 15 ILE n 2 16 GLY n 2 17 GLU n 2 18 LYS n 2 19 VAL n 2 20 THR n 2 21 ILE n 2 22 ARG n 2 23 CYS n 2 24 ILE n 2 25 THR n 2 26 SER n 2 27 THR n 2 28 ASP n 2 29 ILE n 2 30 ASP n 2 31 ASP n 2 32 ASP n 2 33 MET n 2 34 ASN n 2 35 TRP n 2 36 TYR n 2 37 GLN n 2 38 GLN n 2 39 LYS n 2 40 PRO n 2 41 GLY n 2 42 GLU n 2 43 PRO n 2 44 PRO n 2 45 GLU n 2 46 LEU n 2 47 LEU n 2 48 ILE n 2 49 SER n 2 50 GLU n 2 51 ASP n 2 52 ASN n 2 53 THR n 2 54 LEU n 2 55 ARG n 2 56 PRO n 2 57 GLY n 2 58 VAL n 2 59 PRO n 2 60 SER n 2 61 ARG n 2 62 PHE n 2 63 SER n 2 64 SER n 2 65 SER n 2 66 GLY n 2 67 TYR n 2 68 GLY n 2 69 THR n 2 70 ASP n 2 71 PHE n 2 72 VAL n 2 73 PHE n 2 74 ALA n 2 75 ILE n 2 76 GLU n 2 77 ASN n 2 78 MET n 2 79 LEU n 2 80 PRO n 2 81 GLU n 2 82 ASP n 2 83 VAL n 2 84 ALA n 2 85 ASP n 2 86 TYR n 2 87 PHE n 2 88 CYS n 2 89 LEU n 2 90 GLN n 2 91 SER n 2 92 ASP n 2 93 ASN n 2 94 LEU n 2 95 PRO n 2 96 PHE n 2 97 THR n 2 98 PHE n 2 99 GLY n 2 100 SER n 2 101 GLY n 2 102 THR n 2 103 LYS n 2 104 LEU n 2 105 GLU n 2 106 ILE n 2 107 LYS n 3 1 ASN n 3 2 PRO n 3 3 GLN n 3 4 ILE n 3 5 ALA n 3 6 ALA n 3 7 HIS n 3 8 VAL n 3 9 ILE n 3 10 SER n 3 11 GLU n 3 12 ALA n 3 13 SER n 3 14 SER n 3 15 LYS n 3 16 THR n 3 17 THR n 3 18 SER n 3 19 VAL n 3 20 LEU n 3 21 GLN n 3 22 TRP n 3 23 ALA n 3 24 GLU n 3 25 LYS n 3 26 GLY n 3 27 TYR n 3 28 TYR n 3 29 THR n 3 30 MET n 3 31 SER n 3 32 ASN n 3 33 ASN n 3 34 LEU n 3 35 VAL n 3 36 THR n 3 37 LEU n 3 38 GLU n 3 39 ASN n 3 40 GLY n 3 41 LYS n 3 42 GLN n 3 43 LEU n 3 44 THR n 3 45 VAL n 3 46 LYS n 3 47 ARG n 3 48 GLN n 3 49 GLY n 3 50 LEU n 3 51 TYR n 3 52 TYR n 3 53 ILE n 3 54 TYR n 3 55 ALA n 3 56 GLN n 3 57 VAL n 3 58 THR n 3 59 PHE n 3 60 CYS n 3 61 SER n 3 62 ASN n 3 63 ARG n 3 64 GLU n 3 65 ALA n 3 66 SER n 3 67 SER n 3 68 GLN n 3 69 ALA n 3 70 PRO n 3 71 PHE n 3 72 ILE n 3 73 ALA n 3 74 SER n 3 75 LEU n 3 76 CYS n 3 77 LEU n 3 78 LYS n 3 79 SER n 3 80 PRO n 3 81 GLY n 3 82 ARG n 3 83 PHE n 3 84 GLU n 3 85 ARG n 3 86 ILE n 3 87 LEU n 3 88 LEU n 3 89 ARG n 3 90 ALA n 3 91 ALA n 3 92 ASN n 3 93 THR n 3 94 HIS n 3 95 SER n 3 96 SER n 3 97 ALA n 3 98 LYS n 3 99 PRO n 3 100 CYS n 3 101 GLY n 3 102 GLN n 3 103 GLN n 3 104 SER n 3 105 ILE n 3 106 HIS n 3 107 LEU n 3 108 GLY n 3 109 GLY n 3 110 VAL n 3 111 PHE n 3 112 GLU n 3 113 LEU n 3 114 GLN n 3 115 PRO n 3 116 GLY n 3 117 ALA n 3 118 SER n 3 119 VAL n 3 120 PHE n 3 121 VAL n 3 122 ASN n 3 123 VAL n 3 124 THR n 3 125 ASP n 3 126 PRO n 3 127 SER n 3 128 GLN n 3 129 VAL n 3 130 SER n 3 131 HIS n 3 132 GLY n 3 133 THR n 3 134 GLY n 3 135 PHE n 3 136 THR n 3 137 SER n 3 138 PHE n 3 139 GLY n 3 140 LEU n 3 141 LEU n 3 142 LYS n 3 143 LEU n # loop_ _entity_src_gen.entity_id _entity_src_gen.pdbx_src_id _entity_src_gen.pdbx_alt_source_flag _entity_src_gen.pdbx_seq_type _entity_src_gen.pdbx_beg_seq_num _entity_src_gen.pdbx_end_seq_num _entity_src_gen.gene_src_common_name _entity_src_gen.gene_src_genus _entity_src_gen.pdbx_gene_src_gene _entity_src_gen.gene_src_species _entity_src_gen.gene_src_strain _entity_src_gen.gene_src_tissue _entity_src_gen.gene_src_tissue_fraction _entity_src_gen.gene_src_details _entity_src_gen.pdbx_gene_src_fragment _entity_src_gen.pdbx_gene_src_scientific_name _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id _entity_src_gen.pdbx_gene_src_variant _entity_src_gen.pdbx_gene_src_cell_line _entity_src_gen.pdbx_gene_src_atcc _entity_src_gen.pdbx_gene_src_organ _entity_src_gen.pdbx_gene_src_organelle _entity_src_gen.pdbx_gene_src_cell _entity_src_gen.pdbx_gene_src_cellular_location _entity_src_gen.host_org_common_name _entity_src_gen.pdbx_host_org_scientific_name _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id _entity_src_gen.host_org_genus _entity_src_gen.pdbx_host_org_gene _entity_src_gen.pdbx_host_org_organ _entity_src_gen.host_org_species _entity_src_gen.pdbx_host_org_tissue _entity_src_gen.pdbx_host_org_tissue_fraction _entity_src_gen.pdbx_host_org_strain _entity_src_gen.pdbx_host_org_variant _entity_src_gen.pdbx_host_org_cell_line _entity_src_gen.pdbx_host_org_atcc _entity_src_gen.pdbx_host_org_culture_collection _entity_src_gen.pdbx_host_org_cell _entity_src_gen.pdbx_host_org_organelle _entity_src_gen.pdbx_host_org_cellular_location _entity_src_gen.pdbx_host_org_vector_type _entity_src_gen.pdbx_host_org_vector _entity_src_gen.host_org_details _entity_src_gen.expression_system_id _entity_src_gen.plasmid_name _entity_src_gen.plasmid_details _entity_src_gen.pdbx_description 1 1 sample 'Biological sequence' 1 118 ? ? ? ? ? ? ? ? ? 'Mus musculus' 10090 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? HEK293F ? ? ? ? ? pcDNA3.4 ? ? ? ? ? ? 2 1 sample 'Biological sequence' 1 107 ? ? ? ? ? ? ? ? ? 'Mus musculus' 10090 ? ? ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? HEK293F ? ? ? ? ? pcDNA3.4 ? ? ? ? ? ? 3 1 sample 'Biological sequence' 1 143 human ? 'CD40LG, CD40L, TNFSF5, TRAP' ? ? ? ? ? ? 'Homo sapiens' 9606 ? ? ? ? ? ? ? ? 'Escherichia coli BL21(DE3)' 469008 ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? ? # 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 ARG 'L-peptide linking' y ARGININE ? 'C6 H15 N4 O2 1' 175.209 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 CYS 'L-peptide linking' y CYSTEINE ? 'C3 H7 N O2 S' 121.158 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 HOH non-polymer . WATER ? 'H2 O' 18.015 ILE 'L-peptide linking' y ISOLEUCINE ? 'C6 H13 N O2' 131.173 LEU 'L-peptide linking' y LEUCINE ? 'C6 H13 N O2' 131.173 LYS 'L-peptide linking' y LYSINE ? 'C6 H15 N2 O2 1' 147.195 MET 'L-peptide linking' y METHIONINE ? 'C5 H11 N O2 S' 149.211 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 SER 'L-peptide linking' y SERINE ? 'C3 H7 N O3' 105.093 THR 'L-peptide linking' y THREONINE ? 'C4 H9 N O3' 119.119 TRP 'L-peptide linking' y TRYPTOPHAN ? 'C11 H12 N2 O2' 204.225 TYR 'L-peptide linking' y TYROSINE ? 'C9 H11 N O3' 181.189 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 GLN 1 1 1 GLN GLN B . n A 1 2 VAL 2 2 2 VAL VAL B . n A 1 3 GLN 3 3 3 GLN GLN B . n A 1 4 LEU 4 4 4 LEU LEU B . n A 1 5 LYS 5 5 5 LYS LYS B . n A 1 6 GLN 6 6 6 GLN GLN B . n A 1 7 SER 7 7 7 SER SER B . n A 1 8 GLY 8 8 8 GLY GLY B . n A 1 9 PRO 9 9 9 PRO PRO B . n A 1 10 GLY 10 10 10 GLY GLY B . n A 1 11 LEU 11 11 11 LEU LEU B . n A 1 12 VAL 12 12 12 VAL VAL B . n A 1 13 GLN 13 13 13 GLN GLN B . n A 1 14 PRO 14 14 14 PRO PRO B . n A 1 15 SER 15 15 15 SER SER B . n A 1 16 GLN 16 16 16 GLN GLN B . n A 1 17 SER 17 17 17 SER SER B . n A 1 18 LEU 18 18 18 LEU LEU B . n A 1 19 SER 19 19 19 SER SER B . n A 1 20 ILE 20 20 20 ILE ILE B . n A 1 21 THR 21 21 21 THR THR B . n A 1 22 CYS 22 22 22 CYS CYS B . n A 1 23 THR 23 23 23 THR THR B . n A 1 24 VAL 24 24 24 VAL VAL B . n A 1 25 SER 25 25 25 SER SER B . n A 1 26 GLY 26 26 26 GLY GLY B . n A 1 27 PHE 27 27 27 PHE PHE B . n A 1 28 SER 28 28 28 SER SER B . n A 1 29 LEU 29 29 29 LEU LEU B . n A 1 30 THR 30 30 30 THR THR B . n A 1 31 GLY 31 31 31 GLY GLY B . n A 1 32 TYR 32 32 32 TYR TYR B . n A 1 33 GLY 33 33 33 GLY GLY B . n A 1 34 VAL 34 34 34 VAL VAL B . n A 1 35 HIS 35 35 35 HIS HIS B . n A 1 36 TRP 36 36 36 TRP TRP B . n A 1 37 VAL 37 37 37 VAL VAL B . n A 1 38 ARG 38 38 38 ARG ARG B . n A 1 39 GLN 39 39 39 GLN GLN B . n A 1 40 SER 40 40 40 SER SER B . n A 1 41 PRO 41 41 41 PRO PRO B . n A 1 42 GLY 42 42 42 GLY GLY B . n A 1 43 LYS 43 43 43 LYS LYS B . n A 1 44 GLY 44 44 44 GLY GLY B . n A 1 45 LEU 45 45 45 LEU LEU B . n A 1 46 GLU 46 46 46 GLU GLU B . n A 1 47 TRP 47 47 47 TRP TRP B . n A 1 48 LEU 48 48 48 LEU LEU B . n A 1 49 GLY 49 49 49 GLY GLY B . n A 1 50 MET 50 50 50 MET MET B . n A 1 51 ILE 51 51 51 ILE ILE B . n A 1 52 TRP 52 52 52 TRP TRP B . n A 1 53 SER 53 53 53 SER SER B . n A 1 54 GLY 54 54 54 GLY GLY B . n A 1 55 GLY 55 55 55 GLY GLY B . n A 1 56 SER 56 56 56 SER SER B . n A 1 57 THR 57 57 57 THR THR B . n A 1 58 ASP 58 58 58 ASP ASP B . n A 1 59 TYR 59 59 59 TYR TYR B . n A 1 60 ASN 60 60 60 ASN ASN B . n A 1 61 ALA 61 61 61 ALA ALA B . n A 1 62 ALA 62 62 62 ALA ALA B . n A 1 63 PHE 63 63 63 PHE PHE B . n A 1 64 ILE 64 64 64 ILE ILE B . n A 1 65 SER 65 65 65 SER SER B . n A 1 66 ARG 66 66 66 ARG ARG B . n A 1 67 LEU 67 67 67 LEU LEU B . n A 1 68 SER 68 68 68 SER SER B . n A 1 69 ILE 69 69 69 ILE ILE B . n A 1 70 SER 70 70 70 SER SER B . n A 1 71 LYS 71 71 71 LYS LYS B . n A 1 72 ASP 72 72 72 ASP ASP B . n A 1 73 SER 73 73 73 SER SER B . n A 1 74 SER 74 74 74 SER SER B . n A 1 75 LYS 75 75 75 LYS LYS B . n A 1 76 SER 76 76 76 SER SER B . n A 1 77 GLN 77 77 77 GLN GLN B . n A 1 78 VAL 78 78 78 VAL VAL B . n A 1 79 PHE 79 79 79 PHE PHE B . n A 1 80 PHE 80 80 80 PHE PHE B . n A 1 81 LYS 81 81 81 LYS LYS B . n A 1 82 MET 82 82 82 MET MET B . n A 1 83 ASN 83 83 83 ASN ASN B . n A 1 84 SER 84 84 84 SER SER B . n A 1 85 LEU 85 85 85 LEU LEU B . n A 1 86 GLN 86 86 86 GLN GLN B . n A 1 87 ALA 87 87 87 ALA ALA B . n A 1 88 ASN 88 88 88 ASN ASN B . n A 1 89 ASP 89 89 89 ASP ASP B . n A 1 90 THR 90 90 90 THR THR B . n A 1 91 ALA 91 91 91 ALA ALA B . n A 1 92 ILE 92 92 92 ILE ILE B . n A 1 93 TYR 93 93 93 TYR TYR B . n A 1 94 TYR 94 94 94 TYR TYR B . n A 1 95 CYS 95 95 95 CYS CYS B . n A 1 96 ALA 96 96 96 ALA ALA B . n A 1 97 ARG 97 97 97 ARG ARG B . n A 1 98 SER 98 98 98 SER SER B . n A 1 99 SER 99 99 99 SER SER B . n A 1 100 GLY 100 100 100 GLY GLY B . n A 1 101 ASN 101 101 101 ASN ASN B . n A 1 102 TYR 102 102 102 TYR TYR B . n A 1 103 GLY 103 103 103 GLY GLY B . n A 1 104 GLU 104 104 104 GLU GLU B . n A 1 105 ASP 105 105 105 ASP ASP B . n A 1 106 ALA 106 106 106 ALA ALA B . n A 1 107 MET 107 107 107 MET MET B . n A 1 108 ASP 108 108 108 ASP ASP B . n A 1 109 TYR 109 109 109 TYR TYR B . n A 1 110 TRP 110 110 110 TRP TRP B . n A 1 111 GLY 111 111 111 GLY GLY B . n A 1 112 GLN 112 112 112 GLN GLN B . n A 1 113 GLY 113 113 113 GLY GLY B . n A 1 114 THR 114 114 114 THR THR B . n A 1 115 SER 115 115 115 SER SER B . n A 1 116 VAL 116 116 116 VAL VAL B . n A 1 117 THR 117 117 117 THR THR B . n A 1 118 VAL 118 118 118 VAL VAL B . n B 2 1 GLU 1 1 1 GLU GLU A . n B 2 2 THR 2 2 2 THR THR A . n B 2 3 THR 3 3 3 THR THR A . n B 2 4 VAL 4 4 4 VAL VAL A . n B 2 5 THR 5 5 5 THR THR A . n B 2 6 GLN 6 6 6 GLN GLN A . n B 2 7 SER 7 7 7 SER SER A . n B 2 8 PRO 8 8 8 PRO PRO A . n B 2 9 ALA 9 9 9 ALA ALA A . n B 2 10 SER 10 10 10 SER SER A . n B 2 11 LEU 11 11 11 LEU LEU A . n B 2 12 SER 12 12 12 SER SER A . n B 2 13 MET 13 13 13 MET MET A . n B 2 14 ALA 14 14 14 ALA ALA A . n B 2 15 ILE 15 15 15 ILE ILE A . n B 2 16 GLY 16 16 16 GLY GLY A . n B 2 17 GLU 17 17 17 GLU GLU A . n B 2 18 LYS 18 18 18 LYS LYS A . n B 2 19 VAL 19 19 19 VAL VAL A . n B 2 20 THR 20 20 20 THR THR A . n B 2 21 ILE 21 21 21 ILE ILE A . n B 2 22 ARG 22 22 22 ARG ARG A . n B 2 23 CYS 23 23 23 CYS CYS A . n B 2 24 ILE 24 24 24 ILE ILE A . n B 2 25 THR 25 25 25 THR THR A . n B 2 26 SER 26 26 26 SER SER A . n B 2 27 THR 27 27 27 THR THR A . n B 2 28 ASP 28 28 28 ASP ASP A . n B 2 29 ILE 29 29 29 ILE ILE A . n B 2 30 ASP 30 30 30 ASP ASP A . n B 2 31 ASP 31 31 31 ASP ASP A . n B 2 32 ASP 32 32 32 ASP ASP A . n B 2 33 MET 33 33 33 MET MET A . n B 2 34 ASN 34 34 34 ASN ASN A . n B 2 35 TRP 35 35 35 TRP TRP A . n B 2 36 TYR 36 36 36 TYR TYR A . n B 2 37 GLN 37 37 37 GLN GLN A . n B 2 38 GLN 38 38 38 GLN GLN A . n B 2 39 LYS 39 39 39 LYS LYS A . n B 2 40 PRO 40 40 40 PRO PRO A . n B 2 41 GLY 41 41 41 GLY GLY A . n B 2 42 GLU 42 42 42 GLU GLU A . n B 2 43 PRO 43 43 43 PRO PRO A . n B 2 44 PRO 44 44 44 PRO PRO A . n B 2 45 GLU 45 45 45 GLU GLU A . n B 2 46 LEU 46 46 46 LEU LEU A . n B 2 47 LEU 47 47 47 LEU LEU A . n B 2 48 ILE 48 48 48 ILE ILE A . n B 2 49 SER 49 49 49 SER SER A . n B 2 50 GLU 50 50 50 GLU GLU A . n B 2 51 ASP 51 51 51 ASP ASP A . n B 2 52 ASN 52 52 52 ASN ASN A . n B 2 53 THR 53 53 53 THR THR A . n B 2 54 LEU 54 54 54 LEU LEU A . n B 2 55 ARG 55 55 55 ARG ARG A . n B 2 56 PRO 56 56 56 PRO PRO A . n B 2 57 GLY 57 57 57 GLY GLY A . n B 2 58 VAL 58 58 58 VAL VAL A . n B 2 59 PRO 59 59 59 PRO PRO A . n B 2 60 SER 60 60 60 SER SER A . n B 2 61 ARG 61 61 61 ARG ARG A . n B 2 62 PHE 62 62 62 PHE PHE A . n B 2 63 SER 63 63 63 SER SER A . n B 2 64 SER 64 64 64 SER SER A . n B 2 65 SER 65 65 65 SER SER A . n B 2 66 GLY 66 66 66 GLY GLY A . n B 2 67 TYR 67 67 67 TYR TYR A . n B 2 68 GLY 68 68 68 GLY GLY A . n B 2 69 THR 69 69 69 THR THR A . n B 2 70 ASP 70 70 70 ASP ASP A . n B 2 71 PHE 71 71 71 PHE PHE A . n B 2 72 VAL 72 72 72 VAL VAL A . n B 2 73 PHE 73 73 73 PHE PHE A . n B 2 74 ALA 74 74 74 ALA ALA A . n B 2 75 ILE 75 75 75 ILE ILE A . n B 2 76 GLU 76 76 76 GLU GLU A . n B 2 77 ASN 77 77 77 ASN ASN A . n B 2 78 MET 78 78 78 MET MET A . n B 2 79 LEU 79 79 79 LEU LEU A . n B 2 80 PRO 80 80 80 PRO PRO A . n B 2 81 GLU 81 81 81 GLU GLU A . n B 2 82 ASP 82 82 82 ASP ASP A . n B 2 83 VAL 83 83 83 VAL VAL A . n B 2 84 ALA 84 84 84 ALA ALA A . n B 2 85 ASP 85 85 85 ASP ASP A . n B 2 86 TYR 86 86 86 TYR TYR A . n B 2 87 PHE 87 87 87 PHE PHE A . n B 2 88 CYS 88 88 88 CYS CYS A . n B 2 89 LEU 89 89 89 LEU LEU A . n B 2 90 GLN 90 90 90 GLN GLN A . n B 2 91 SER 91 91 91 SER SER A . n B 2 92 ASP 92 92 92 ASP ASP A . n B 2 93 ASN 93 93 93 ASN ASN A . n B 2 94 LEU 94 94 94 LEU LEU A . n B 2 95 PRO 95 95 95 PRO PRO A . n B 2 96 PHE 96 96 96 PHE PHE A . n B 2 97 THR 97 97 97 THR THR A . n B 2 98 PHE 98 98 98 PHE PHE A . n B 2 99 GLY 99 99 99 GLY GLY A . n B 2 100 SER 100 100 100 SER SER A . n B 2 101 GLY 101 101 101 GLY GLY A . n B 2 102 THR 102 102 102 THR THR A . n B 2 103 LYS 103 103 103 LYS LYS A . n B 2 104 LEU 104 104 104 LEU LEU A . n B 2 105 GLU 105 105 105 GLU GLU A . n B 2 106 ILE 106 106 106 ILE ILE A . n B 2 107 LYS 107 107 107 LYS LYS A . n C 3 1 ASN 1 119 119 ASN ASN C . n C 3 2 PRO 2 120 120 PRO PRO C . n C 3 3 GLN 3 121 121 GLN GLN C . n C 3 4 ILE 4 122 122 ILE ILE C . n C 3 5 ALA 5 123 123 ALA ALA C . n C 3 6 ALA 6 124 124 ALA ALA C . n C 3 7 HIS 7 125 125 HIS HIS C . n C 3 8 VAL 8 126 126 VAL VAL C . n C 3 9 ILE 9 127 127 ILE ILE C . n C 3 10 SER 10 128 128 SER SER C . n C 3 11 GLU 11 129 129 GLU GLU C . n C 3 12 ALA 12 130 130 ALA ALA C . n C 3 13 SER 13 131 131 SER SER C . n C 3 14 SER 14 132 132 SER SER C . n C 3 15 LYS 15 133 133 LYS LYS C . n C 3 16 THR 16 134 134 THR THR C . n C 3 17 THR 17 135 135 THR THR C . n C 3 18 SER 18 136 136 SER SER C . n C 3 19 VAL 19 137 137 VAL VAL C . n C 3 20 LEU 20 138 138 LEU LEU C . n C 3 21 GLN 21 139 139 GLN GLN C . n C 3 22 TRP 22 140 140 TRP TRP C . n C 3 23 ALA 23 141 141 ALA ALA C . n C 3 24 GLU 24 142 142 GLU GLU C . n C 3 25 LYS 25 143 143 LYS LYS C . n C 3 26 GLY 26 144 144 GLY GLY C . n C 3 27 TYR 27 145 145 TYR TYR C . n C 3 28 TYR 28 146 146 TYR TYR C . n C 3 29 THR 29 147 147 THR THR C . n C 3 30 MET 30 148 148 MET MET C . n C 3 31 SER 31 149 149 SER SER C . n C 3 32 ASN 32 150 150 ASN ASN C . n C 3 33 ASN 33 151 151 ASN ASN C . n C 3 34 LEU 34 152 152 LEU LEU C . n C 3 35 VAL 35 153 153 VAL VAL C . n C 3 36 THR 36 154 154 THR THR C . n C 3 37 LEU 37 155 155 LEU LEU C . n C 3 38 GLU 38 156 156 GLU GLU C . n C 3 39 ASN 39 157 157 ASN ASN C . n C 3 40 GLY 40 158 158 GLY GLY C . n C 3 41 LYS 41 159 159 LYS LYS C . n C 3 42 GLN 42 160 160 GLN GLN C . n C 3 43 LEU 43 161 161 LEU LEU C . n C 3 44 THR 44 162 162 THR THR C . n C 3 45 VAL 45 163 163 VAL VAL C . n C 3 46 LYS 46 164 164 LYS LYS C . n C 3 47 ARG 47 165 165 ARG ARG C . n C 3 48 GLN 48 166 166 GLN GLN C . n C 3 49 GLY 49 167 167 GLY GLY C . n C 3 50 LEU 50 168 168 LEU LEU C . n C 3 51 TYR 51 169 169 TYR TYR C . n C 3 52 TYR 52 170 170 TYR TYR C . n C 3 53 ILE 53 171 171 ILE ILE C . n C 3 54 TYR 54 172 172 TYR TYR C . n C 3 55 ALA 55 173 173 ALA ALA C . n C 3 56 GLN 56 174 174 GLN GLN C . n C 3 57 VAL 57 175 175 VAL VAL C . n C 3 58 THR 58 176 176 THR THR C . n C 3 59 PHE 59 177 177 PHE PHE C . n C 3 60 CYS 60 178 178 CYS CYS C . n C 3 61 SER 61 179 179 SER SER C . n C 3 62 ASN 62 180 180 ASN ASN C . n C 3 63 ARG 63 181 181 ARG ARG C . n C 3 64 GLU 64 182 182 GLU GLU C . n C 3 65 ALA 65 183 183 ALA ALA C . n C 3 66 SER 66 184 184 SER SER C . n C 3 67 SER 67 185 185 SER SER C . n C 3 68 GLN 68 186 186 GLN GLN C . n C 3 69 ALA 69 187 187 ALA ALA C . n C 3 70 PRO 70 188 188 PRO PRO C . n C 3 71 PHE 71 189 189 PHE PHE C . n C 3 72 ILE 72 190 190 ILE ILE C . n C 3 73 ALA 73 191 191 ALA ALA C . n C 3 74 SER 74 192 192 SER SER C . n C 3 75 LEU 75 193 193 LEU LEU C . n C 3 76 CYS 76 194 194 CYS CYS C . n C 3 77 LEU 77 195 195 LEU LEU C . n C 3 78 LYS 78 196 196 LYS LYS C . n C 3 79 SER 79 197 197 SER SER C . n C 3 80 PRO 80 198 198 PRO PRO C . n C 3 81 GLY 81 199 199 GLY GLY C . n C 3 82 ARG 82 200 200 ARG ARG C . n C 3 83 PHE 83 201 201 PHE PHE C . n C 3 84 GLU 84 202 202 GLU GLU C . n C 3 85 ARG 85 203 203 ARG ARG C . n C 3 86 ILE 86 204 204 ILE ILE C . n C 3 87 LEU 87 205 205 LEU LEU C . n C 3 88 LEU 88 206 206 LEU LEU C . n C 3 89 ARG 89 207 207 ARG ARG C . n C 3 90 ALA 90 208 208 ALA ALA C . n C 3 91 ALA 91 209 209 ALA ALA C . n C 3 92 ASN 92 210 210 ASN ASN C . n C 3 93 THR 93 211 211 THR THR C . n C 3 94 HIS 94 212 212 HIS HIS C . n C 3 95 SER 95 213 213 SER SER C . n C 3 96 SER 96 214 214 SER SER C . n C 3 97 ALA 97 215 215 ALA ALA C . n C 3 98 LYS 98 216 216 LYS LYS C . n C 3 99 PRO 99 217 217 PRO PRO C . n C 3 100 CYS 100 218 218 CYS CYS C . n C 3 101 GLY 101 219 219 GLY GLY C . n C 3 102 GLN 102 220 220 GLN GLN C . n C 3 103 GLN 103 221 221 GLN GLN C . n C 3 104 SER 104 222 222 SER SER C . n C 3 105 ILE 105 223 223 ILE ILE C . n C 3 106 HIS 106 224 224 HIS HIS C . n C 3 107 LEU 107 225 225 LEU LEU C . n C 3 108 GLY 108 226 226 GLY GLY C . n C 3 109 GLY 109 227 227 GLY GLY C . n C 3 110 VAL 110 228 228 VAL VAL C . n C 3 111 PHE 111 229 229 PHE PHE C . n C 3 112 GLU 112 230 230 GLU GLU C . n C 3 113 LEU 113 231 231 LEU LEU C . n C 3 114 GLN 114 232 232 GLN GLN C . n C 3 115 PRO 115 233 233 PRO PRO C . n C 3 116 GLY 116 234 234 GLY GLY C . n C 3 117 ALA 117 235 235 ALA ALA C . n C 3 118 SER 118 236 236 SER SER C . n C 3 119 VAL 119 237 237 VAL VAL C . n C 3 120 PHE 120 238 238 PHE PHE C . n C 3 121 VAL 121 239 239 VAL VAL C . n C 3 122 ASN 122 240 240 ASN ASN C . n C 3 123 VAL 123 241 241 VAL VAL C . n C 3 124 THR 124 242 242 THR THR C . n C 3 125 ASP 125 243 243 ASP ASP C . n C 3 126 PRO 126 244 244 PRO PRO C . n C 3 127 SER 127 245 245 SER SER C . n C 3 128 GLN 128 246 246 GLN GLN C . n C 3 129 VAL 129 247 247 VAL VAL C . n C 3 130 SER 130 248 248 SER SER C . n C 3 131 HIS 131 249 249 HIS HIS C . n C 3 132 GLY 132 250 250 GLY GLY C . n C 3 133 THR 133 251 251 THR THR C . n C 3 134 GLY 134 252 252 GLY GLY C . n C 3 135 PHE 135 253 253 PHE PHE C . n C 3 136 THR 136 254 254 THR THR C . n C 3 137 SER 137 255 255 SER SER C . n C 3 138 PHE 138 256 256 PHE PHE C . n C 3 139 GLY 139 257 257 GLY GLY C . n C 3 140 LEU 140 258 258 LEU LEU C . n C 3 141 LEU 141 259 259 LEU LEU C . n C 3 142 LYS 142 260 260 LYS LYS C . n C 3 143 LEU 143 261 261 LEU LEU C . 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 D 4 MG 1 201 1 MG MG A . E 5 HOH 1 201 120 HOH HOH B . E 5 HOH 2 202 123 HOH HOH B . F 5 HOH 1 301 110 HOH HOH A . F 5 HOH 2 302 120 HOH HOH A . F 5 HOH 3 303 115 HOH HOH A . G 5 HOH 1 301 271 HOH HOH C . G 5 HOH 2 302 270 HOH HOH C . G 5 HOH 3 303 268 HOH HOH C . G 5 HOH 4 304 266 HOH HOH C . G 5 HOH 5 305 269 HOH HOH C . G 5 HOH 6 306 264 HOH HOH C . G 5 HOH 7 307 272 HOH HOH C . G 5 HOH 8 308 263 HOH HOH C . # _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 9I5N _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 9I5N _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 9I5N _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 ? _refine.B_iso_min ? _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 9I5N _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 3.4 _refine.ls_d_res_low ? _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 ? _refine.ls_number_reflns_R_free ? _refine.ls_number_reflns_R_work ? _refine.ls_number_restraints ? _refine.ls_percent_reflns_obs ? _refine.ls_percent_reflns_R_free ? _refine.ls_R_factor_all ? _refine.ls_R_factor_obs ? _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 ? _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.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 'REAL-SPACE (WEIGHTED MAP SUM AT ATOM CENTERS)' _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 ? _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 ? _refine.overall_SU_ML ? _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 ? # 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 MICROSCOPY' ? 0.003 ? 2881 ? f_bond_d ? ? 'ELECTRON MICROSCOPY' ? 0.484 ? 3910 ? f_angle_d ? ? 'ELECTRON MICROSCOPY' ? 7.331 ? 406 ? f_dihedral_angle_d ? ? 'ELECTRON MICROSCOPY' ? 0.040 ? 434 ? f_chiral_restr ? ? 'ELECTRON MICROSCOPY' ? 0.004 ? 507 ? f_plane_restr ? ? # _struct.entry_id 9I5N _struct.title 'Single particle cryo electron microscopy of a Fab fragment bound to recombinant human CD40 ligand' _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 9I5N _struct_keywords.text 'CD40 ligand inhibitor, CD154 inhibitor, autoimmunity, Fab fragment, IMMUNE SYSTEM' _struct_keywords.pdbx_keywords 'IMMUNE SYSTEM' # 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 ? C N N 3 ? D N N 4 ? E N N 5 ? F N N 5 ? G N N 5 ? # loop_ _struct_ref.id _struct_ref.db_name _struct_ref.db_code _struct_ref.pdbx_db_accession _struct_ref.pdbx_db_isoform _struct_ref.entity_id _struct_ref.pdbx_seq_one_letter_code _struct_ref.pdbx_align_begin 1 PDB 9I5N 9I5N ? 1 ? 1 2 PDB 9I5N 9I5N ? 2 ? 1 3 UNP CD40L_HUMAN P29965 ? 3 ;NPQIAAHVISEASSKTTSVLQWAEKGYYTMSNNLVTLENGKQLTVKRQGLYYIYAQVTFCSNREASSQAPFIASLCLKSP GRFERILLRAANTHSSAKPCGQQSIHLGGVFELQPGASVFVNVTDPSQVSHGTGFTSFGLLKL ; 119 # 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 9I5N B 1 ? 118 ? 9I5N 1 ? 118 ? 1 118 2 2 9I5N A 1 ? 107 ? 9I5N 1 ? 107 ? 1 107 3 3 9I5N C 1 ? 143 ? P29965 119 ? 261 ? 119 261 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 # _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 # _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_conf.conf_type_id _struct_conf.id _struct_conf.pdbx_PDB_helix_id _struct_conf.beg_label_comp_id _struct_conf.beg_label_asym_id _struct_conf.beg_label_seq_id _struct_conf.pdbx_beg_PDB_ins_code _struct_conf.end_label_comp_id _struct_conf.end_label_asym_id _struct_conf.end_label_seq_id _struct_conf.pdbx_end_PDB_ins_code _struct_conf.beg_auth_comp_id _struct_conf.beg_auth_asym_id _struct_conf.beg_auth_seq_id _struct_conf.end_auth_comp_id _struct_conf.end_auth_asym_id _struct_conf.end_auth_seq_id _struct_conf.pdbx_PDB_helix_class _struct_conf.details _struct_conf.pdbx_PDB_helix_length HELX_P HELX_P1 AA1 ASN A 60 ? ILE A 64 ? ASN B 60 ILE B 64 5 ? 5 HELX_P HELX_P2 AA2 GLN A 86 ? THR A 90 ? GLN B 86 THR B 90 5 ? 5 HELX_P HELX_P3 AA3 LEU B 79 ? VAL B 83 ? LEU A 79 VAL A 83 5 ? 5 # _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 disulf1 disulf ? ? A CYS 22 SG ? ? ? 1_555 A CYS 95 SG ? ? B CYS 22 B CYS 95 1_555 ? ? ? ? ? ? ? 2.007 ? ? disulf2 disulf ? ? B CYS 23 SG ? ? ? 1_555 B CYS 88 SG ? ? A CYS 23 A CYS 88 1_555 ? ? ? ? ? ? ? 2.038 ? ? disulf3 disulf ? ? C CYS 60 SG ? ? ? 1_555 C CYS 100 SG ? ? C CYS 178 C CYS 218 1_555 ? ? ? ? ? ? ? 2.029 ? ? metalc1 metalc ? ? B ASP 31 OD1 ? ? ? 1_555 D MG . MG ? ? A ASP 31 A MG 201 1_555 ? ? ? ? ? ? ? 2.032 ? ? metalc2 metalc ? ? B ASP 31 OD2 ? ? ? 1_555 D MG . MG ? ? A ASP 31 A MG 201 1_555 ? ? ? ? ? ? ? 2.021 ? ? metalc3 metalc ? ? B ASP 92 OD2 ? ? ? 1_555 D MG . MG ? ? A ASP 92 A MG 201 1_555 ? ? ? ? ? ? ? 1.865 ? ? metalc4 metalc ? ? D MG . MG ? ? ? 1_555 C GLU 84 OE1 ? ? A MG 201 C GLU 202 1_555 ? ? ? ? ? ? ? 1.874 ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference disulf ? ? metalc ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 OD1 ? B ASP 31 ? A ASP 31 ? 1_555 MG ? D MG . ? A MG 201 ? 1_555 OD2 ? B ASP 31 ? A ASP 31 ? 1_555 63.6 ? 2 OD1 ? B ASP 31 ? A ASP 31 ? 1_555 MG ? D MG . ? A MG 201 ? 1_555 OD2 ? B ASP 92 ? A ASP 92 ? 1_555 96.7 ? 3 OD2 ? B ASP 31 ? A ASP 31 ? 1_555 MG ? D MG . ? A MG 201 ? 1_555 OD2 ? B ASP 92 ? A ASP 92 ? 1_555 156.3 ? 4 OD1 ? B ASP 31 ? A ASP 31 ? 1_555 MG ? D MG . ? A MG 201 ? 1_555 OE1 ? C GLU 84 ? C GLU 202 ? 1_555 139.8 ? 5 OD2 ? B ASP 31 ? A ASP 31 ? 1_555 MG ? D MG . ? A MG 201 ? 1_555 OE1 ? C GLU 84 ? C GLU 202 ? 1_555 96.3 ? 6 OD2 ? B ASP 92 ? A ASP 92 ? 1_555 MG ? D MG . ? A MG 201 ? 1_555 OE1 ? C GLU 84 ? C GLU 202 ? 1_555 107.4 ? # loop_ _pdbx_modification_feature.ordinal _pdbx_modification_feature.label_comp_id _pdbx_modification_feature.label_asym_id _pdbx_modification_feature.label_seq_id _pdbx_modification_feature.label_alt_id _pdbx_modification_feature.modified_residue_label_comp_id _pdbx_modification_feature.modified_residue_label_asym_id _pdbx_modification_feature.modified_residue_label_seq_id _pdbx_modification_feature.modified_residue_label_alt_id _pdbx_modification_feature.auth_comp_id _pdbx_modification_feature.auth_asym_id _pdbx_modification_feature.auth_seq_id _pdbx_modification_feature.PDB_ins_code _pdbx_modification_feature.symmetry _pdbx_modification_feature.modified_residue_auth_comp_id _pdbx_modification_feature.modified_residue_auth_asym_id _pdbx_modification_feature.modified_residue_auth_seq_id _pdbx_modification_feature.modified_residue_PDB_ins_code _pdbx_modification_feature.modified_residue_symmetry _pdbx_modification_feature.comp_id_linking_atom _pdbx_modification_feature.modified_residue_id_linking_atom _pdbx_modification_feature.modified_residue_id _pdbx_modification_feature.ref_pcm_id _pdbx_modification_feature.ref_comp_id _pdbx_modification_feature.type _pdbx_modification_feature.category 1 CYS A 22 ? CYS A 95 ? CYS B 22 ? 1_555 CYS B 95 ? 1_555 SG SG . . . None 'Disulfide bridge' 2 CYS B 23 ? CYS B 88 ? CYS A 23 ? 1_555 CYS A 88 ? 1_555 SG SG . . . None 'Disulfide bridge' 3 CYS C 60 ? CYS C 100 ? CYS C 178 ? 1_555 CYS C 218 ? 1_555 SG SG . . . None 'Disulfide bridge' # loop_ _struct_mon_prot_cis.pdbx_id _struct_mon_prot_cis.label_comp_id _struct_mon_prot_cis.label_seq_id _struct_mon_prot_cis.label_asym_id _struct_mon_prot_cis.label_alt_id _struct_mon_prot_cis.pdbx_PDB_ins_code _struct_mon_prot_cis.auth_comp_id _struct_mon_prot_cis.auth_seq_id _struct_mon_prot_cis.auth_asym_id _struct_mon_prot_cis.pdbx_label_comp_id_2 _struct_mon_prot_cis.pdbx_label_seq_id_2 _struct_mon_prot_cis.pdbx_label_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_ins_code_2 _struct_mon_prot_cis.pdbx_auth_comp_id_2 _struct_mon_prot_cis.pdbx_auth_seq_id_2 _struct_mon_prot_cis.pdbx_auth_asym_id_2 _struct_mon_prot_cis.pdbx_PDB_model_num _struct_mon_prot_cis.pdbx_omega_angle 1 SER 7 B . ? SER 7 A PRO 8 B ? PRO 8 A 1 -2.59 2 LEU 94 B . ? LEU 94 A PRO 95 B ? PRO 95 A 1 1.27 3 LYS 98 C . ? LYS 216 C PRO 99 C ? PRO 217 C 1 -9.71 # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details AA1 ? 4 ? AA2 ? 4 ? AA3 ? 4 ? AA4 ? 4 ? AA5 ? 5 ? AA6 ? 3 ? AA7 ? 5 ? AA8 ? 5 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense AA1 1 2 ? anti-parallel AA1 2 3 ? anti-parallel AA1 3 4 ? anti-parallel AA2 1 2 ? anti-parallel AA2 2 3 ? anti-parallel AA2 3 4 ? anti-parallel AA3 1 2 ? anti-parallel AA3 2 3 ? anti-parallel AA3 3 4 ? anti-parallel AA4 1 2 ? anti-parallel AA4 2 3 ? anti-parallel AA4 3 4 ? anti-parallel AA5 1 2 ? parallel AA5 2 3 ? anti-parallel AA5 3 4 ? anti-parallel AA5 4 5 ? anti-parallel AA6 1 2 ? anti-parallel AA6 2 3 ? anti-parallel AA7 1 2 ? anti-parallel AA7 2 3 ? anti-parallel AA7 3 4 ? anti-parallel AA7 4 5 ? anti-parallel AA8 1 2 ? anti-parallel AA8 2 3 ? anti-parallel AA8 3 4 ? anti-parallel AA8 4 5 ? 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 GLN A 6 ? SER A 7 ? GLN B 6 SER B 7 AA1 2 SER A 19 ? THR A 23 ? SER B 19 THR B 23 AA1 3 GLN A 77 ? LYS A 81 ? GLN B 77 LYS B 81 AA1 4 SER A 68 ? ASP A 72 ? SER B 68 ASP B 72 AA2 1 GLY A 44 ? TRP A 47 ? GLY B 44 TRP B 47 AA2 2 VAL A 34 ? SER A 40 ? VAL B 34 SER B 40 AA2 3 ALA A 91 ? SER A 98 ? ALA B 91 SER B 98 AA2 4 MET A 107 ? TRP A 110 ? MET B 107 TRP B 110 AA3 1 GLY A 44 ? TRP A 47 ? GLY B 44 TRP B 47 AA3 2 VAL A 34 ? SER A 40 ? VAL B 34 SER B 40 AA3 3 ALA A 91 ? SER A 98 ? ALA B 91 SER B 98 AA3 4 THR A 114 ? VAL A 116 ? THR B 114 VAL B 116 AA4 1 VAL B 4 ? SER B 7 ? VAL A 4 SER A 7 AA4 2 VAL B 19 ? THR B 25 ? VAL A 19 THR A 25 AA4 3 ASP B 70 ? ILE B 75 ? ASP A 70 ILE A 75 AA4 4 PHE B 62 ? GLY B 66 ? PHE A 62 GLY A 66 AA5 1 SER B 10 ? MET B 13 ? SER A 10 MET A 13 AA5 2 THR B 102 ? ILE B 106 ? THR A 102 ILE A 106 AA5 3 ASP B 85 ? LEU B 89 ? ASP A 85 LEU A 89 AA5 4 ASN B 34 ? GLN B 38 ? ASN A 34 GLN A 38 AA5 5 GLU B 45 ? ILE B 48 ? GLU A 45 ILE A 48 AA6 1 TRP C 22 ? ALA C 23 ? TRP C 140 ALA C 141 AA6 2 ALA C 5 ? SER C 10 ? ALA C 123 SER C 128 AA6 3 THR C 29 ? MET C 30 ? THR C 147 MET C 148 AA7 1 TRP C 22 ? ALA C 23 ? TRP C 140 ALA C 141 AA7 2 ALA C 5 ? SER C 10 ? ALA C 123 SER C 128 AA7 3 SER C 137 ? LYS C 142 ? SER C 255 LYS C 260 AA7 4 GLY C 49 ? SER C 61 ? GLY C 167 SER C 179 AA7 5 GLY C 101 ? LEU C 113 ? GLY C 219 LEU C 231 AA8 1 VAL C 35 ? GLU C 38 ? VAL C 153 GLU C 156 AA8 2 GLN C 42 ? VAL C 45 ? GLN C 160 VAL C 163 AA8 3 SER C 118 ? VAL C 123 ? SER C 236 VAL C 241 AA8 4 PHE C 71 ? LYS C 78 ? PHE C 189 LYS C 196 AA8 5 ARG C 89 ? ASN C 92 ? ARG C 207 ASN C 210 # loop_ _pdbx_struct_sheet_hbond.sheet_id _pdbx_struct_sheet_hbond.range_id_1 _pdbx_struct_sheet_hbond.range_id_2 _pdbx_struct_sheet_hbond.range_1_label_atom_id _pdbx_struct_sheet_hbond.range_1_label_comp_id _pdbx_struct_sheet_hbond.range_1_label_asym_id _pdbx_struct_sheet_hbond.range_1_label_seq_id _pdbx_struct_sheet_hbond.range_1_PDB_ins_code _pdbx_struct_sheet_hbond.range_1_auth_atom_id _pdbx_struct_sheet_hbond.range_1_auth_comp_id _pdbx_struct_sheet_hbond.range_1_auth_asym_id _pdbx_struct_sheet_hbond.range_1_auth_seq_id _pdbx_struct_sheet_hbond.range_2_label_atom_id _pdbx_struct_sheet_hbond.range_2_label_comp_id _pdbx_struct_sheet_hbond.range_2_label_asym_id _pdbx_struct_sheet_hbond.range_2_label_seq_id _pdbx_struct_sheet_hbond.range_2_PDB_ins_code _pdbx_struct_sheet_hbond.range_2_auth_atom_id _pdbx_struct_sheet_hbond.range_2_auth_comp_id _pdbx_struct_sheet_hbond.range_2_auth_asym_id _pdbx_struct_sheet_hbond.range_2_auth_seq_id AA1 1 2 N SER A 7 ? N SER B 7 O THR A 21 ? O THR B 21 AA1 2 3 N CYS A 22 ? N CYS B 22 O VAL A 78 ? O VAL B 78 AA1 3 4 O LYS A 81 ? O LYS B 81 N SER A 68 ? N SER B 68 AA2 1 2 O GLY A 44 ? O GLY B 44 N SER A 40 ? N SER B 40 AA2 2 3 N VAL A 37 ? N VAL B 37 O TYR A 94 ? O TYR B 94 AA2 3 4 N ARG A 97 ? N ARG B 97 O TYR A 109 ? O TYR B 109 AA3 1 2 O GLY A 44 ? O GLY B 44 N SER A 40 ? N SER B 40 AA3 2 3 N VAL A 37 ? N VAL B 37 O TYR A 94 ? O TYR B 94 AA3 3 4 N TYR A 93 ? N TYR B 93 O THR A 114 ? O THR B 114 AA4 1 2 N SER B 7 ? N SER A 7 O ARG B 22 ? O ARG A 22 AA4 2 3 N ILE B 21 ? N ILE A 21 O PHE B 73 ? O PHE A 73 AA4 3 4 O ALA B 74 ? O ALA A 74 N SER B 63 ? N SER A 63 AA5 1 2 N LEU B 11 ? N LEU A 11 O GLU B 105 ? O GLU A 105 AA5 2 3 O THR B 102 ? O THR A 102 N TYR B 86 ? N TYR A 86 AA5 3 4 O PHE B 87 ? O PHE A 87 N TYR B 36 ? N TYR A 36 AA5 4 5 N GLN B 37 ? N GLN A 37 O GLU B 45 ? O GLU A 45 AA6 1 2 O ALA C 23 ? O ALA C 141 N ILE C 9 ? N ILE C 127 AA6 2 3 N HIS C 7 ? N HIS C 125 O THR C 29 ? O THR C 147 AA7 1 2 O ALA C 23 ? O ALA C 141 N ILE C 9 ? N ILE C 127 AA7 2 3 N ALA C 6 ? N ALA C 124 O LEU C 140 ? O LEU C 258 AA7 3 4 O SER C 137 ? O SER C 255 N GLN C 56 ? N GLN C 174 AA7 4 5 N ALA C 55 ? N ALA C 173 O LEU C 107 ? O LEU C 225 AA8 1 2 N THR C 36 ? N THR C 154 O THR C 44 ? O THR C 162 AA8 2 3 N LEU C 43 ? N LEU C 161 O VAL C 119 ? O VAL C 237 AA8 3 4 O SER C 118 ? O SER C 236 N LYS C 78 ? N LYS C 196 AA8 4 5 N ALA C 73 ? N ALA C 191 O ALA C 90 ? O ALA C 208 # _pdbx_entry_details.entry_id 9I5N _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 N _pdbx_entry_details.has_protein_modification Y # 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 SER B 19 ? ? -116.79 77.63 2 1 SER A 26 ? ? -71.10 31.99 3 1 ASP A 31 ? ? -90.58 -62.23 4 1 MET A 33 ? ? -163.08 108.58 5 1 ASN A 52 ? ? 90.35 0.75 6 1 SER A 60 ? ? -76.13 23.37 7 1 THR C 134 ? ? -85.86 40.41 8 1 GLU C 142 ? ? -62.56 98.12 9 1 ASN C 150 ? ? -165.55 -161.64 10 1 GLU C 202 ? ? -58.31 108.36 11 1 LEU C 205 ? ? -79.93 -124.21 12 1 PRO C 233 ? ? -75.16 41.21 13 1 ASP C 243 ? ? -155.17 81.18 # _em_3d_fitting.id 1 _em_3d_fitting.entry_id 9I5N _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 ? # _em_3d_reconstruction.entry_id 9I5N _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 3.4 _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 311649 _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 POINT # _em_buffer.id 1 _em_buffer.specimen_id 1 _em_buffer.name ? _em_buffer.details ? _em_buffer.pH 7.5 # _em_entity_assembly.id 1 _em_entity_assembly.parent_id 0 _em_entity_assembly.source RECOMBINANT _em_entity_assembly.type COMPLEX _em_entity_assembly.name 'Incubated sample containing Fab fragment and recombinant human CD40 ligand.' _em_entity_assembly.details 'Buffer: 1x PBS, 1 mM MgCl2; 1:3 molar ratio, 2.47 uM rhCD40L and 7.42 uM Fab20' _em_entity_assembly.synonym ? _em_entity_assembly.oligomeric_details ? _em_entity_assembly.entity_id_list 1,2,3 # _em_imaging.entry_id 9I5N _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 2.7 _em_imaging.nominal_defocus_min 800 _em_imaging.nominal_defocus_max 1800 _em_imaging.calibrated_defocus_min ? _em_imaging.calibrated_defocus_max ? _em_imaging.tilt_angle_min ? _em_imaging.tilt_angle_max ? _em_imaging.nominal_magnification 130000 _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 'COMA FREE' _em_imaging.c2_aperture_diameter 50 _em_imaging.specimen_id 1 _em_imaging.cryogen NITROGEN # _em_sample_support.id 1 _em_sample_support.film_material ? _em_sample_support.method ? _em_sample_support.grid_material GOLD _em_sample_support.grid_mesh_size 300 _em_sample_support.grid_type 'Au-flat 1.2/1.3' _em_sample_support.details ? _em_sample_support.specimen_id 1 _em_sample_support.citation_id ? # _em_vitrification.entry_id 9I5N _em_vitrification.id 1 _em_vitrification.specimen_id 1 _em_vitrification.cryogen_name ETHANE _em_vitrification.humidity 99 _em_vitrification.temp ? _em_vitrification.chamber_temperature 277 _em_vitrification.instrument 'LEICA EM GP' _em_vitrification.method ? _em_vitrification.time_resolved_state ? _em_vitrification.citation_id ? _em_vitrification.details ? # _em_experiment.entry_id 9I5N _em_experiment.id 1 _em_experiment.reconstruction_method 'SINGLE PARTICLE' _em_experiment.aggregation_state PARTICLE _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 ARG N N N N 14 ARG CA C N S 15 ARG C C N N 16 ARG O O N N 17 ARG CB C N N 18 ARG CG C N N 19 ARG CD C N N 20 ARG NE N N N 21 ARG CZ C N N 22 ARG NH1 N N N 23 ARG NH2 N N N 24 ARG OXT O N N 25 ARG H H N N 26 ARG H2 H N N 27 ARG HA H N N 28 ARG HB2 H N N 29 ARG HB3 H N N 30 ARG HG2 H N N 31 ARG HG3 H N N 32 ARG HD2 H N N 33 ARG HD3 H N N 34 ARG HE H N N 35 ARG HH11 H N N 36 ARG HH12 H N N 37 ARG HH21 H N N 38 ARG HH22 H N N 39 ARG HXT H N N 40 ASN N N N N 41 ASN CA C N S 42 ASN C C N N 43 ASN O O N N 44 ASN CB C N N 45 ASN CG C N N 46 ASN OD1 O N N 47 ASN ND2 N N N 48 ASN OXT O N N 49 ASN H H N N 50 ASN H2 H N N 51 ASN HA H N N 52 ASN HB2 H N N 53 ASN HB3 H N N 54 ASN HD21 H N N 55 ASN HD22 H N N 56 ASN HXT H N N 57 ASP N N N N 58 ASP CA C N S 59 ASP C C N N 60 ASP O O N N 61 ASP CB C N N 62 ASP CG C N N 63 ASP OD1 O N N 64 ASP OD2 O N N 65 ASP OXT O N N 66 ASP H H N N 67 ASP H2 H N N 68 ASP HA H N N 69 ASP HB2 H N N 70 ASP HB3 H N N 71 ASP HD2 H N N 72 ASP HXT H N N 73 CYS N N N N 74 CYS CA C N R 75 CYS C C N N 76 CYS O O N N 77 CYS CB C N N 78 CYS SG S N N 79 CYS OXT O N N 80 CYS H H N N 81 CYS H2 H N N 82 CYS HA H N N 83 CYS HB2 H N N 84 CYS HB3 H N N 85 CYS HG H N N 86 CYS HXT H N N 87 GLN N N N N 88 GLN CA C N S 89 GLN C C N N 90 GLN O O N N 91 GLN CB C N N 92 GLN CG C N N 93 GLN CD C N N 94 GLN OE1 O N N 95 GLN NE2 N N N 96 GLN OXT O N N 97 GLN H H N N 98 GLN H2 H N N 99 GLN HA H N N 100 GLN HB2 H N N 101 GLN HB3 H N N 102 GLN HG2 H N N 103 GLN HG3 H N N 104 GLN HE21 H N N 105 GLN HE22 H N N 106 GLN HXT H N N 107 GLU N N N N 108 GLU CA C N S 109 GLU C C N N 110 GLU O O N N 111 GLU CB C N N 112 GLU CG C N N 113 GLU CD C N N 114 GLU OE1 O N N 115 GLU OE2 O N N 116 GLU OXT O N N 117 GLU H H N N 118 GLU H2 H N N 119 GLU HA H N N 120 GLU HB2 H N N 121 GLU HB3 H N N 122 GLU HG2 H N N 123 GLU HG3 H N N 124 GLU HE2 H N N 125 GLU HXT H N N 126 GLY N N N N 127 GLY CA C N N 128 GLY C C N N 129 GLY O O N N 130 GLY OXT O N N 131 GLY H H N N 132 GLY H2 H N N 133 GLY HA2 H N N 134 GLY HA3 H N N 135 GLY HXT H N N 136 HIS N N N N 137 HIS CA C N S 138 HIS C C N N 139 HIS O O N N 140 HIS CB C N N 141 HIS CG C Y N 142 HIS ND1 N Y N 143 HIS CD2 C Y N 144 HIS CE1 C Y N 145 HIS NE2 N Y N 146 HIS OXT O N N 147 HIS H H N N 148 HIS H2 H N N 149 HIS HA H N N 150 HIS HB2 H N N 151 HIS HB3 H N N 152 HIS HD1 H N N 153 HIS HD2 H N N 154 HIS HE1 H N N 155 HIS HE2 H N N 156 HIS HXT H N N 157 HOH O O N N 158 HOH H1 H N N 159 HOH H2 H N N 160 ILE N N N N 161 ILE CA C N S 162 ILE C C N N 163 ILE O O N N 164 ILE CB C N S 165 ILE CG1 C N N 166 ILE CG2 C N N 167 ILE CD1 C N N 168 ILE OXT O N N 169 ILE H H N N 170 ILE H2 H N N 171 ILE HA H N N 172 ILE HB H N N 173 ILE HG12 H N N 174 ILE HG13 H N N 175 ILE HG21 H N N 176 ILE HG22 H N N 177 ILE HG23 H N N 178 ILE HD11 H N N 179 ILE HD12 H N N 180 ILE HD13 H N N 181 ILE HXT H N N 182 LEU N N N N 183 LEU CA C N S 184 LEU C C N N 185 LEU O O N N 186 LEU CB C N N 187 LEU CG C N N 188 LEU CD1 C N N 189 LEU CD2 C N N 190 LEU OXT O N N 191 LEU H H N N 192 LEU H2 H N N 193 LEU HA H N N 194 LEU HB2 H N N 195 LEU HB3 H N N 196 LEU HG H N N 197 LEU HD11 H N N 198 LEU HD12 H N N 199 LEU HD13 H N N 200 LEU HD21 H N N 201 LEU HD22 H N N 202 LEU HD23 H N N 203 LEU HXT H N N 204 LYS N N N N 205 LYS CA C N S 206 LYS C C N N 207 LYS O O N N 208 LYS CB C N N 209 LYS CG C N N 210 LYS CD C N N 211 LYS CE C N N 212 LYS NZ N N N 213 LYS OXT O N N 214 LYS H H N N 215 LYS H2 H N N 216 LYS HA H N N 217 LYS HB2 H N N 218 LYS HB3 H N N 219 LYS HG2 H N N 220 LYS HG3 H N N 221 LYS HD2 H N N 222 LYS HD3 H N N 223 LYS HE2 H N N 224 LYS HE3 H N N 225 LYS HZ1 H N N 226 LYS HZ2 H N N 227 LYS HZ3 H N N 228 LYS HXT H N N 229 MET N N N N 230 MET CA C N S 231 MET C C N N 232 MET O O N N 233 MET CB C N N 234 MET CG C N N 235 MET SD S N N 236 MET CE C N N 237 MET OXT O N N 238 MET H H N N 239 MET H2 H N N 240 MET HA H N N 241 MET HB2 H N N 242 MET HB3 H N N 243 MET HG2 H N N 244 MET HG3 H N N 245 MET HE1 H N N 246 MET HE2 H N N 247 MET HE3 H N N 248 MET HXT H N N 249 MG MG MG N N 250 PHE N N N N 251 PHE CA C N S 252 PHE C C N N 253 PHE O O N N 254 PHE CB C N N 255 PHE CG C Y N 256 PHE CD1 C Y N 257 PHE CD2 C Y N 258 PHE CE1 C Y N 259 PHE CE2 C Y N 260 PHE CZ C Y N 261 PHE OXT O N N 262 PHE H H N N 263 PHE H2 H N N 264 PHE HA H N N 265 PHE HB2 H N N 266 PHE HB3 H N N 267 PHE HD1 H N N 268 PHE HD2 H N N 269 PHE HE1 H N N 270 PHE HE2 H N N 271 PHE HZ H N N 272 PHE HXT H N N 273 PRO N N N N 274 PRO CA C N S 275 PRO C C N N 276 PRO O O N N 277 PRO CB C N N 278 PRO CG C N N 279 PRO CD C N N 280 PRO OXT O N N 281 PRO H H N N 282 PRO HA H N N 283 PRO HB2 H N N 284 PRO HB3 H N N 285 PRO HG2 H N N 286 PRO HG3 H N N 287 PRO HD2 H N N 288 PRO HD3 H N N 289 PRO HXT H N N 290 SER N N N N 291 SER CA C N S 292 SER C C N N 293 SER O O N N 294 SER CB C N N 295 SER OG O N N 296 SER OXT O N N 297 SER H H N N 298 SER H2 H N N 299 SER HA H N N 300 SER HB2 H N N 301 SER HB3 H N N 302 SER HG H N N 303 SER HXT H N N 304 THR N N N N 305 THR CA C N S 306 THR C C N N 307 THR O O N N 308 THR CB C N R 309 THR OG1 O N N 310 THR CG2 C N N 311 THR OXT O N N 312 THR H H N N 313 THR H2 H N N 314 THR HA H N N 315 THR HB H N N 316 THR HG1 H N N 317 THR HG21 H N N 318 THR HG22 H N N 319 THR HG23 H N N 320 THR HXT H N N 321 TRP N N N N 322 TRP CA C N S 323 TRP C C N N 324 TRP O O N N 325 TRP CB C N N 326 TRP CG C Y N 327 TRP CD1 C Y N 328 TRP CD2 C Y N 329 TRP NE1 N Y N 330 TRP CE2 C Y N 331 TRP CE3 C Y N 332 TRP CZ2 C Y N 333 TRP CZ3 C Y N 334 TRP CH2 C Y N 335 TRP OXT O N N 336 TRP H H N N 337 TRP H2 H N N 338 TRP HA H N N 339 TRP HB2 H N N 340 TRP HB3 H N N 341 TRP HD1 H N N 342 TRP HE1 H N N 343 TRP HE3 H N N 344 TRP HZ2 H N N 345 TRP HZ3 H N N 346 TRP HH2 H N N 347 TRP HXT H N N 348 TYR N N N N 349 TYR CA C N S 350 TYR C C N N 351 TYR O O N N 352 TYR CB C N N 353 TYR CG C Y N 354 TYR CD1 C Y N 355 TYR CD2 C Y N 356 TYR CE1 C Y N 357 TYR CE2 C Y N 358 TYR CZ C Y N 359 TYR OH O N N 360 TYR OXT O N N 361 TYR H H N N 362 TYR H2 H N N 363 TYR HA H N N 364 TYR HB2 H N N 365 TYR HB3 H N N 366 TYR HD1 H N N 367 TYR HD2 H N N 368 TYR HE1 H N N 369 TYR HE2 H N N 370 TYR HH H N N 371 TYR HXT H N N 372 VAL N N N N 373 VAL CA C N S 374 VAL C C N N 375 VAL O O N N 376 VAL CB C N N 377 VAL CG1 C N N 378 VAL CG2 C N N 379 VAL OXT O N N 380 VAL H H N N 381 VAL H2 H N N 382 VAL HA H N N 383 VAL HB H N N 384 VAL HG11 H N N 385 VAL HG12 H N N 386 VAL HG13 H N N 387 VAL HG21 H N N 388 VAL HG22 H N N 389 VAL HG23 H N N 390 VAL HXT H N N 391 # 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 ARG N CA sing N N 13 ARG N H sing N N 14 ARG N H2 sing N N 15 ARG CA C sing N N 16 ARG CA CB sing N N 17 ARG CA HA sing N N 18 ARG C O doub N N 19 ARG C OXT sing N N 20 ARG CB CG sing N N 21 ARG CB HB2 sing N N 22 ARG CB HB3 sing N N 23 ARG CG CD sing N N 24 ARG CG HG2 sing N N 25 ARG CG HG3 sing N N 26 ARG CD NE sing N N 27 ARG CD HD2 sing N N 28 ARG CD HD3 sing N N 29 ARG NE CZ sing N N 30 ARG NE HE sing N N 31 ARG CZ NH1 sing N N 32 ARG CZ NH2 doub N N 33 ARG NH1 HH11 sing N N 34 ARG NH1 HH12 sing N N 35 ARG NH2 HH21 sing N N 36 ARG NH2 HH22 sing N N 37 ARG OXT HXT sing N N 38 ASN N CA sing N N 39 ASN N H sing N N 40 ASN N H2 sing N N 41 ASN CA C sing N N 42 ASN CA CB sing N N 43 ASN CA HA sing N N 44 ASN C O doub N N 45 ASN C OXT sing N N 46 ASN CB CG sing N N 47 ASN CB HB2 sing N N 48 ASN CB HB3 sing N N 49 ASN CG OD1 doub N N 50 ASN CG ND2 sing N N 51 ASN ND2 HD21 sing N N 52 ASN ND2 HD22 sing N N 53 ASN OXT HXT sing N N 54 ASP N CA sing N N 55 ASP N H sing N N 56 ASP N H2 sing N N 57 ASP CA C sing N N 58 ASP CA CB sing N N 59 ASP CA HA sing N N 60 ASP C O doub N N 61 ASP C OXT sing N N 62 ASP CB CG sing N N 63 ASP CB HB2 sing N N 64 ASP CB HB3 sing N N 65 ASP CG OD1 doub N N 66 ASP CG OD2 sing N N 67 ASP OD2 HD2 sing N N 68 ASP OXT HXT sing N N 69 CYS N CA sing N N 70 CYS N H sing N N 71 CYS N H2 sing N N 72 CYS CA C sing N N 73 CYS CA CB sing N N 74 CYS CA HA sing N N 75 CYS C O doub N N 76 CYS C OXT sing N N 77 CYS CB SG sing N N 78 CYS CB HB2 sing N N 79 CYS CB HB3 sing N N 80 CYS SG HG sing N N 81 CYS OXT HXT sing N N 82 GLN N CA sing N N 83 GLN N H sing N N 84 GLN N H2 sing N N 85 GLN CA C sing N N 86 GLN CA CB sing N N 87 GLN CA HA sing N N 88 GLN C O doub N N 89 GLN C OXT sing N N 90 GLN CB CG sing N N 91 GLN CB HB2 sing N N 92 GLN CB HB3 sing N N 93 GLN CG CD sing N N 94 GLN CG HG2 sing N N 95 GLN CG HG3 sing N N 96 GLN CD OE1 doub N N 97 GLN CD NE2 sing N N 98 GLN NE2 HE21 sing N N 99 GLN NE2 HE22 sing N N 100 GLN OXT HXT sing N N 101 GLU N CA sing N N 102 GLU N H sing N N 103 GLU N H2 sing N N 104 GLU CA C sing N N 105 GLU CA CB sing N N 106 GLU CA HA sing N N 107 GLU C O doub N N 108 GLU C OXT sing N N 109 GLU CB CG sing N N 110 GLU CB HB2 sing N N 111 GLU CB HB3 sing N N 112 GLU CG CD sing N N 113 GLU CG HG2 sing N N 114 GLU CG HG3 sing N N 115 GLU CD OE1 doub N N 116 GLU CD OE2 sing N N 117 GLU OE2 HE2 sing N N 118 GLU OXT HXT sing N N 119 GLY N CA sing N N 120 GLY N H sing N N 121 GLY N H2 sing N N 122 GLY CA C sing N N 123 GLY CA HA2 sing N N 124 GLY CA HA3 sing N N 125 GLY C O doub N N 126 GLY C OXT sing N N 127 GLY OXT HXT sing N N 128 HIS N CA sing N N 129 HIS N H sing N N 130 HIS N H2 sing N N 131 HIS CA C sing N N 132 HIS CA CB sing N N 133 HIS CA HA sing N N 134 HIS C O doub N N 135 HIS C OXT sing N N 136 HIS CB CG sing N N 137 HIS CB HB2 sing N N 138 HIS CB HB3 sing N N 139 HIS CG ND1 sing Y N 140 HIS CG CD2 doub Y N 141 HIS ND1 CE1 doub Y N 142 HIS ND1 HD1 sing N N 143 HIS CD2 NE2 sing Y N 144 HIS CD2 HD2 sing N N 145 HIS CE1 NE2 sing Y N 146 HIS CE1 HE1 sing N N 147 HIS NE2 HE2 sing N N 148 HIS OXT HXT sing N N 149 HOH O H1 sing N N 150 HOH O H2 sing N N 151 ILE N CA sing N N 152 ILE N H sing N N 153 ILE N H2 sing N N 154 ILE CA C sing N N 155 ILE CA CB sing N N 156 ILE CA HA sing N N 157 ILE C O doub N N 158 ILE C OXT sing N N 159 ILE CB CG1 sing N N 160 ILE CB CG2 sing N N 161 ILE CB HB sing N N 162 ILE CG1 CD1 sing N N 163 ILE CG1 HG12 sing N N 164 ILE CG1 HG13 sing N N 165 ILE CG2 HG21 sing N N 166 ILE CG2 HG22 sing N N 167 ILE CG2 HG23 sing N N 168 ILE CD1 HD11 sing N N 169 ILE CD1 HD12 sing N N 170 ILE CD1 HD13 sing N N 171 ILE OXT HXT sing N N 172 LEU N CA sing N N 173 LEU N H sing N N 174 LEU N H2 sing N N 175 LEU CA C sing N N 176 LEU CA CB sing N N 177 LEU CA HA sing N N 178 LEU C O doub N N 179 LEU C OXT sing N N 180 LEU CB CG sing N N 181 LEU CB HB2 sing N N 182 LEU CB HB3 sing N N 183 LEU CG CD1 sing N N 184 LEU CG CD2 sing N N 185 LEU CG HG sing N N 186 LEU CD1 HD11 sing N N 187 LEU CD1 HD12 sing N N 188 LEU CD1 HD13 sing N N 189 LEU CD2 HD21 sing N N 190 LEU CD2 HD22 sing N N 191 LEU CD2 HD23 sing N N 192 LEU OXT HXT sing N N 193 LYS N CA sing N N 194 LYS N H sing N N 195 LYS N H2 sing N N 196 LYS CA C sing N N 197 LYS CA CB sing N N 198 LYS CA HA sing N N 199 LYS C O doub N N 200 LYS C OXT sing N N 201 LYS CB CG sing N N 202 LYS CB HB2 sing N N 203 LYS CB HB3 sing N N 204 LYS CG CD sing N N 205 LYS CG HG2 sing N N 206 LYS CG HG3 sing N N 207 LYS CD CE sing N N 208 LYS CD HD2 sing N N 209 LYS CD HD3 sing N N 210 LYS CE NZ sing N N 211 LYS CE HE2 sing N N 212 LYS CE HE3 sing N N 213 LYS NZ HZ1 sing N N 214 LYS NZ HZ2 sing N N 215 LYS NZ HZ3 sing N N 216 LYS OXT HXT sing N N 217 MET N CA sing N N 218 MET N H sing N N 219 MET N H2 sing N N 220 MET CA C sing N N 221 MET CA CB sing N N 222 MET CA HA sing N N 223 MET C O doub N N 224 MET C OXT sing N N 225 MET CB CG sing N N 226 MET CB HB2 sing N N 227 MET CB HB3 sing N N 228 MET CG SD sing N N 229 MET CG HG2 sing N N 230 MET CG HG3 sing N N 231 MET SD CE sing N N 232 MET CE HE1 sing N N 233 MET CE HE2 sing N N 234 MET CE HE3 sing N N 235 MET OXT HXT sing N N 236 PHE N CA sing N N 237 PHE N H sing N N 238 PHE N H2 sing N N 239 PHE CA C sing N N 240 PHE CA CB sing N N 241 PHE CA HA sing N N 242 PHE C O doub N N 243 PHE C OXT sing N N 244 PHE CB CG sing N N 245 PHE CB HB2 sing N N 246 PHE CB HB3 sing N N 247 PHE CG CD1 doub Y N 248 PHE CG CD2 sing Y N 249 PHE CD1 CE1 sing Y N 250 PHE CD1 HD1 sing N N 251 PHE CD2 CE2 doub Y N 252 PHE CD2 HD2 sing N N 253 PHE CE1 CZ doub Y N 254 PHE CE1 HE1 sing N N 255 PHE CE2 CZ sing Y N 256 PHE CE2 HE2 sing N N 257 PHE CZ HZ sing N N 258 PHE OXT HXT sing N N 259 PRO N CA sing N N 260 PRO N CD sing N N 261 PRO N H sing N N 262 PRO CA C sing N N 263 PRO CA CB sing N N 264 PRO CA HA sing N N 265 PRO C O doub N N 266 PRO C OXT sing N N 267 PRO CB CG sing N N 268 PRO CB HB2 sing N N 269 PRO CB HB3 sing N N 270 PRO CG CD sing N N 271 PRO CG HG2 sing N N 272 PRO CG HG3 sing N N 273 PRO CD HD2 sing N N 274 PRO CD HD3 sing N N 275 PRO OXT HXT sing N N 276 SER N CA sing N N 277 SER N H sing N N 278 SER N H2 sing N N 279 SER CA C sing N N 280 SER CA CB sing N N 281 SER CA HA sing N N 282 SER C O doub N N 283 SER C OXT sing N N 284 SER CB OG sing N N 285 SER CB HB2 sing N N 286 SER CB HB3 sing N N 287 SER OG HG sing N N 288 SER OXT HXT sing N N 289 THR N CA sing N N 290 THR N H sing N N 291 THR N H2 sing N N 292 THR CA C sing N N 293 THR CA CB sing N N 294 THR CA HA sing N N 295 THR C O doub N N 296 THR C OXT sing N N 297 THR CB OG1 sing N N 298 THR CB CG2 sing N N 299 THR CB HB sing N N 300 THR OG1 HG1 sing N N 301 THR CG2 HG21 sing N N 302 THR CG2 HG22 sing N N 303 THR CG2 HG23 sing N N 304 THR OXT HXT sing N N 305 TRP N CA sing N N 306 TRP N H sing N N 307 TRP N H2 sing N N 308 TRP CA C sing N N 309 TRP CA CB sing N N 310 TRP CA HA sing N N 311 TRP C O doub N N 312 TRP C OXT sing N N 313 TRP CB CG sing N N 314 TRP CB HB2 sing N N 315 TRP CB HB3 sing N N 316 TRP CG CD1 doub Y N 317 TRP CG CD2 sing Y N 318 TRP CD1 NE1 sing Y N 319 TRP CD1 HD1 sing N N 320 TRP CD2 CE2 doub Y N 321 TRP CD2 CE3 sing Y N 322 TRP NE1 CE2 sing Y N 323 TRP NE1 HE1 sing N N 324 TRP CE2 CZ2 sing Y N 325 TRP CE3 CZ3 doub Y N 326 TRP CE3 HE3 sing N N 327 TRP CZ2 CH2 doub Y N 328 TRP CZ2 HZ2 sing N N 329 TRP CZ3 CH2 sing Y N 330 TRP CZ3 HZ3 sing N N 331 TRP CH2 HH2 sing N N 332 TRP OXT HXT sing N N 333 TYR N CA sing N N 334 TYR N H sing N N 335 TYR N H2 sing N N 336 TYR CA C sing N N 337 TYR CA CB sing N N 338 TYR CA HA sing N N 339 TYR C O doub N N 340 TYR C OXT sing N N 341 TYR CB CG sing N N 342 TYR CB HB2 sing N N 343 TYR CB HB3 sing N N 344 TYR CG CD1 doub Y N 345 TYR CG CD2 sing Y N 346 TYR CD1 CE1 sing Y N 347 TYR CD1 HD1 sing N N 348 TYR CD2 CE2 doub Y N 349 TYR CD2 HD2 sing N N 350 TYR CE1 CZ doub Y N 351 TYR CE1 HE1 sing N N 352 TYR CE2 CZ sing Y N 353 TYR CE2 HE2 sing N N 354 TYR CZ OH sing N N 355 TYR OH HH sing N N 356 TYR OXT HXT sing N N 357 VAL N CA sing N N 358 VAL N H sing N N 359 VAL N H2 sing N N 360 VAL CA C sing N N 361 VAL CA CB sing N N 362 VAL CA HA sing N N 363 VAL C O doub N N 364 VAL C OXT sing N N 365 VAL CB CG1 sing N N 366 VAL CB CG2 sing N N 367 VAL CB HB sing N N 368 VAL CG1 HG11 sing N N 369 VAL CG1 HG12 sing N N 370 VAL CG1 HG13 sing N N 371 VAL CG2 HG21 sing N N 372 VAL CG2 HG22 sing N N 373 VAL CG2 HG23 sing N N 374 VAL OXT HXT sing N N 375 # _em_admin.current_status REL _em_admin.deposition_date 2025-01-28 _em_admin.deposition_site PDBE _em_admin.entry_id 9I5N _em_admin.last_update 2026-02-25 _em_admin.map_release_date 2026-02-25 _em_admin.title 'Single particle cryo electron microscopy of a Fab fragment bound to recombinant human CD40 ligand' # loop_ _em_buffer_component.buffer_id _em_buffer_component.concentration _em_buffer_component.concentration_units _em_buffer_component.formula _em_buffer_component.id _em_buffer_component.name 1 1 x PBS 1 'Phosphate-buffered saline' 1 1 mM MgCl2 2 'magnesium chloride' # _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 10090 _em_entity_assembly_naturalsource.organism 'Mus musculus' _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_entity_assembly_recombinant.cell HEK293F _em_entity_assembly_recombinant.entity_assembly_id 1 _em_entity_assembly_recombinant.id 2 _em_entity_assembly_recombinant.ncbi_tax_id 9606 _em_entity_assembly_recombinant.organism 'Homo sapiens' _em_entity_assembly_recombinant.plasmid ? _em_entity_assembly_recombinant.strain ? # _em_image_processing.details ? _em_image_processing.id 1 _em_image_processing.image_recording_id 1 # _em_image_recording.average_exposure_time 1.5 _em_image_recording.avg_electron_dose_per_subtomogram ? _em_image_recording.avg_electron_dose_per_image 60 _em_image_recording.details ;1680 movies recorded from one grid and 3993 movies recorded from other grid. After curation 4307 were used. ; _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 2 _em_image_recording.num_real_images 5673 # _em_imaging_optics.chr_aberration_corrector ? _em_imaging_optics.energyfilter_lower ? _em_imaging_optics.energyfilter_slit_width 20 _em_imaging_optics.energyfilter_name 'GIF Bioquantum' _em_imaging_optics.energyfilter_upper ? _em_imaging_optics.id 1 _em_imaging_optics.imaging_id 1 _em_imaging_optics.phase_plate ? _em_imaging_optics.sph_aberration_corrector ? _em_imaging_optics.details ? # 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 'PARTICLE SELECTION' Topaz 1 1 ? ? cryoSPARC 4.6.0 'IMAGE ACQUISITION' ? 2 ? ? 1 EPU ? MASKING ? 3 ? ? ? ? ? 'CTF CORRECTION' ? 4 1 ? ? cryoSPARC 4.6.0 'LAYERLINE INDEXING' ? 5 ? ? ? ? ? 'DIFFRACTION INDEXING' ? 6 ? ? ? ? ? 'MODEL FITTING' ? 7 ? 1 ? ISOLDE ? OTHER ? 8 ? ? ? ? ? 'INITIAL EULER ASSIGNMENT' ? 9 1 ? ? ? ? 'FINAL EULER ASSIGNMENT' ? 10 1 ? ? ? ? CLASSIFICATION ? 11 1 ? ? ? ? RECONSTRUCTION ? 12 1 ? ? ? ? 'MODEL REFINEMENT' ? 13 ? 1 ? PHENIX 1.21_5207 # _em_specimen.concentration ? _em_specimen.details ? _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 # _pdbx_audit_support.funding_organization 'Novo Nordisk Foundation' _pdbx_audit_support.country Denmark _pdbx_audit_support.grant_number NNF21OC0070452 _pdbx_audit_support.ordinal 1 # _atom_sites.entry_id 9I5N _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 MG N O S # loop_ #