data_3BIB # _entry.id 3BIB # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.398 _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 3BIB pdb_00003bib 10.2210/pdb3bib/pdb RCSB RCSB045556 ? ? WWPDB D_1000045556 ? ? # 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 2008-01-01 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2024-04-03 4 'Structure model' 1 3 2024-10-30 # _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' 'Version format compliance' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' 5 3 'Structure model' 'Refinement description' 6 4 'Structure model' 'Structure summary' # 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' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_initial_refinement_model 5 3 'Structure model' struct_ref_seq_dif 6 3 'Structure model' struct_site 7 4 'Structure model' pdbx_entry_details 8 4 'Structure model' pdbx_modification_feature # 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' '_struct_ref_seq_dif.details' 4 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 5 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 6 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 3BIB _pdbx_database_status.recvd_initial_deposition_date 2007-11-30 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_cs ? _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _pdbx_database_related.db_name _pdbx_database_related.db_id _pdbx_database_related.details _pdbx_database_related.content_type PDB 2or8 Tim-1 unspecified PDB 2or7 Tim-2 unspecified PDB 2oyp Tim-3 unspecified PDB 3BI9 . unspecified PDB 3BIA . unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Santiago, C.' 1 'Ballesteros, A.' 2 'Kaplan, G.G.' 3 'Freeman, G.J.' 4 'Casasnovas, J.M.' 5 # _citation.id primary _citation.title 'Structures of T Cell Immunoglobulin Mucin Protein 4 Show a Metal-Ion-Dependent Ligand Binding Site where Phosphatidylserine Binds.' _citation.journal_abbrev Immunity _citation.journal_volume 27 _citation.page_first 941 _citation.page_last 951 _citation.year 2007 _citation.journal_id_ASTM IUNIEH _citation.country US _citation.journal_id_ISSN 1074-7613 _citation.journal_id_CSD 2048 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 18083575 _citation.pdbx_database_id_DOI 10.1016/j.immuni.2007.11.008 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Santiago, C.' 1 ? primary 'Ballesteros, A.' 2 ? primary 'Martinez-Munoz, L.' 3 ? primary 'Mellado, M.' 4 ? primary 'Kaplan, G.G.' 5 ? primary 'Freeman, G.J.' 6 ? primary 'Casasnovas, J.M.' 7 ? # 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 'T-cell immunoglobulin and mucin domain-containing protein 4' 13061.049 1 ? ? 'N-TERMINAL CYS-RICH DOMAIN' ? 2 non-polymer syn 'SODIUM ION' 22.990 1 ? ? ? ? 3 non-polymer syn 1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE 455.437 1 ? ? ? ? 4 water nat water 18.015 47 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name 'TIMD-4, T-cell membrane protein 4, TIM-4, Spleen, mucin- containing, knockout of lymphotoxin protein, SMUCKLER' # _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 ;MSEDTIIGFLGQPVTLPCHYLSWSQSRNSMCWGKGSCPNSKCNAELLRTDGTRIISRKSTKYTLLGKVQFGEVSLTISNT NRGDSGVYCCRIEVPGWFNDVKKNVRLELRRALVPR ; _entity_poly.pdbx_seq_one_letter_code_can ;MSEDTIIGFLGQPVTLPCHYLSWSQSRNSMCWGKGSCPNSKCNAELLRTDGTRIISRKSTKYTLLGKVQFGEVSLTISNT NRGDSGVYCCRIEVPGWFNDVKKNVRLELRRALVPR ; _entity_poly.pdbx_strand_id X _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'SODIUM ION' NA 3 1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE PSF 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 MET n 1 2 SER n 1 3 GLU n 1 4 ASP n 1 5 THR n 1 6 ILE n 1 7 ILE n 1 8 GLY n 1 9 PHE n 1 10 LEU n 1 11 GLY n 1 12 GLN n 1 13 PRO n 1 14 VAL n 1 15 THR n 1 16 LEU n 1 17 PRO n 1 18 CYS n 1 19 HIS n 1 20 TYR n 1 21 LEU n 1 22 SER n 1 23 TRP n 1 24 SER n 1 25 GLN n 1 26 SER n 1 27 ARG n 1 28 ASN n 1 29 SER n 1 30 MET n 1 31 CYS n 1 32 TRP n 1 33 GLY n 1 34 LYS n 1 35 GLY n 1 36 SER n 1 37 CYS n 1 38 PRO n 1 39 ASN n 1 40 SER n 1 41 LYS n 1 42 CYS n 1 43 ASN n 1 44 ALA n 1 45 GLU n 1 46 LEU n 1 47 LEU n 1 48 ARG n 1 49 THR n 1 50 ASP n 1 51 GLY n 1 52 THR n 1 53 ARG n 1 54 ILE n 1 55 ILE n 1 56 SER n 1 57 ARG n 1 58 LYS n 1 59 SER n 1 60 THR n 1 61 LYS n 1 62 TYR n 1 63 THR n 1 64 LEU n 1 65 LEU n 1 66 GLY n 1 67 LYS n 1 68 VAL n 1 69 GLN n 1 70 PHE n 1 71 GLY n 1 72 GLU n 1 73 VAL n 1 74 SER n 1 75 LEU n 1 76 THR n 1 77 ILE n 1 78 SER n 1 79 ASN n 1 80 THR n 1 81 ASN n 1 82 ARG n 1 83 GLY n 1 84 ASP n 1 85 SER n 1 86 GLY n 1 87 VAL n 1 88 TYR n 1 89 CYS n 1 90 CYS n 1 91 ARG n 1 92 ILE n 1 93 GLU n 1 94 VAL n 1 95 PRO n 1 96 GLY n 1 97 TRP n 1 98 PHE n 1 99 ASN n 1 100 ASP n 1 101 VAL n 1 102 LYS n 1 103 LYS n 1 104 ASN n 1 105 VAL n 1 106 ARG n 1 107 LEU n 1 108 GLU n 1 109 LEU n 1 110 ARG n 1 111 ARG n 1 112 ALA n 1 113 LEU n 1 114 VAL n 1 115 PRO n 1 116 ARG n # _entity_src_gen.entity_id 1 _entity_src_gen.pdbx_src_id 1 _entity_src_gen.pdbx_alt_source_flag sample _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 'house mouse' _entity_src_gen.gene_src_genus Mus _entity_src_gen.pdbx_gene_src_gene 'Timd4, Tim4' _entity_src_gen.gene_src_species ? _entity_src_gen.gene_src_strain 'KNOWLES SOLTER, C57BL/6J' _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 'Mus musculus' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 10090 _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 'Escherichia coli BL21' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 511693 _entity_src_gen.host_org_genus Escherichia _entity_src_gen.pdbx_host_org_gene ? _entity_src_gen.pdbx_host_org_organ ? _entity_src_gen.host_org_species 'Escherichia coli' _entity_src_gen.pdbx_host_org_tissue ? _entity_src_gen.pdbx_host_org_tissue_fraction ? _entity_src_gen.pdbx_host_org_strain BL21 _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 PLASMID _entity_src_gen.pdbx_host_org_vector ? _entity_src_gen.host_org_details ? _entity_src_gen.expression_system_id ? _entity_src_gen.plasmid_name 'pET27B(+)' _entity_src_gen.plasmid_details ? _entity_src_gen.pdbx_description ? # 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 NA non-polymer . 'SODIUM ION' ? 'Na 1' 22.990 PHE 'L-peptide linking' y PHENYLALANINE ? 'C9 H11 N O2' 165.189 PRO 'L-peptide linking' y PROLINE ? 'C5 H9 N O2' 115.130 PSF non-polymer . 1,2-DICAPROYL-SN-PHOSPHATIDYL-L-SERINE PHOSPHATIDYLSERINE 'C18 H34 N O10 P' 455.437 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 MET 1 1 ? ? ? X . n A 1 2 SER 2 2 ? ? ? X . n A 1 3 GLU 3 3 ? ? ? X . n A 1 4 ASP 4 4 4 ASP ASP X . n A 1 5 THR 5 5 5 THR THR X . n A 1 6 ILE 6 6 6 ILE ILE X . n A 1 7 ILE 7 7 7 ILE ILE X . n A 1 8 GLY 8 8 8 GLY GLY X . n A 1 9 PHE 9 9 9 PHE PHE X . n A 1 10 LEU 10 10 10 LEU LEU X . n A 1 11 GLY 11 11 11 GLY GLY X . n A 1 12 GLN 12 12 12 GLN GLN X . n A 1 13 PRO 13 13 13 PRO PRO X . n A 1 14 VAL 14 14 14 VAL VAL X . n A 1 15 THR 15 15 15 THR THR X . n A 1 16 LEU 16 16 16 LEU LEU X . n A 1 17 PRO 17 17 17 PRO PRO X . n A 1 18 CYS 18 18 18 CYS CYS X . n A 1 19 HIS 19 19 19 HIS HIS X . n A 1 20 TYR 20 20 20 TYR TYR X . n A 1 21 LEU 21 21 21 LEU LEU X . n A 1 22 SER 22 22 22 SER SER X . n A 1 23 TRP 23 23 23 TRP TRP X . n A 1 24 SER 24 24 24 SER SER X . n A 1 25 GLN 25 25 25 GLN GLN X . n A 1 26 SER 26 26 26 SER SER X . n A 1 27 ARG 27 27 27 ARG ARG X . n A 1 28 ASN 28 28 28 ASN ASN X . n A 1 29 SER 29 29 29 SER SER X . n A 1 30 MET 30 30 30 MET MET X . n A 1 31 CYS 31 31 31 CYS CYS X . n A 1 32 TRP 32 32 32 TRP TRP X . n A 1 33 GLY 33 33 33 GLY GLY X . n A 1 34 LYS 34 34 34 LYS LYS X . n A 1 35 GLY 35 35 35 GLY GLY X . n A 1 36 SER 36 36 36 SER SER X . n A 1 37 CYS 37 37 37 CYS CYS X . n A 1 38 PRO 38 38 38 PRO PRO X . n A 1 39 ASN 39 39 39 ASN ASN X . n A 1 40 SER 40 40 40 SER SER X . n A 1 41 LYS 41 41 41 LYS LYS X . n A 1 42 CYS 42 42 42 CYS CYS X . n A 1 43 ASN 43 43 43 ASN ASN X . n A 1 44 ALA 44 44 44 ALA ALA X . n A 1 45 GLU 45 45 45 GLU GLU X . n A 1 46 LEU 46 46 46 LEU LEU X . n A 1 47 LEU 47 47 47 LEU LEU X . n A 1 48 ARG 48 48 48 ARG ARG X . n A 1 49 THR 49 49 49 THR THR X . n A 1 50 ASP 50 50 50 ASP ASP X . n A 1 51 GLY 51 51 51 GLY GLY X . n A 1 52 THR 52 52 52 THR THR X . n A 1 53 ARG 53 53 53 ARG ARG X . n A 1 54 ILE 54 54 54 ILE ILE X . n A 1 55 ILE 55 55 55 ILE ILE X . n A 1 56 SER 56 56 56 SER SER X . n A 1 57 ARG 57 57 57 ARG ARG X . n A 1 58 LYS 58 58 58 LYS LYS X . n A 1 59 SER 59 59 59 SER SER X . n A 1 60 THR 60 60 60 THR THR X . n A 1 61 LYS 61 61 61 LYS LYS X . n A 1 62 TYR 62 62 62 TYR TYR X . n A 1 63 THR 63 63 63 THR THR X . n A 1 64 LEU 64 64 64 LEU LEU X . n A 1 65 LEU 65 65 65 LEU LEU X . n A 1 66 GLY 66 66 66 GLY GLY X . n A 1 67 LYS 67 67 67 LYS LYS X . n A 1 68 VAL 68 68 68 VAL VAL X . n A 1 69 GLN 69 69 69 GLN GLN X . n A 1 70 PHE 70 70 70 PHE PHE X . n A 1 71 GLY 71 71 71 GLY GLY X . n A 1 72 GLU 72 72 72 GLU GLU X . n A 1 73 VAL 73 73 73 VAL VAL X . n A 1 74 SER 74 74 74 SER SER X . n A 1 75 LEU 75 75 75 LEU LEU X . n A 1 76 THR 76 76 76 THR THR X . n A 1 77 ILE 77 77 77 ILE ILE X . n A 1 78 SER 78 78 78 SER SER X . n A 1 79 ASN 79 79 79 ASN ASN X . n A 1 80 THR 80 80 80 THR THR X . n A 1 81 ASN 81 81 81 ASN ASN X . n A 1 82 ARG 82 82 82 ARG ARG X . n A 1 83 GLY 83 83 83 GLY GLY X . n A 1 84 ASP 84 84 84 ASP ASP X . n A 1 85 SER 85 85 85 SER SER X . n A 1 86 GLY 86 86 86 GLY GLY X . n A 1 87 VAL 87 87 87 VAL VAL X . n A 1 88 TYR 88 88 88 TYR TYR X . n A 1 89 CYS 89 89 89 CYS CYS X . n A 1 90 CYS 90 90 90 CYS CYS X . n A 1 91 ARG 91 91 91 ARG ARG X . n A 1 92 ILE 92 92 92 ILE ILE X . n A 1 93 GLU 93 93 93 GLU GLU X . n A 1 94 VAL 94 94 94 VAL VAL X . n A 1 95 PRO 95 95 95 PRO PRO X . n A 1 96 GLY 96 96 96 GLY GLY X . n A 1 97 TRP 97 97 97 TRP TRP X . n A 1 98 PHE 98 98 98 PHE PHE X . n A 1 99 ASN 99 99 99 ASN ASN X . n A 1 100 ASP 100 100 100 ASP ASP X . n A 1 101 VAL 101 101 101 VAL VAL X . n A 1 102 LYS 102 102 102 LYS LYS X . n A 1 103 LYS 103 103 103 LYS LYS X . n A 1 104 ASN 104 104 104 ASN ASN X . n A 1 105 VAL 105 105 105 VAL VAL X . n A 1 106 ARG 106 106 106 ARG ARG X . n A 1 107 LEU 107 107 107 LEU LEU X . n A 1 108 GLU 108 108 108 GLU GLU X . n A 1 109 LEU 109 109 109 LEU LEU X . n A 1 110 ARG 110 110 110 ARG ARG X . n A 1 111 ARG 111 111 111 ARG ARG X . n A 1 112 ALA 112 112 112 ALA ALA X . n A 1 113 LEU 113 113 ? ? ? X . n A 1 114 VAL 114 114 ? ? ? X . n A 1 115 PRO 115 115 ? ? ? X . n A 1 116 ARG 116 116 ? ? ? X . 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 B 2 NA 1 117 117 NA NA X . C 3 PSF 1 118 118 PSF PSF X . D 4 HOH 1 119 119 HOH HOH X . D 4 HOH 2 120 120 HOH HOH X . D 4 HOH 3 121 121 HOH HOH X . D 4 HOH 4 122 122 HOH HOH X . D 4 HOH 5 123 123 HOH HOH X . D 4 HOH 6 124 124 HOH HOH X . D 4 HOH 7 125 125 HOH HOH X . D 4 HOH 8 126 126 HOH HOH X . D 4 HOH 9 127 127 HOH HOH X . D 4 HOH 10 128 128 HOH HOH X . D 4 HOH 11 129 129 HOH HOH X . D 4 HOH 12 130 130 HOH HOH X . D 4 HOH 13 131 131 HOH HOH X . D 4 HOH 14 132 132 HOH HOH X . D 4 HOH 15 133 133 HOH HOH X . D 4 HOH 16 134 134 HOH HOH X . D 4 HOH 17 135 135 HOH HOH X . D 4 HOH 18 136 136 HOH HOH X . D 4 HOH 19 137 137 HOH HOH X . D 4 HOH 20 138 138 HOH HOH X . D 4 HOH 21 139 139 HOH HOH X . D 4 HOH 22 140 140 HOH HOH X . D 4 HOH 23 141 141 HOH HOH X . D 4 HOH 24 142 142 HOH HOH X . D 4 HOH 25 143 143 HOH HOH X . D 4 HOH 26 144 144 HOH HOH X . D 4 HOH 27 145 145 HOH HOH X . D 4 HOH 28 146 146 HOH HOH X . D 4 HOH 29 147 147 HOH HOH X . D 4 HOH 30 148 148 HOH HOH X . D 4 HOH 31 149 149 HOH HOH X . D 4 HOH 32 150 150 HOH HOH X . D 4 HOH 33 151 151 HOH HOH X . D 4 HOH 34 152 152 HOH HOH X . D 4 HOH 35 153 153 HOH HOH X . D 4 HOH 36 154 154 HOH HOH X . D 4 HOH 37 155 155 HOH HOH X . D 4 HOH 38 156 156 HOH HOH X . D 4 HOH 39 157 157 HOH HOH X . D 4 HOH 40 158 158 HOH HOH X . D 4 HOH 41 159 159 HOH HOH X . D 4 HOH 42 160 160 HOH HOH X . D 4 HOH 43 161 161 HOH HOH X . D 4 HOH 44 162 162 HOH HOH X . D 4 HOH 45 163 163 HOH HOH X . D 4 HOH 46 164 164 HOH HOH X . D 4 HOH 47 165 165 HOH HOH X . # loop_ _pdbx_unobs_or_zero_occ_atoms.id _pdbx_unobs_or_zero_occ_atoms.PDB_model_num _pdbx_unobs_or_zero_occ_atoms.polymer_flag _pdbx_unobs_or_zero_occ_atoms.occupancy_flag _pdbx_unobs_or_zero_occ_atoms.auth_asym_id _pdbx_unobs_or_zero_occ_atoms.auth_comp_id _pdbx_unobs_or_zero_occ_atoms.auth_seq_id _pdbx_unobs_or_zero_occ_atoms.PDB_ins_code _pdbx_unobs_or_zero_occ_atoms.auth_atom_id _pdbx_unobs_or_zero_occ_atoms.label_alt_id _pdbx_unobs_or_zero_occ_atoms.label_asym_id _pdbx_unobs_or_zero_occ_atoms.label_comp_id _pdbx_unobs_or_zero_occ_atoms.label_seq_id _pdbx_unobs_or_zero_occ_atoms.label_atom_id 1 1 N 1 X PSF 118 ? C7 ? C PSF 1 C7 2 1 N 1 X PSF 118 ? C8 ? C PSF 1 C8 3 1 N 1 X PSF 118 ? C9 ? C PSF 1 C9 4 1 N 1 X PSF 118 ? C10 ? C PSF 1 C10 # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal REFMAC refinement 5.2.0005 ? 1 MxCuBE 'data collection' . ? 2 XDS 'data reduction' . ? 3 SCALA 'data scaling' . ? 4 PHASER phasing . ? 5 # _cell.entry_id 3BIB _cell.length_a 66.260 _cell.length_b 66.260 _cell.length_c 139.390 _cell.angle_alpha 90.00 _cell.angle_beta 90.00 _cell.angle_gamma 120.00 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.entry_id 3BIB _symmetry.space_group_name_H-M 'P 63 2 2' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? # _exptl.entry_id 3BIB _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 3.38 _exptl_crystal.density_percent_sol 63.63 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, SITTING DROP' _exptl_crystal_grow.temp 294 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 5.6 _exptl_crystal_grow.pdbx_details ;0.1 M SODIUM CITRATE, 10 % JEFFAMINE, 10 mM FeCl3. PROTEIN PRE-INCUBATED WITH 5 mM 1,2 DICAPROYL-sn-GLYCERO-3-(PHOSPHO-L-SERINE) AND 5 mM CaCl2, pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 294K ; _exptl_crystal_grow.pdbx_pH_range . # _diffrn.id 1 _diffrn.ambient_temp 100 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type 'ADSC QUANTUM 315' _diffrn_detector.pdbx_collection_date 2006-11-30 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.monochromator ? _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 0.97925 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'ESRF BEAMLINE ID23-1' _diffrn_source.pdbx_synchrotron_site ESRF _diffrn_source.pdbx_synchrotron_beamline ID23-1 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 0.97925 # _reflns.entry_id 3BIB _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 25 _reflns.d_resolution_high 2.5 _reflns.number_obs 6799 _reflns.number_all 6801 _reflns.percent_possible_obs 99.9 _reflns.pdbx_Rmerge_I_obs 0.057 _reflns.pdbx_Rsym_value 5.7 _reflns.pdbx_netI_over_sigmaI 9.3 _reflns.B_iso_Wilson_estimate ? _reflns.pdbx_redundancy 11 _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # _reflns_shell.d_res_high 2.5 _reflns_shell.d_res_low 2.64 _reflns_shell.percent_possible_all 100 _reflns_shell.Rmerge_I_obs 0.168 _reflns_shell.pdbx_Rsym_value ? _reflns_shell.meanI_over_sigI_obs 4.4 _reflns_shell.pdbx_redundancy 10.2 _reflns_shell.percent_possible_obs ? _reflns_shell.number_unique_all ? _reflns_shell.number_measured_all ? _reflns_shell.number_measured_obs ? _reflns_shell.number_unique_obs ? _reflns_shell.pdbx_chi_squared ? _reflns_shell.pdbx_diffrn_id ? _reflns_shell.pdbx_ordinal 1 # _refine.entry_id 3BIB _refine.ls_number_reflns_obs 6421 _refine.ls_number_reflns_all ? _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F ? _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 15.00 _refine.ls_d_res_high 2.50 _refine.ls_percent_reflns_obs 99.93 _refine.ls_R_factor_obs 0.22082 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.21943 _refine.ls_R_factor_R_free 0.24831 _refine.ls_R_factor_R_free_error ? _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 4.8 _refine.ls_number_reflns_R_free 321 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc 0.928 _refine.correlation_coeff_Fo_to_Fc_free 0.909 _refine.B_iso_mean 36.021 _refine.aniso_B[1][1] 1.34 _refine.aniso_B[2][2] 1.34 _refine.aniso_B[3][3] -2.01 _refine.aniso_B[1][2] 0.67 _refine.aniso_B[1][3] 0.00 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'BABINET MODEL WITH MASK' _refine.solvent_model_param_ksol ? _refine.solvent_model_param_bsol ? _refine.pdbx_solvent_vdw_probe_radii 1.20 _refine.pdbx_solvent_ion_probe_radii 0.80 _refine.pdbx_solvent_shrinkage_radii 0.80 _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS' _refine.pdbx_starting_model 'TIM-2 HOMOLOGOUS MODEL' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model ? _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.pdbx_R_Free_selection_details RANDOM _refine.pdbx_overall_ESU_R ? _refine.pdbx_overall_ESU_R_Free 0.240 _refine.overall_SU_ML 0.169 _refine.overall_SU_B 16.357 _refine.ls_redundancy_reflns_obs ? _refine.B_iso_min ? _refine.B_iso_max ? _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.ls_wR_factor_R_free ? _refine.ls_wR_factor_R_work ? _refine.overall_FOM_free_R_set ? _refine.overall_FOM_work_R_set ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_phase_error ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 855 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 27 _refine_hist.number_atoms_solvent 47 _refine_hist.number_atoms_total 929 _refine_hist.d_res_high 2.50 _refine_hist.d_res_low 15.00 # loop_ _refine_ls_restr.type _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.number _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 0.008 0.022 ? 899 'X-RAY DIFFRACTION' ? r_bond_other_d ? ? ? ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 1.114 1.979 ? 1213 'X-RAY DIFFRACTION' ? r_angle_other_deg ? ? ? ? 'X-RAY DIFFRACTION' ? r_dihedral_angle_1_deg 6.214 5.000 ? 108 'X-RAY DIFFRACTION' ? r_dihedral_angle_2_deg 32.398 22.432 ? 37 'X-RAY DIFFRACTION' ? r_dihedral_angle_3_deg 14.926 15.000 ? 157 'X-RAY DIFFRACTION' ? r_dihedral_angle_4_deg 18.573 15.000 ? 9 'X-RAY DIFFRACTION' ? r_chiral_restr 0.074 0.200 ? 132 'X-RAY DIFFRACTION' ? r_gen_planes_refined 0.003 0.020 ? 658 'X-RAY DIFFRACTION' ? r_gen_planes_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbd_refined 0.189 0.200 ? 338 'X-RAY DIFFRACTION' ? r_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_nbtor_refined 0.298 0.200 ? 598 'X-RAY DIFFRACTION' ? r_nbtor_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_refined 0.110 0.200 ? 46 'X-RAY DIFFRACTION' ? r_xyhbond_nbd_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_metal_ion_refined 0.148 0.200 ? 2 'X-RAY DIFFRACTION' ? r_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_vdw_refined 0.165 0.200 ? 23 'X-RAY DIFFRACTION' ? r_symmetry_vdw_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_hbond_refined 0.111 0.200 ? 5 'X-RAY DIFFRACTION' ? r_symmetry_hbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_refined ? ? ? ? 'X-RAY DIFFRACTION' ? r_symmetry_metal_ion_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcbond_it 0.640 1.500 ? 543 'X-RAY DIFFRACTION' ? r_mcbond_other ? ? ? ? 'X-RAY DIFFRACTION' ? r_mcangle_it 1.115 2.000 ? 876 'X-RAY DIFFRACTION' ? r_scbond_it 5.219 3.000 ? 374 'X-RAY DIFFRACTION' ? r_scangle_it 4.125 4.500 ? 337 'X-RAY DIFFRACTION' ? r_rigid_bond_restr 6.153 3.000 ? 917 'X-RAY DIFFRACTION' ? r_sphericity_free 2.580 3.000 ? 48 'X-RAY DIFFRACTION' ? r_sphericity_bonded 2.283 3.000 ? 881 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.d_res_high 2.500 _refine_ls_shell.d_res_low 2.563 _refine_ls_shell.number_reflns_R_work 450 _refine_ls_shell.R_factor_R_work 0.224 _refine_ls_shell.percent_reflns_obs 100.00 _refine_ls_shell.R_factor_R_free 0.273 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 23 _refine_ls_shell.number_reflns_all ? _refine_ls_shell.R_factor_all ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 3BIB _database_PDB_matrix.origx[1][1] 1.000000 _database_PDB_matrix.origx[1][2] 0.000000 _database_PDB_matrix.origx[1][3] 0.000000 _database_PDB_matrix.origx[2][1] 0.000000 _database_PDB_matrix.origx[2][2] 1.000000 _database_PDB_matrix.origx[2][3] 0.000000 _database_PDB_matrix.origx[3][1] 0.000000 _database_PDB_matrix.origx[3][2] 0.000000 _database_PDB_matrix.origx[3][3] 1.000000 _database_PDB_matrix.origx_vector[1] 0.00000 _database_PDB_matrix.origx_vector[2] 0.00000 _database_PDB_matrix.origx_vector[3] 0.00000 # _struct.entry_id 3BIB _struct.title 'Tim-4 in complex with phosphatidylserine' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3BIB _struct_keywords.pdbx_keywords 'IMMUNE SYSTEM' _struct_keywords.text ;BETA BARREL, IMMUNOGLOBULIN FOLD, IgV DOMAIN, TIM, Glycoprotein, Immunoglobulin domain, Membrane, Polymorphism, Transmembrane, 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 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code TIMD4_MOUSE _struct_ref.pdbx_db_accession Q6U7R4 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;SEDTIIGFLGQPVTLPCHYLSWSQSRNSMCWGKGSCPNSKCNAELLRTDGTRIISRKSTKYTLLGKVQFGEVSLTISNTN RGDSGVYCCRIEVPGWFNDVKKNVRLELRRA ; _struct_ref.pdbx_align_begin 24 _struct_ref.pdbx_db_isoform ? # _struct_ref_seq.align_id 1 _struct_ref_seq.ref_id 1 _struct_ref_seq.pdbx_PDB_id_code 3BIB _struct_ref_seq.pdbx_strand_id X _struct_ref_seq.seq_align_beg 2 _struct_ref_seq.pdbx_seq_align_beg_ins_code ? _struct_ref_seq.seq_align_end 112 _struct_ref_seq.pdbx_seq_align_end_ins_code ? _struct_ref_seq.pdbx_db_accession Q6U7R4 _struct_ref_seq.db_align_beg 24 _struct_ref_seq.pdbx_db_align_beg_ins_code ? _struct_ref_seq.db_align_end 134 _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 112 # loop_ _struct_ref_seq_dif.align_id _struct_ref_seq_dif.pdbx_pdb_id_code _struct_ref_seq_dif.mon_id _struct_ref_seq_dif.pdbx_pdb_strand_id _struct_ref_seq_dif.seq_num _struct_ref_seq_dif.pdbx_pdb_ins_code _struct_ref_seq_dif.pdbx_seq_db_name _struct_ref_seq_dif.pdbx_seq_db_accession_code _struct_ref_seq_dif.db_mon_id _struct_ref_seq_dif.pdbx_seq_db_seq_num _struct_ref_seq_dif.details _struct_ref_seq_dif.pdbx_auth_seq_num _struct_ref_seq_dif.pdbx_ordinal 1 3BIB MET X 1 ? UNP Q6U7R4 ? ? 'initiating methionine' 1 1 1 3BIB LEU X 113 ? UNP Q6U7R4 ? ? 'expression tag' 113 2 1 3BIB VAL X 114 ? UNP Q6U7R4 ? ? 'expression tag' 114 3 1 3BIB PRO X 115 ? UNP Q6U7R4 ? ? 'expression tag' 115 4 1 3BIB ARG X 116 ? UNP Q6U7R4 ? ? 'expression tag' 116 5 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _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,C,D # _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_ _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 1 LYS A 67 ? GLY A 71 ? LYS X 67 GLY X 71 5 ? 5 HELX_P HELX_P2 2 ASN A 81 ? SER A 85 ? ASN X 81 SER X 85 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 18 SG ? ? ? 1_555 A CYS 90 SG ? ? X CYS 18 X CYS 90 1_555 ? ? ? ? ? ? ? 2.055 ? ? disulf2 disulf ? ? A CYS 31 SG ? ? ? 1_555 A CYS 42 SG ? ? X CYS 31 X CYS 42 1_555 ? ? ? ? ? ? ? 2.045 ? ? disulf3 disulf ? ? A CYS 37 SG ? ? ? 1_555 A CYS 89 SG ? ? X CYS 37 X CYS 89 1_555 ? ? ? ? ? ? ? 2.050 ? ? metalc1 metalc ? ? A VAL 94 O ? ? ? 1_555 B NA . NA ? ? X VAL 94 X NA 117 1_555 ? ? ? ? ? ? ? 2.436 ? ? metalc2 metalc ? ? A GLY 96 O ? ? ? 1_555 B NA . NA ? ? X GLY 96 X NA 117 1_555 ? ? ? ? ? ? ? 2.563 ? ? metalc3 metalc ? ? A ASN 99 OD1 ? ? ? 1_555 B NA . NA ? ? X ASN 99 X NA 117 1_555 ? ? ? ? ? ? ? 2.325 ? ? metalc4 metalc ? ? A ASP 100 OD1 ? ? ? 1_555 B NA . NA ? ? X ASP 100 X NA 117 1_555 ? ? ? ? ? ? ? 2.744 ? ? metalc5 metalc ? ? B NA . NA ? ? ? 1_555 C PSF . O4 ? ? X NA 117 X PSF 118 1_555 ? ? ? ? ? ? ? 2.220 ? ? metalc6 metalc ? ? B NA . NA ? ? ? 1_555 D HOH . O ? ? X NA 117 X HOH 165 1_555 ? ? ? ? ? ? ? 2.896 ? ? # 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 O ? A VAL 94 ? X VAL 94 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O ? A GLY 96 ? X GLY 96 ? 1_555 90.5 ? 2 O ? A VAL 94 ? X VAL 94 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 OD1 ? A ASN 99 ? X ASN 99 ? 1_555 84.7 ? 3 O ? A GLY 96 ? X GLY 96 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 OD1 ? A ASN 99 ? X ASN 99 ? 1_555 84.8 ? 4 O ? A VAL 94 ? X VAL 94 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 OD1 ? A ASP 100 ? X ASP 100 ? 1_555 83.5 ? 5 O ? A GLY 96 ? X GLY 96 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 OD1 ? A ASP 100 ? X ASP 100 ? 1_555 167.0 ? 6 OD1 ? A ASN 99 ? X ASN 99 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 OD1 ? A ASP 100 ? X ASP 100 ? 1_555 106.0 ? 7 O ? A VAL 94 ? X VAL 94 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O4 ? C PSF . ? X PSF 118 ? 1_555 172.3 ? 8 O ? A GLY 96 ? X GLY 96 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O4 ? C PSF . ? X PSF 118 ? 1_555 95.2 ? 9 OD1 ? A ASN 99 ? X ASN 99 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O4 ? C PSF . ? X PSF 118 ? 1_555 101.0 ? 10 OD1 ? A ASP 100 ? X ASP 100 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O4 ? C PSF . ? X PSF 118 ? 1_555 89.9 ? 11 O ? A VAL 94 ? X VAL 94 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O ? D HOH . ? X HOH 165 ? 1_555 67.7 ? 12 O ? A GLY 96 ? X GLY 96 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O ? D HOH . ? X HOH 165 ? 1_555 98.9 ? 13 OD1 ? A ASN 99 ? X ASN 99 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O ? D HOH . ? X HOH 165 ? 1_555 152.1 ? 14 OD1 ? A ASP 100 ? X ASP 100 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O ? D HOH . ? X HOH 165 ? 1_555 68.1 ? 15 O4 ? C PSF . ? X PSF 118 ? 1_555 NA ? B NA . ? X NA 117 ? 1_555 O ? D HOH . ? X HOH 165 ? 1_555 106.2 ? # 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 18 ? CYS A 90 ? CYS X 18 ? 1_555 CYS X 90 ? 1_555 SG SG . . . None 'Disulfide bridge' 2 CYS A 31 ? CYS A 42 ? CYS X 31 ? 1_555 CYS X 42 ? 1_555 SG SG . . . None 'Disulfide bridge' 3 CYS A 37 ? CYS A 89 ? CYS X 37 ? 1_555 CYS X 89 ? 1_555 SG SG . . . None 'Disulfide bridge' # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 6 ? B ? 3 ? # loop_ _struct_sheet_order.sheet_id _struct_sheet_order.range_id_1 _struct_sheet_order.range_id_2 _struct_sheet_order.offset _struct_sheet_order.sense A 1 2 ? parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? anti-parallel B 1 2 ? anti-parallel B 2 3 ? 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 A 1 THR A 5 ? PHE A 9 ? THR X 5 PHE X 9 A 2 VAL A 101 ? ARG A 110 ? VAL X 101 ARG X 110 A 3 GLY A 86 ? GLU A 93 ? GLY X 86 GLU X 93 A 4 SER A 29 ? LYS A 34 ? SER X 29 LYS X 34 A 5 GLU A 45 ? THR A 49 ? GLU X 45 THR X 49 A 6 ILE A 54 ? ARG A 57 ? ILE X 54 ARG X 57 B 1 VAL A 14 ? LEU A 16 ? VAL X 14 LEU X 16 B 2 LEU A 75 ? ILE A 77 ? LEU X 75 ILE X 77 B 3 TYR A 62 ? LEU A 64 ? TYR X 62 LEU X 64 # 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 A 1 2 N ILE A 6 ? N ILE X 6 O ARG A 106 ? O ARG X 106 A 2 3 O LYS A 103 ? O LYS X 103 N CYS A 90 ? N CYS X 90 A 3 4 O GLU A 93 ? O GLU X 93 N SER A 29 ? N SER X 29 A 4 5 N TRP A 32 ? N TRP X 32 O LEU A 46 ? O LEU X 46 A 5 6 N ARG A 48 ? N ARG X 48 O SER A 56 ? O SER X 56 B 1 2 N LEU A 16 ? N LEU X 16 O LEU A 75 ? O LEU X 75 B 2 3 O THR A 76 ? O THR X 76 N THR A 63 ? N THR X 63 # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software X NA 117 ? 6 'BINDING SITE FOR RESIDUE NA X 117' AC2 Software X PSF 118 ? 13 'BINDING SITE FOR RESIDUE PSF X 118' # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 VAL A 94 ? VAL X 94 . ? 1_555 ? 2 AC1 6 GLY A 96 ? GLY X 96 . ? 1_555 ? 3 AC1 6 ASN A 99 ? ASN X 99 . ? 1_555 ? 4 AC1 6 ASP A 100 ? ASP X 100 . ? 1_555 ? 5 AC1 6 PSF C . ? PSF X 118 . ? 1_555 ? 6 AC1 6 HOH D . ? HOH X 165 . ? 1_555 ? 7 AC2 13 ASN A 39 ? ASN X 39 . ? 1_555 ? 8 AC2 13 SER A 40 ? SER X 40 . ? 1_555 ? 9 AC2 13 LYS A 41 ? LYS X 41 . ? 1_555 ? 10 AC2 13 ARG A 91 ? ARG X 91 . ? 1_555 ? 11 AC2 13 GLU A 93 ? GLU X 93 . ? 1_555 ? 12 AC2 13 GLY A 96 ? GLY X 96 . ? 1_555 ? 13 AC2 13 TRP A 97 ? TRP X 97 . ? 2_445 ? 14 AC2 13 PHE A 98 ? PHE X 98 . ? 1_555 ? 15 AC2 13 ASN A 99 ? ASN X 99 . ? 1_555 ? 16 AC2 13 ASP A 100 ? ASP X 100 . ? 1_555 ? 17 AC2 13 NA B . ? NA X 117 . ? 1_555 ? 18 AC2 13 HOH D . ? HOH X 128 . ? 1_555 ? 19 AC2 13 HOH D . ? HOH X 165 . ? 1_555 ? # _pdbx_entry_details.entry_id 3BIB _pdbx_entry_details.compound_details ? _pdbx_entry_details.source_details ? _pdbx_entry_details.nonpolymer_details ? _pdbx_entry_details.sequence_details ? _pdbx_entry_details.has_ligand_of_interest ? _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 X 22 ? ? -92.00 37.25 2 1 LYS X 41 ? ? 59.73 -160.35 3 1 LEU X 47 ? ? -174.56 141.04 4 1 ASP X 50 ? ? -98.31 -138.94 # _pdbx_struct_special_symmetry.id 1 _pdbx_struct_special_symmetry.PDB_model_num 1 _pdbx_struct_special_symmetry.auth_asym_id X _pdbx_struct_special_symmetry.auth_comp_id HOH _pdbx_struct_special_symmetry.auth_seq_id 145 _pdbx_struct_special_symmetry.PDB_ins_code ? _pdbx_struct_special_symmetry.label_asym_id D _pdbx_struct_special_symmetry.label_comp_id HOH _pdbx_struct_special_symmetry.label_seq_id . # loop_ _pdbx_unobs_or_zero_occ_residues.id _pdbx_unobs_or_zero_occ_residues.PDB_model_num _pdbx_unobs_or_zero_occ_residues.polymer_flag _pdbx_unobs_or_zero_occ_residues.occupancy_flag _pdbx_unobs_or_zero_occ_residues.auth_asym_id _pdbx_unobs_or_zero_occ_residues.auth_comp_id _pdbx_unobs_or_zero_occ_residues.auth_seq_id _pdbx_unobs_or_zero_occ_residues.PDB_ins_code _pdbx_unobs_or_zero_occ_residues.label_asym_id _pdbx_unobs_or_zero_occ_residues.label_comp_id _pdbx_unobs_or_zero_occ_residues.label_seq_id 1 1 Y 1 X MET 1 ? A MET 1 2 1 Y 1 X SER 2 ? A SER 2 3 1 Y 1 X GLU 3 ? A GLU 3 4 1 Y 1 X LEU 113 ? A LEU 113 5 1 Y 1 X VAL 114 ? A VAL 114 6 1 Y 1 X PRO 115 ? A PRO 115 7 1 Y 1 X ARG 116 ? A ARG 116 # 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 NA NA NA 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 PSF O2 O N N 291 PSF O1 O N N 292 PSF P P N R 293 PSF O4 O N N 294 PSF O3 O N N 295 PSF C2 C N N 296 PSF C3 C N N 297 PSF O11 O N N 298 PSF O12 O N N 299 PSF C1 C N N 300 PSF C4 C N N 301 PSF C5 C N N 302 PSF O51 O N N 303 PSF O52 O N N 304 PSF C6 C N N 305 PSF C7 C N N 306 PSF C13 C N N 307 PSF C14 C N N 308 PSF C15 C N N 309 PSF N N N N 310 PSF CA C N S 311 PSF CB C N N 312 PSF C C N N 313 PSF OT1 O N N 314 PSF OT2 O N N 315 PSF C8 C N N 316 PSF C9 C N N 317 PSF C10 C N N 318 PSF C16 C N N 319 PSF C17 C N N 320 PSF HO3 H N N 321 PSF H21 H N N 322 PSF H22 H N N 323 PSF H31 H N N 324 PSF H41 H N N 325 PSF H42 H N N 326 PSF H61 H N N 327 PSF H62 H N N 328 PSF H71 H N N 329 PSF H72 H N N 330 PSF H131 H N N 331 PSF H132 H N N 332 PSF H141 H N N 333 PSF H142 H N N 334 PSF H151 H N N 335 PSF H152 H N N 336 PSF H1 H N N 337 PSF H2 H N N 338 PSF HA H N N 339 PSF HB1 H N N 340 PSF HB2 H N N 341 PSF HXT H N N 342 PSF H81 H N N 343 PSF H82 H N N 344 PSF H91 H N N 345 PSF H92 H N N 346 PSF H101 H N N 347 PSF H102 H N N 348 PSF H103 H N N 349 PSF H161 H N N 350 PSF H162 H N N 351 PSF H171 H N N 352 PSF H172 H N N 353 PSF H173 H N N 354 SER N N N N 355 SER CA C N S 356 SER C C N N 357 SER O O N N 358 SER CB C N N 359 SER OG O N N 360 SER OXT O N N 361 SER H H N N 362 SER H2 H N N 363 SER HA H N N 364 SER HB2 H N N 365 SER HB3 H N N 366 SER HG H N N 367 SER HXT H N N 368 THR N N N N 369 THR CA C N S 370 THR C C N N 371 THR O O N N 372 THR CB C N R 373 THR OG1 O N N 374 THR CG2 C N N 375 THR OXT O N N 376 THR H H N N 377 THR H2 H N N 378 THR HA H N N 379 THR HB H N N 380 THR HG1 H N N 381 THR HG21 H N N 382 THR HG22 H N N 383 THR HG23 H N N 384 THR HXT H N N 385 TRP N N N N 386 TRP CA C N S 387 TRP C C N N 388 TRP O O N N 389 TRP CB C N N 390 TRP CG C Y N 391 TRP CD1 C Y N 392 TRP CD2 C Y N 393 TRP NE1 N Y N 394 TRP CE2 C Y N 395 TRP CE3 C Y N 396 TRP CZ2 C Y N 397 TRP CZ3 C Y N 398 TRP CH2 C Y N 399 TRP OXT O N N 400 TRP H H N N 401 TRP H2 H N N 402 TRP HA H N N 403 TRP HB2 H N N 404 TRP HB3 H N N 405 TRP HD1 H N N 406 TRP HE1 H N N 407 TRP HE3 H N N 408 TRP HZ2 H N N 409 TRP HZ3 H N N 410 TRP HH2 H N N 411 TRP HXT H N N 412 TYR N N N N 413 TYR CA C N S 414 TYR C C N N 415 TYR O O N N 416 TYR CB C N N 417 TYR CG C Y N 418 TYR CD1 C Y N 419 TYR CD2 C Y N 420 TYR CE1 C Y N 421 TYR CE2 C Y N 422 TYR CZ C Y N 423 TYR OH O N N 424 TYR OXT O N N 425 TYR H H N N 426 TYR H2 H N N 427 TYR HA H N N 428 TYR HB2 H N N 429 TYR HB3 H N N 430 TYR HD1 H N N 431 TYR HD2 H N N 432 TYR HE1 H N N 433 TYR HE2 H N N 434 TYR HH H N N 435 TYR HXT H N N 436 VAL N N N N 437 VAL CA C N S 438 VAL C C N N 439 VAL O O N N 440 VAL CB C N N 441 VAL CG1 C N N 442 VAL CG2 C N N 443 VAL OXT O N N 444 VAL H H N N 445 VAL H2 H N N 446 VAL HA H N N 447 VAL HB H N N 448 VAL HG11 H N N 449 VAL HG12 H N N 450 VAL HG13 H N N 451 VAL HG21 H N N 452 VAL HG22 H N N 453 VAL HG23 H N N 454 VAL HXT H N N 455 # 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 PSF O2 P sing N N 277 PSF O2 C2 sing N N 278 PSF O1 P sing N N 279 PSF O1 CB sing N N 280 PSF P O4 doub N N 281 PSF P O3 sing N N 282 PSF O3 HO3 sing N N 283 PSF C2 C3 sing N N 284 PSF C2 H21 sing N N 285 PSF C2 H22 sing N N 286 PSF C3 O11 sing N N 287 PSF C3 C4 sing N N 288 PSF C3 H31 sing N N 289 PSF O11 C1 sing N N 290 PSF O12 C1 doub N N 291 PSF C1 C13 sing N N 292 PSF C4 O52 sing N N 293 PSF C4 H41 sing N N 294 PSF C4 H42 sing N N 295 PSF C5 O51 doub N N 296 PSF C5 O52 sing N N 297 PSF C5 C6 sing N N 298 PSF C6 C7 sing N N 299 PSF C6 H61 sing N N 300 PSF C6 H62 sing N N 301 PSF C7 C8 sing N N 302 PSF C7 H71 sing N N 303 PSF C7 H72 sing N N 304 PSF C13 C14 sing N N 305 PSF C13 H131 sing N N 306 PSF C13 H132 sing N N 307 PSF C14 C15 sing N N 308 PSF C14 H141 sing N N 309 PSF C14 H142 sing N N 310 PSF C15 C16 sing N N 311 PSF C15 H151 sing N N 312 PSF C15 H152 sing N N 313 PSF N CA sing N N 314 PSF N H1 sing N N 315 PSF N H2 sing N N 316 PSF CA CB sing N N 317 PSF CA C sing N N 318 PSF CA HA sing N N 319 PSF CB HB1 sing N N 320 PSF CB HB2 sing N N 321 PSF C OT1 doub N N 322 PSF C OT2 sing N N 323 PSF OT2 HXT sing N N 324 PSF C8 C9 sing N N 325 PSF C8 H81 sing N N 326 PSF C8 H82 sing N N 327 PSF C9 C10 sing N N 328 PSF C9 H91 sing N N 329 PSF C9 H92 sing N N 330 PSF C10 H101 sing N N 331 PSF C10 H102 sing N N 332 PSF C10 H103 sing N N 333 PSF C16 C17 sing N N 334 PSF C16 H161 sing N N 335 PSF C16 H162 sing N N 336 PSF C17 H171 sing N N 337 PSF C17 H172 sing N N 338 PSF C17 H173 sing N N 339 SER N CA sing N N 340 SER N H sing N N 341 SER N H2 sing N N 342 SER CA C sing N N 343 SER CA CB sing N N 344 SER CA HA sing N N 345 SER C O doub N N 346 SER C OXT sing N N 347 SER CB OG sing N N 348 SER CB HB2 sing N N 349 SER CB HB3 sing N N 350 SER OG HG sing N N 351 SER OXT HXT sing N N 352 THR N CA sing N N 353 THR N H sing N N 354 THR N H2 sing N N 355 THR CA C sing N N 356 THR CA CB sing N N 357 THR CA HA sing N N 358 THR C O doub N N 359 THR C OXT sing N N 360 THR CB OG1 sing N N 361 THR CB CG2 sing N N 362 THR CB HB sing N N 363 THR OG1 HG1 sing N N 364 THR CG2 HG21 sing N N 365 THR CG2 HG22 sing N N 366 THR CG2 HG23 sing N N 367 THR OXT HXT sing N N 368 TRP N CA sing N N 369 TRP N H sing N N 370 TRP N H2 sing N N 371 TRP CA C sing N N 372 TRP CA CB sing N N 373 TRP CA HA sing N N 374 TRP C O doub N N 375 TRP C OXT sing N N 376 TRP CB CG sing N N 377 TRP CB HB2 sing N N 378 TRP CB HB3 sing N N 379 TRP CG CD1 doub Y N 380 TRP CG CD2 sing Y N 381 TRP CD1 NE1 sing Y N 382 TRP CD1 HD1 sing N N 383 TRP CD2 CE2 doub Y N 384 TRP CD2 CE3 sing Y N 385 TRP NE1 CE2 sing Y N 386 TRP NE1 HE1 sing N N 387 TRP CE2 CZ2 sing Y N 388 TRP CE3 CZ3 doub Y N 389 TRP CE3 HE3 sing N N 390 TRP CZ2 CH2 doub Y N 391 TRP CZ2 HZ2 sing N N 392 TRP CZ3 CH2 sing Y N 393 TRP CZ3 HZ3 sing N N 394 TRP CH2 HH2 sing N N 395 TRP OXT HXT sing N N 396 TYR N CA sing N N 397 TYR N H sing N N 398 TYR N H2 sing N N 399 TYR CA C sing N N 400 TYR CA CB sing N N 401 TYR CA HA sing N N 402 TYR C O doub N N 403 TYR C OXT sing N N 404 TYR CB CG sing N N 405 TYR CB HB2 sing N N 406 TYR CB HB3 sing N N 407 TYR CG CD1 doub Y N 408 TYR CG CD2 sing Y N 409 TYR CD1 CE1 sing Y N 410 TYR CD1 HD1 sing N N 411 TYR CD2 CE2 doub Y N 412 TYR CD2 HD2 sing N N 413 TYR CE1 CZ doub Y N 414 TYR CE1 HE1 sing N N 415 TYR CE2 CZ sing Y N 416 TYR CE2 HE2 sing N N 417 TYR CZ OH sing N N 418 TYR OH HH sing N N 419 TYR OXT HXT sing N N 420 VAL N CA sing N N 421 VAL N H sing N N 422 VAL N H2 sing N N 423 VAL CA C sing N N 424 VAL CA CB sing N N 425 VAL CA HA sing N N 426 VAL C O doub N N 427 VAL C OXT sing N N 428 VAL CB CG1 sing N N 429 VAL CB CG2 sing N N 430 VAL CB HB sing N N 431 VAL CG1 HG11 sing N N 432 VAL CG1 HG12 sing N N 433 VAL CG1 HG13 sing N N 434 VAL CG2 HG21 sing N N 435 VAL CG2 HG22 sing N N 436 VAL CG2 HG23 sing N N 437 VAL OXT HXT sing N N 438 # _pdbx_initial_refinement_model.accession_code 2OR7 _pdbx_initial_refinement_model.id 1 _pdbx_initial_refinement_model.entity_id_list ? _pdbx_initial_refinement_model.type 'experimental model' _pdbx_initial_refinement_model.source_name PDB _pdbx_initial_refinement_model.details 'TIM-2 HOMOLOGOUS MODEL' # _atom_sites.entry_id 3BIB _atom_sites.fract_transf_matrix[1][1] 0.015092 _atom_sites.fract_transf_matrix[1][2] 0.008713 _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] 0.017427 _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] 0.007174 _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 N NA O P S # loop_