data_1YXK # _entry.id 1YXK # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.397 _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 1YXK pdb_00001yxk 10.2210/pdb1yxk/pdb RCSB RCSB032038 ? ? WWPDB D_1000032038 ? ? # 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 2005-06-14 2 'Structure model' 1 1 2008-04-30 3 'Structure model' 1 2 2011-07-13 4 'Structure model' 1 3 2023-10-25 5 'Structure model' 1 4 2024-10-23 # _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' 'Version format compliance' 3 4 'Structure model' 'Data collection' 4 4 'Structure model' 'Database references' 5 4 'Structure model' 'Refinement description' 6 5 '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 4 'Structure model' chem_comp_atom 2 4 'Structure model' chem_comp_bond 3 4 'Structure model' database_2 4 4 'Structure model' pdbx_initial_refinement_model 5 5 'Structure model' pdbx_entry_details 6 5 '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 4 'Structure model' '_database_2.pdbx_DOI' 2 4 'Structure model' '_database_2.pdbx_database_accession' # _pdbx_database_status.status_code REL _pdbx_database_status.entry_id 1YXK _pdbx_database_status.recvd_initial_deposition_date 2005-02-22 _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site PDBJ _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 ? # _pdbx_database_related.db_name PDB _pdbx_database_related.db_id 1YXJ _pdbx_database_related.details 'The same protein at low pH' _pdbx_database_related.content_type unspecified # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Ohki, I.' 1 'Ishigaki, T.' 2 'Oyama, T.' 3 'Matsunaga, S.' 4 'Xie, Q.' 5 'Ohnishi-Kameyama, M.' 6 'Murata, T.' 7 'Tsuchiya, D.' 8 'Machida, S.' 9 'Morikawa, K.' 10 'Tate, S.' 11 # _citation.id primary _citation.title ;Crystal structure of human lectin-like, oxidized low-density lipoprotein receptor 1 ligand binding domain and its ligand recognition mode to OxLDL. ; _citation.journal_abbrev Structure _citation.journal_volume 13 _citation.page_first 905 _citation.page_last 917 _citation.year 2005 _citation.journal_id_ASTM STRUE6 _citation.country UK _citation.journal_id_ISSN 0969-2126 _citation.journal_id_CSD 2005 _citation.book_publisher ? _citation.pdbx_database_id_PubMed 15939022 _citation.pdbx_database_id_DOI 10.1016/j.str.2005.03.016 # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Ohki, I.' 1 ? primary 'Ishigaki, T.' 2 ? primary 'Oyama, T.' 3 ? primary 'Matsunaga, S.' 4 ? primary 'Xie, Q.' 5 ? primary 'Ohnishi-Kameyama, M.' 6 ? primary 'Murata, T.' 7 ? primary 'Tsuchiya, D.' 8 ? primary 'Machida, S.' 9 ? primary 'Morikawa, K.' 10 ? primary 'Tate, S.' 11 ? # 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 'oxidised low density lipoprotein (lectin-like) receptor 1' 15312.383 2 ? ? 'ligand-binding domain' ? 2 water nat water 18.015 52 ? ? ? ? # _entity_name_com.entity_id 1 _entity_name_com.name LOX-1 # _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 ;RVANCSAPCPQDWIWHGENCYLFSSGSFNWEKSQEKCLSLDAKLLKINSTADLDFIQQAISYSSFPFWMGLSRRNPSYPW LWEDGSPLMPHLFRVRGAVSQTYPSGTCAYIQRGAVYAENCILAAFSICQKKANL ; _entity_poly.pdbx_seq_one_letter_code_can ;RVANCSAPCPQDWIWHGENCYLFSSGSFNWEKSQEKCLSLDAKLLKINSTADLDFIQQAISYSSFPFWMGLSRRNPSYPW LWEDGSPLMPHLFRVRGAVSQTYPSGTCAYIQRGAVYAENCILAAFSICQKKANL ; _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # _pdbx_entity_nonpoly.entity_id 2 _pdbx_entity_nonpoly.name water _pdbx_entity_nonpoly.comp_id HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 ARG n 1 2 VAL n 1 3 ALA n 1 4 ASN n 1 5 CYS n 1 6 SER n 1 7 ALA n 1 8 PRO n 1 9 CYS n 1 10 PRO n 1 11 GLN n 1 12 ASP n 1 13 TRP n 1 14 ILE n 1 15 TRP n 1 16 HIS n 1 17 GLY n 1 18 GLU n 1 19 ASN n 1 20 CYS n 1 21 TYR n 1 22 LEU n 1 23 PHE n 1 24 SER n 1 25 SER n 1 26 GLY n 1 27 SER n 1 28 PHE n 1 29 ASN n 1 30 TRP n 1 31 GLU n 1 32 LYS n 1 33 SER n 1 34 GLN n 1 35 GLU n 1 36 LYS n 1 37 CYS n 1 38 LEU n 1 39 SER n 1 40 LEU n 1 41 ASP n 1 42 ALA n 1 43 LYS n 1 44 LEU n 1 45 LEU n 1 46 LYS n 1 47 ILE n 1 48 ASN n 1 49 SER n 1 50 THR n 1 51 ALA n 1 52 ASP n 1 53 LEU n 1 54 ASP n 1 55 PHE n 1 56 ILE n 1 57 GLN n 1 58 GLN n 1 59 ALA n 1 60 ILE n 1 61 SER n 1 62 TYR n 1 63 SER n 1 64 SER n 1 65 PHE n 1 66 PRO n 1 67 PHE n 1 68 TRP n 1 69 MET n 1 70 GLY n 1 71 LEU n 1 72 SER n 1 73 ARG n 1 74 ARG n 1 75 ASN n 1 76 PRO n 1 77 SER n 1 78 TYR n 1 79 PRO n 1 80 TRP n 1 81 LEU n 1 82 TRP n 1 83 GLU n 1 84 ASP n 1 85 GLY n 1 86 SER n 1 87 PRO n 1 88 LEU n 1 89 MET n 1 90 PRO n 1 91 HIS n 1 92 LEU n 1 93 PHE n 1 94 ARG n 1 95 VAL n 1 96 ARG n 1 97 GLY n 1 98 ALA n 1 99 VAL n 1 100 SER n 1 101 GLN n 1 102 THR n 1 103 TYR n 1 104 PRO n 1 105 SER n 1 106 GLY n 1 107 THR n 1 108 CYS n 1 109 ALA n 1 110 TYR n 1 111 ILE n 1 112 GLN n 1 113 ARG n 1 114 GLY n 1 115 ALA n 1 116 VAL n 1 117 TYR n 1 118 ALA n 1 119 GLU n 1 120 ASN n 1 121 CYS n 1 122 ILE n 1 123 LEU n 1 124 ALA n 1 125 ALA n 1 126 PHE n 1 127 SER n 1 128 ILE n 1 129 CYS n 1 130 GLN n 1 131 LYS n 1 132 LYS n 1 133 ALA n 1 134 ASN n 1 135 LEU 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 human _entity_src_gen.gene_src_genus Homo _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 'Homo sapiens' _entity_src_gen.pdbx_gene_src_ncbi_taxonomy_id 9606 _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(DE3)' _entity_src_gen.pdbx_host_org_ncbi_taxonomy_id 469008 _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(DE3)' _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 pET28a _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 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 ARG 1 136 ? ? ? A . n A 1 2 VAL 2 137 ? ? ? A . n A 1 3 ALA 3 138 ? ? ? A . n A 1 4 ASN 4 139 ? ? ? A . n A 1 5 CYS 5 140 ? ? ? A . n A 1 6 SER 6 141 141 SER ALA A . n A 1 7 ALA 7 142 142 ALA ALA A . n A 1 8 PRO 8 143 143 PRO PRO A . n A 1 9 CYS 9 144 144 CYS CYS A . n A 1 10 PRO 10 145 145 PRO PRO A . n A 1 11 GLN 11 146 146 GLN GLN A . n A 1 12 ASP 12 147 147 ASP ASP A . n A 1 13 TRP 13 148 148 TRP TRP A . n A 1 14 ILE 14 149 149 ILE ILE A . n A 1 15 TRP 15 150 150 TRP TRP A . n A 1 16 HIS 16 151 151 HIS HIS A . n A 1 17 GLY 17 152 152 GLY GLY A . n A 1 18 GLU 18 153 153 GLU GLU A . n A 1 19 ASN 19 154 154 ASN ASN A . n A 1 20 CYS 20 155 155 CYS CYS A . n A 1 21 TYR 21 156 156 TYR TYR A . n A 1 22 LEU 22 157 157 LEU LEU A . n A 1 23 PHE 23 158 158 PHE PHE A . n A 1 24 SER 24 159 159 SER SER A . n A 1 25 SER 25 160 160 SER SER A . n A 1 26 GLY 26 161 161 GLY GLY A . n A 1 27 SER 27 162 162 SER SER A . n A 1 28 PHE 28 163 163 PHE PHE A . n A 1 29 ASN 29 164 164 ASN ASN A . n A 1 30 TRP 30 165 165 TRP TRP A . n A 1 31 GLU 31 166 166 GLU GLU A . n A 1 32 LYS 32 167 167 LYS LYS A . n A 1 33 SER 33 168 168 SER SER A . n A 1 34 GLN 34 169 169 GLN GLN A . n A 1 35 GLU 35 170 170 GLU GLU A . n A 1 36 LYS 36 171 171 LYS LYS A . n A 1 37 CYS 37 172 172 CYS CYS A . n A 1 38 LEU 38 173 173 LEU LEU A . n A 1 39 SER 39 174 174 SER SER A . n A 1 40 LEU 40 175 175 LEU LEU A . n A 1 41 ASP 41 176 176 ASP ASP A . n A 1 42 ALA 42 177 177 ALA ALA A . n A 1 43 LYS 43 178 178 LYS LYS A . n A 1 44 LEU 44 179 179 LEU LEU A . n A 1 45 LEU 45 180 180 LEU LEU A . n A 1 46 LYS 46 181 181 LYS LYS A . n A 1 47 ILE 47 182 182 ILE ILE A . n A 1 48 ASN 48 183 183 ASN ASN A . n A 1 49 SER 49 184 184 SER SER A . n A 1 50 THR 50 185 185 THR THR A . n A 1 51 ALA 51 186 186 ALA ALA A . n A 1 52 ASP 52 187 187 ASP ASP A . n A 1 53 LEU 53 188 188 LEU LEU A . n A 1 54 ASP 54 189 189 ASP ASP A . n A 1 55 PHE 55 190 190 PHE PHE A . n A 1 56 ILE 56 191 191 ILE ILE A . n A 1 57 GLN 57 192 192 GLN GLN A . n A 1 58 GLN 58 193 193 GLN GLN A . n A 1 59 ALA 59 194 194 ALA ALA A . n A 1 60 ILE 60 195 195 ILE ILE A . n A 1 61 SER 61 196 196 SER SER A . n A 1 62 TYR 62 197 197 TYR TYR A . n A 1 63 SER 63 198 198 SER SER A . n A 1 64 SER 64 199 199 SER SER A . n A 1 65 PHE 65 200 200 PHE PHE A . n A 1 66 PRO 66 201 201 PRO PRO A . n A 1 67 PHE 67 202 202 PHE PHE A . n A 1 68 TRP 68 203 203 TRP TRP A . n A 1 69 MET 69 204 204 MET MET A . n A 1 70 GLY 70 205 205 GLY GLY A . n A 1 71 LEU 71 206 206 LEU LEU A . n A 1 72 SER 72 207 207 SER SER A . n A 1 73 ARG 73 208 208 ARG ARG A . n A 1 74 ARG 74 209 209 ARG ARG A . n A 1 75 ASN 75 210 210 ASN ASN A . n A 1 76 PRO 76 211 211 PRO PRO A . n A 1 77 SER 77 212 212 SER SER A . n A 1 78 TYR 78 213 213 TYR TYR A . n A 1 79 PRO 79 214 214 PRO PRO A . n A 1 80 TRP 80 215 215 TRP TRP A . n A 1 81 LEU 81 216 216 LEU LEU A . n A 1 82 TRP 82 217 217 TRP TRP A . n A 1 83 GLU 83 218 218 GLU GLU A . n A 1 84 ASP 84 219 219 ASP ASP A . n A 1 85 GLY 85 220 220 GLY GLY A . n A 1 86 SER 86 221 221 SER SER A . n A 1 87 PRO 87 222 222 PRO PRO A . n A 1 88 LEU 88 223 223 LEU LEU A . n A 1 89 MET 89 224 224 MET MET A . n A 1 90 PRO 90 225 225 PRO PRO A . n A 1 91 HIS 91 226 226 HIS HIS A . n A 1 92 LEU 92 227 227 LEU LEU A . n A 1 93 PHE 93 228 228 PHE PHE A . n A 1 94 ARG 94 229 229 ARG ARG A . n A 1 95 VAL 95 230 230 VAL VAL A . n A 1 96 ARG 96 231 231 ARG ARG A . n A 1 97 GLY 97 232 232 GLY GLY A . n A 1 98 ALA 98 233 233 ALA ALA A . n A 1 99 VAL 99 234 234 VAL VAL A . n A 1 100 SER 100 235 235 SER SER A . n A 1 101 GLN 101 236 236 GLN GLN A . n A 1 102 THR 102 237 237 THR THR A . n A 1 103 TYR 103 238 238 TYR TYR A . n A 1 104 PRO 104 239 239 PRO PRO A . n A 1 105 SER 105 240 240 SER SER A . n A 1 106 GLY 106 241 241 GLY GLY A . n A 1 107 THR 107 242 242 THR THR A . n A 1 108 CYS 108 243 243 CYS CYS A . n A 1 109 ALA 109 244 244 ALA ALA A . n A 1 110 TYR 110 245 245 TYR TYR A . n A 1 111 ILE 111 246 246 ILE ILE A . n A 1 112 GLN 112 247 247 GLN GLN A . n A 1 113 ARG 113 248 248 ARG ARG A . n A 1 114 GLY 114 249 249 GLY GLY A . n A 1 115 ALA 115 250 250 ALA ALA A . n A 1 116 VAL 116 251 251 VAL VAL A . n A 1 117 TYR 117 252 252 TYR TYR A . n A 1 118 ALA 118 253 253 ALA ALA A . n A 1 119 GLU 119 254 254 GLU GLU A . n A 1 120 ASN 120 255 255 ASN ASN A . n A 1 121 CYS 121 256 256 CYS CYS A . n A 1 122 ILE 122 257 257 ILE ILE A . n A 1 123 LEU 123 258 258 LEU LEU A . n A 1 124 ALA 124 259 259 ALA ALA A . n A 1 125 ALA 125 260 260 ALA ALA A . n A 1 126 PHE 126 261 261 PHE PHE A . n A 1 127 SER 127 262 262 SER SER A . n A 1 128 ILE 128 263 263 ILE ILE A . n A 1 129 CYS 129 264 264 CYS CYS A . n A 1 130 GLN 130 265 265 GLN GLN A . n A 1 131 LYS 131 266 266 LYS LYS A . n A 1 132 LYS 132 267 267 LYS LYS A . n A 1 133 ALA 133 268 268 ALA ALA A . n A 1 134 ASN 134 269 269 ASN ASN A . n A 1 135 LEU 135 270 270 LEU LEU A . n B 1 1 ARG 1 136 136 ARG ARG B . n B 1 2 VAL 2 137 137 VAL VAL B . n B 1 3 ALA 3 138 138 ALA ALA B . n B 1 4 ASN 4 139 139 ASN ALA B . n B 1 5 CYS 5 140 140 CYS CYS B . n B 1 6 SER 6 141 141 SER SER B . n B 1 7 ALA 7 142 142 ALA ALA B . n B 1 8 PRO 8 143 143 PRO PRO B . n B 1 9 CYS 9 144 144 CYS CYS B . n B 1 10 PRO 10 145 145 PRO PRO B . n B 1 11 GLN 11 146 146 GLN GLN B . n B 1 12 ASP 12 147 147 ASP ASP B . n B 1 13 TRP 13 148 148 TRP TRP B . n B 1 14 ILE 14 149 149 ILE ILE B . n B 1 15 TRP 15 150 150 TRP TRP B . n B 1 16 HIS 16 151 151 HIS HIS B . n B 1 17 GLY 17 152 152 GLY GLY B . n B 1 18 GLU 18 153 153 GLU GLU B . n B 1 19 ASN 19 154 154 ASN ASN B . n B 1 20 CYS 20 155 155 CYS CYS B . n B 1 21 TYR 21 156 156 TYR TYR B . n B 1 22 LEU 22 157 157 LEU LEU B . n B 1 23 PHE 23 158 158 PHE PHE B . n B 1 24 SER 24 159 159 SER SER B . n B 1 25 SER 25 160 160 SER SER B . n B 1 26 GLY 26 161 161 GLY GLY B . n B 1 27 SER 27 162 162 SER SER B . n B 1 28 PHE 28 163 163 PHE PHE B . n B 1 29 ASN 29 164 164 ASN ASN B . n B 1 30 TRP 30 165 165 TRP TRP B . n B 1 31 GLU 31 166 166 GLU GLU B . n B 1 32 LYS 32 167 167 LYS LYS B . n B 1 33 SER 33 168 168 SER SER B . n B 1 34 GLN 34 169 169 GLN GLN B . n B 1 35 GLU 35 170 170 GLU GLU B . n B 1 36 LYS 36 171 171 LYS LYS B . n B 1 37 CYS 37 172 172 CYS CYS B . n B 1 38 LEU 38 173 173 LEU LEU B . n B 1 39 SER 39 174 174 SER SER B . n B 1 40 LEU 40 175 175 LEU LEU B . n B 1 41 ASP 41 176 176 ASP ASP B . n B 1 42 ALA 42 177 177 ALA ALA B . n B 1 43 LYS 43 178 178 LYS LYS B . n B 1 44 LEU 44 179 179 LEU LEU B . n B 1 45 LEU 45 180 180 LEU LEU B . n B 1 46 LYS 46 181 181 LYS LYS B . n B 1 47 ILE 47 182 182 ILE ILE B . n B 1 48 ASN 48 183 183 ASN ASN B . n B 1 49 SER 49 184 184 SER SER B . n B 1 50 THR 50 185 185 THR THR B . n B 1 51 ALA 51 186 186 ALA ALA B . n B 1 52 ASP 52 187 187 ASP ASP B . n B 1 53 LEU 53 188 188 LEU LEU B . n B 1 54 ASP 54 189 189 ASP ASP B . n B 1 55 PHE 55 190 190 PHE PHE B . n B 1 56 ILE 56 191 191 ILE ILE B . n B 1 57 GLN 57 192 192 GLN GLN B . n B 1 58 GLN 58 193 193 GLN GLN B . n B 1 59 ALA 59 194 194 ALA ALA B . n B 1 60 ILE 60 195 195 ILE ILE B . n B 1 61 SER 61 196 196 SER SER B . n B 1 62 TYR 62 197 197 TYR TYR B . n B 1 63 SER 63 198 198 SER SER B . n B 1 64 SER 64 199 199 SER SER B . n B 1 65 PHE 65 200 200 PHE PHE B . n B 1 66 PRO 66 201 201 PRO PRO B . n B 1 67 PHE 67 202 202 PHE PHE B . n B 1 68 TRP 68 203 203 TRP TRP B . n B 1 69 MET 69 204 204 MET MET B . n B 1 70 GLY 70 205 205 GLY GLY B . n B 1 71 LEU 71 206 206 LEU LEU B . n B 1 72 SER 72 207 207 SER SER B . n B 1 73 ARG 73 208 208 ARG ARG B . n B 1 74 ARG 74 209 209 ARG ARG B . n B 1 75 ASN 75 210 210 ASN ASN B . n B 1 76 PRO 76 211 211 PRO PRO B . n B 1 77 SER 77 212 212 SER SER B . n B 1 78 TYR 78 213 213 TYR TYR B . n B 1 79 PRO 79 214 214 PRO PRO B . n B 1 80 TRP 80 215 215 TRP TRP B . n B 1 81 LEU 81 216 216 LEU LEU B . n B 1 82 TRP 82 217 217 TRP TRP B . n B 1 83 GLU 83 218 218 GLU GLU B . n B 1 84 ASP 84 219 219 ASP ASP B . n B 1 85 GLY 85 220 220 GLY GLY B . n B 1 86 SER 86 221 221 SER SER B . n B 1 87 PRO 87 222 222 PRO PRO B . n B 1 88 LEU 88 223 223 LEU LEU B . n B 1 89 MET 89 224 224 MET MET B . n B 1 90 PRO 90 225 225 PRO PRO B . n B 1 91 HIS 91 226 226 HIS HIS B . n B 1 92 LEU 92 227 227 LEU LEU B . n B 1 93 PHE 93 228 228 PHE PHE B . n B 1 94 ARG 94 229 229 ARG ARG B . n B 1 95 VAL 95 230 230 VAL VAL B . n B 1 96 ARG 96 231 231 ARG ARG B . n B 1 97 GLY 97 232 232 GLY GLY B . n B 1 98 ALA 98 233 233 ALA ALA B . n B 1 99 VAL 99 234 234 VAL VAL B . n B 1 100 SER 100 235 235 SER SER B . n B 1 101 GLN 101 236 236 GLN GLN B . n B 1 102 THR 102 237 237 THR THR B . n B 1 103 TYR 103 238 238 TYR TYR B . n B 1 104 PRO 104 239 239 PRO PRO B . n B 1 105 SER 105 240 240 SER SER B . n B 1 106 GLY 106 241 241 GLY GLY B . n B 1 107 THR 107 242 242 THR THR B . n B 1 108 CYS 108 243 243 CYS CYS B . n B 1 109 ALA 109 244 244 ALA ALA B . n B 1 110 TYR 110 245 245 TYR TYR B . n B 1 111 ILE 111 246 246 ILE ILE B . n B 1 112 GLN 112 247 247 GLN GLN B . n B 1 113 ARG 113 248 248 ARG ARG B . n B 1 114 GLY 114 249 249 GLY GLY B . n B 1 115 ALA 115 250 250 ALA ALA B . n B 1 116 VAL 116 251 251 VAL VAL B . n B 1 117 TYR 117 252 252 TYR TYR B . n B 1 118 ALA 118 253 253 ALA ALA B . n B 1 119 GLU 119 254 254 GLU GLU B . n B 1 120 ASN 120 255 255 ASN ASN B . n B 1 121 CYS 121 256 256 CYS CYS B . n B 1 122 ILE 122 257 257 ILE ILE B . n B 1 123 LEU 123 258 258 LEU LEU B . n B 1 124 ALA 124 259 259 ALA ALA B . n B 1 125 ALA 125 260 260 ALA ALA B . n B 1 126 PHE 126 261 261 PHE PHE B . n B 1 127 SER 127 262 262 SER SER B . n B 1 128 ILE 128 263 263 ILE ILE B . n B 1 129 CYS 129 264 264 CYS CYS B . n B 1 130 GLN 130 265 265 GLN GLN B . n B 1 131 LYS 131 266 266 LYS LYS B . n B 1 132 LYS 132 267 267 LYS LYS B . n B 1 133 ALA 133 268 268 ALA ALA B . n B 1 134 ASN 134 269 269 ASN ASN B . n B 1 135 LEU 135 270 270 LEU LEU B . 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 C 2 HOH 1 1001 1001 HOH HOH A . C 2 HOH 2 1003 1003 HOH HOH A . C 2 HOH 3 1004 1004 HOH HOH A . C 2 HOH 4 1006 1006 HOH HOH A . C 2 HOH 5 1007 1007 HOH HOH A . C 2 HOH 6 1011 1011 HOH HOH A . C 2 HOH 7 1015 1015 HOH HOH A . C 2 HOH 8 1017 1017 HOH HOH A . C 2 HOH 9 1018 1018 HOH HOH A . C 2 HOH 10 1019 1019 HOH HOH A . C 2 HOH 11 1023 1023 HOH HOH A . C 2 HOH 12 1024 1024 HOH HOH A . C 2 HOH 13 1027 1027 HOH HOH A . C 2 HOH 14 1028 1028 HOH HOH A . C 2 HOH 15 1030 1030 HOH HOH A . C 2 HOH 16 1032 1032 HOH HOH A . C 2 HOH 17 1039 1039 HOH HOH A . C 2 HOH 18 1041 1041 HOH HOH A . C 2 HOH 19 1042 1042 HOH HOH A . C 2 HOH 20 1045 1045 HOH HOH A . C 2 HOH 21 1047 1047 HOH HOH A . C 2 HOH 22 1049 1049 HOH HOH A . C 2 HOH 23 1050 1050 HOH HOH A . C 2 HOH 24 1051 1051 HOH HOH A . C 2 HOH 25 1052 1052 HOH HOH A . C 2 HOH 26 1057 1057 HOH HOH A . C 2 HOH 27 1061 1061 HOH HOH A . C 2 HOH 28 1062 1062 HOH HOH A . D 2 HOH 1 1002 1002 HOH HOH B . D 2 HOH 2 1008 1008 HOH HOH B . D 2 HOH 3 1009 1009 HOH HOH B . D 2 HOH 4 1010 1010 HOH HOH B . D 2 HOH 5 1013 1013 HOH HOH B . D 2 HOH 6 1014 1014 HOH HOH B . D 2 HOH 7 1016 1016 HOH HOH B . D 2 HOH 8 1020 1020 HOH HOH B . D 2 HOH 9 1021 1021 HOH HOH B . D 2 HOH 10 1025 1025 HOH HOH B . D 2 HOH 11 1026 1026 HOH HOH B . D 2 HOH 12 1029 1029 HOH HOH B . D 2 HOH 13 1031 1031 HOH HOH B . D 2 HOH 14 1033 1033 HOH HOH B . D 2 HOH 15 1034 1034 HOH HOH B . D 2 HOH 16 1035 1035 HOH HOH B . D 2 HOH 17 1036 1036 HOH HOH B . D 2 HOH 18 1037 1037 HOH HOH B . D 2 HOH 19 1046 1046 HOH HOH B . D 2 HOH 20 1048 1048 HOH HOH B . D 2 HOH 21 1053 1053 HOH HOH B . D 2 HOH 22 1054 1054 HOH HOH B . D 2 HOH 23 1059 1059 HOH HOH B . D 2 HOH 24 1063 1063 HOH HOH B . # 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 Y 1 A SER 141 ? OG ? A SER 6 OG 2 1 Y 1 B ASN 139 ? CG ? B ASN 4 CG 3 1 Y 1 B ASN 139 ? OD1 ? B ASN 4 OD1 4 1 Y 1 B ASN 139 ? ND2 ? B ASN 4 ND2 # loop_ _software.name _software.classification _software.version _software.citation_id _software.pdbx_ordinal CNS refinement 0.9 ? 1 HKL-2000 'data reduction' . ? 2 SCALEPACK 'data scaling' . ? 3 CNS phasing . ? 4 # _cell.entry_id 1YXK _cell.length_a 70.862 _cell.length_b 49.536 _cell.length_c 76.730 _cell.angle_alpha 90.00 _cell.angle_beta 98.59 _cell.angle_gamma 90.00 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YXK _symmetry.space_group_name_H-M 'C 1 2 1' _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? # _exptl.entry_id 1YXK _exptl.method 'X-RAY DIFFRACTION' _exptl.crystals_number 1 # _exptl_crystal.id 1 _exptl_crystal.density_meas ? _exptl_crystal.density_Matthews 2.17 _exptl_crystal.density_percent_sol 43.42 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.temp 277 _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pH 7.5 _exptl_crystal_grow.pdbx_details '20% PEG 10000, 0.1M HEPES buffer, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K' _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 'IMAGE PLATE' _diffrn_detector.type 'RIGAKU RAXIS IV' _diffrn_detector.pdbx_collection_date 2004-06-11 _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 1.0 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source SYNCHROTRON _diffrn_source.type 'PHOTON FACTORY BEAMLINE BL-6B' _diffrn_source.pdbx_synchrotron_site 'Photon Factory' _diffrn_source.pdbx_synchrotron_beamline BL-6B _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_wavelength_list 1.0 # _reflns.entry_id 1YXK _reflns.observed_criterion_sigma_I ? _reflns.observed_criterion_sigma_F ? _reflns.d_resolution_low 37.9 _reflns.d_resolution_high 2.40 _reflns.number_obs 10449 _reflns.number_all ? _reflns.percent_possible_obs 99.3 _reflns.pdbx_Rmerge_I_obs 0.081 _reflns.pdbx_Rsym_value ? _reflns.pdbx_netI_over_sigmaI ? _reflns.B_iso_Wilson_estimate 27.0 _reflns.pdbx_redundancy ? _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 # _refine.entry_id 1YXK _refine.ls_number_reflns_obs 10370 _refine.ls_number_reflns_all 10453 _refine.pdbx_ls_sigma_I ? _refine.pdbx_ls_sigma_F 0.0 _refine.pdbx_data_cutoff_high_absF 1148656.92 _refine.pdbx_data_cutoff_low_absF 0.000000 _refine.pdbx_data_cutoff_high_rms_absF ? _refine.ls_d_res_low 37.04 _refine.ls_d_res_high 2.40 _refine.ls_percent_reflns_obs 99.2 _refine.ls_R_factor_obs 0.218 _refine.ls_R_factor_all ? _refine.ls_R_factor_R_work 0.218 _refine.ls_R_factor_R_free 0.277 _refine.ls_R_factor_R_free_error 0.012 _refine.ls_R_factor_R_free_error_details ? _refine.ls_percent_reflns_R_free 5.3 _refine.ls_number_reflns_R_free 546 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.occupancy_min ? _refine.occupancy_max ? _refine.correlation_coeff_Fo_to_Fc ? _refine.correlation_coeff_Fo_to_Fc_free ? _refine.B_iso_mean 37.8 _refine.aniso_B[1][1] 3.88 _refine.aniso_B[2][2] -0.16 _refine.aniso_B[3][3] -3.71 _refine.aniso_B[1][2] 0.00 _refine.aniso_B[1][3] 3.95 _refine.aniso_B[2][3] 0.00 _refine.solvent_model_details 'FLAT MODEL' _refine.solvent_model_param_ksol 0.336611 _refine.solvent_model_param_bsol 36.6517 _refine.pdbx_solvent_vdw_probe_radii ? _refine.pdbx_solvent_ion_probe_radii ? _refine.pdbx_solvent_shrinkage_radii ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.details ? _refine.pdbx_starting_model 'LOX-1 structure (MAD) at acidic pH. PDB entry 1YXJ' _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_isotropic_thermal_model RESTRAINED _refine.pdbx_stereochemistry_target_values ? _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 ? _refine.overall_SU_ML ? _refine.overall_SU_B ? _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_analyze.entry_id 1YXK _refine_analyze.Luzzati_coordinate_error_obs 0.30 _refine_analyze.Luzzati_sigma_a_obs 0.31 _refine_analyze.Luzzati_d_res_low_obs 5.00 _refine_analyze.Luzzati_coordinate_error_free 0.42 _refine_analyze.Luzzati_sigma_a_free 0.48 _refine_analyze.Luzzati_d_res_low_free ? _refine_analyze.number_disordered_residues ? _refine_analyze.occupancy_sum_hydrogen ? _refine_analyze.occupancy_sum_non_hydrogen ? _refine_analyze.pdbx_Luzzati_d_res_high_obs ? _refine_analyze.pdbx_refine_id 'X-RAY DIFFRACTION' # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 2113 _refine_hist.pdbx_number_atoms_nucleic_acid 0 _refine_hist.pdbx_number_atoms_ligand 0 _refine_hist.number_atoms_solvent 52 _refine_hist.number_atoms_total 2165 _refine_hist.d_res_high 2.40 _refine_hist.d_res_low 37.04 # 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 c_bond_d 0.009 ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_bond_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg 1.4 ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_angle_deg_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d 24.3 ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_dihedral_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d 1.21 ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_na ? ? ? ? 'X-RAY DIFFRACTION' ? c_improper_angle_d_prot ? ? ? ? 'X-RAY DIFFRACTION' ? c_mcbond_it 1.55 1.50 ? ? 'X-RAY DIFFRACTION' ? c_mcangle_it 2.52 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scbond_it 2.36 2.00 ? ? 'X-RAY DIFFRACTION' ? c_scangle_it 3.41 2.50 ? ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.pdbx_total_number_of_bins_used 6 _refine_ls_shell.d_res_high 2.40 _refine_ls_shell.d_res_low 2.55 _refine_ls_shell.number_reflns_R_work 1612 _refine_ls_shell.R_factor_R_work 0.276 _refine_ls_shell.percent_reflns_obs 98.8 _refine_ls_shell.R_factor_R_free 0.385 _refine_ls_shell.R_factor_R_free_error 0.040 _refine_ls_shell.percent_reflns_R_free 5.3 _refine_ls_shell.number_reflns_R_free 91 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.number_reflns_all ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_ls_shell.R_factor_all ? # loop_ _pdbx_xplor_file.serial_no _pdbx_xplor_file.param_file _pdbx_xplor_file.topol_file _pdbx_xplor_file.pdbx_refine_id 1 PROTEIN_REP.PARAM PROTEIN.TOP 'X-RAY DIFFRACTION' 2 WATER.PARAM WATER.TOP 'X-RAY DIFFRACTION' 3 ION.PARAM ION.TOP 'X-RAY DIFFRACTION' 4 EGL_XPLOR_PARAM EGL_XPLOR_TOP 'X-RAY DIFFRACTION' # _database_PDB_matrix.entry_id 1YXK _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 1YXK _struct.title 'Crystal structure of human lectin-like oxidized low-density lipoprotein receptor 1 (LOX-1) disulfide-linked dimer' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 1YXK _struct_keywords.pdbx_keywords 'LIPID BINDING PROTEIN' _struct_keywords.text 'C-type lectin-like domain, LOX-1, CTLD, Scavenger receptor, Oxidized LDL receptor, NK cell receptor, LIPID BINDING PROTEIN' # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 2 ? # _struct_ref.id 1 _struct_ref.db_name UNP _struct_ref.db_code P78380_HUMAN _struct_ref.pdbx_db_accession P78380 _struct_ref.entity_id 1 _struct_ref.pdbx_seq_one_letter_code ;RVANCSAPCPQDWIWHGENCYLFSSGSFNWEKSQEKCLSLDAKLLKINSTADLDFIQQAISYSSFPFWMGLSRRNPSYPW LWEDGSPLMPHLFRVRGAVSQTYPSGTCAYIQRGAVYAENCILAAFSICQKKANL ; _struct_ref.pdbx_align_begin 136 _struct_ref.pdbx_db_isoform ? # 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 1YXK A 1 ? 135 ? P78380 136 ? 270 ? 136 270 2 1 1YXK B 1 ? 135 ? P78380 136 ? 270 ? 136 270 # _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1680 ? 1 MORE -12 ? 1 'SSA (A^2)' 13410 ? # _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 # _struct_biol.id 1 _struct_biol.pdbx_parent_biol_id ? _struct_biol.details ? # 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 ASN A 29 ? LEU A 40 ? ASN A 164 LEU A 175 1 ? 12 HELX_P HELX_P2 2 SER A 49 ? SER A 61 ? SER A 184 SER A 196 1 ? 13 HELX_P HELX_P3 3 TRP B 30 ? LEU B 40 ? TRP B 165 LEU B 175 1 ? 11 HELX_P HELX_P4 4 SER B 49 ? ILE B 60 ? SER B 184 ILE B 195 1 ? 12 # _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 9 SG ? ? ? 1_555 A CYS 20 SG ? ? A CYS 144 A CYS 155 1_555 ? ? ? ? ? ? ? 2.037 ? ? disulf2 disulf ? ? A CYS 37 SG ? ? ? 1_555 A CYS 129 SG ? ? A CYS 172 A CYS 264 1_555 ? ? ? ? ? ? ? 2.044 ? ? disulf3 disulf ? ? A CYS 108 SG ? ? ? 1_555 A CYS 121 SG ? ? A CYS 243 A CYS 256 1_555 ? ? ? ? ? ? ? 2.032 ? ? disulf4 disulf ? ? B CYS 9 SG ? ? ? 1_555 B CYS 20 SG ? ? B CYS 144 B CYS 155 1_555 ? ? ? ? ? ? ? 2.037 ? ? disulf5 disulf ? ? B CYS 37 SG ? ? ? 1_555 B CYS 129 SG ? ? B CYS 172 B CYS 264 1_555 ? ? ? ? ? ? ? 2.029 ? ? disulf6 disulf ? ? B CYS 108 SG ? ? ? 1_555 B CYS 121 SG ? ? B CYS 243 B CYS 256 1_555 ? ? ? ? ? ? ? 2.034 ? ? # _struct_conn_type.id disulf _struct_conn_type.criteria ? _struct_conn_type.reference ? # 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 9 ? CYS A 20 ? CYS A 144 ? 1_555 CYS A 155 ? 1_555 SG SG . . . None 'Disulfide bridge' 2 CYS A 37 ? CYS A 129 ? CYS A 172 ? 1_555 CYS A 264 ? 1_555 SG SG . . . None 'Disulfide bridge' 3 CYS A 108 ? CYS A 121 ? CYS A 243 ? 1_555 CYS A 256 ? 1_555 SG SG . . . None 'Disulfide bridge' 4 CYS B 9 ? CYS B 20 ? CYS B 144 ? 1_555 CYS B 155 ? 1_555 SG SG . . . None 'Disulfide bridge' 5 CYS B 37 ? CYS B 129 ? CYS B 172 ? 1_555 CYS B 264 ? 1_555 SG SG . . . None 'Disulfide bridge' 6 CYS B 108 ? CYS B 121 ? CYS B 243 ? 1_555 CYS B 256 ? 1_555 SG SG . . . None 'Disulfide bridge' # loop_ _struct_sheet.id _struct_sheet.type _struct_sheet.number_strands _struct_sheet.details A ? 11 ? B ? 12 ? # 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 ? anti-parallel A 2 3 ? anti-parallel A 3 4 ? anti-parallel A 4 5 ? anti-parallel A 5 6 ? parallel A 6 7 ? anti-parallel A 7 8 ? anti-parallel A 8 9 ? anti-parallel A 9 10 ? anti-parallel A 10 11 ? parallel B 1 2 ? anti-parallel B 2 3 ? anti-parallel B 3 4 ? anti-parallel B 4 5 ? anti-parallel B 5 6 ? anti-parallel B 6 7 ? anti-parallel B 7 8 ? parallel B 8 9 ? anti-parallel B 9 10 ? anti-parallel B 10 11 ? anti-parallel B 11 12 ? 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 ILE A 14 ? HIS A 16 ? ILE A 149 HIS A 151 A 2 ASN A 19 ? PHE A 23 ? ASN A 154 PHE A 158 A 3 PHE A 126 ? LYS A 132 ? PHE A 261 LYS A 267 A 4 LYS A 43 ? LEU A 44 ? LYS A 178 LEU A 179 A 5 PHE A 126 ? LYS A 132 ? PHE A 261 LYS A 267 A 6 PHE A 67 ? ARG A 73 ? PHE A 202 ARG A 208 A 7 LEU A 81 ? TRP A 82 ? LEU A 216 TRP A 217 A 8 PHE A 67 ? ARG A 73 ? PHE A 202 ARG A 208 A 9 THR A 107 ? GLN A 112 ? THR A 242 GLN A 247 A 10 ALA A 115 ? ASN A 120 ? ALA A 250 ASN A 255 A 11 ARG A 96 ? GLY A 97 ? ARG A 231 GLY A 232 B 1 ILE B 14 ? HIS B 16 ? ILE B 149 HIS B 151 B 2 ASN B 19 ? PHE B 23 ? ASN B 154 PHE B 158 B 3 ALA B 124 ? LYS B 132 ? ALA B 259 LYS B 267 B 4 PHE B 28 ? ASN B 29 ? PHE B 163 ASN B 164 B 5 ALA B 124 ? LYS B 132 ? ALA B 259 LYS B 267 B 6 LYS B 43 ? LEU B 44 ? LYS B 178 LEU B 179 B 7 ALA B 124 ? LYS B 132 ? ALA B 259 LYS B 267 B 8 PHE B 67 ? ARG B 73 ? PHE B 202 ARG B 208 B 9 LEU B 81 ? TRP B 82 ? LEU B 216 TRP B 217 B 10 PHE B 67 ? ARG B 73 ? PHE B 202 ARG B 208 B 11 THR B 107 ? GLN B 112 ? THR B 242 GLN B 247 B 12 ALA B 115 ? ASN B 120 ? ALA B 250 ASN B 255 # 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 HIS A 16 ? N HIS A 151 O ASN A 19 ? O ASN A 154 A 2 3 O LEU A 22 ? O LEU A 157 N CYS A 129 ? N CYS A 264 A 3 4 N GLN A 130 ? N GLN A 265 O LYS A 43 ? O LYS A 178 A 4 5 O LYS A 43 ? O LYS A 178 N GLN A 130 ? N GLN A 265 A 5 6 O PHE A 126 ? O PHE A 261 N TRP A 68 ? N TRP A 203 A 6 7 N SER A 72 ? N SER A 207 O LEU A 81 ? O LEU A 216 A 7 8 O LEU A 81 ? O LEU A 216 N SER A 72 ? N SER A 207 A 8 9 N ARG A 73 ? N ARG A 208 O THR A 107 ? O THR A 242 A 9 10 N GLN A 112 ? N GLN A 247 O ALA A 115 ? O ALA A 250 A 10 11 O VAL A 116 ? O VAL A 251 N ARG A 96 ? N ARG A 231 B 1 2 N HIS B 16 ? N HIS B 151 O ASN B 19 ? O ASN B 154 B 2 3 O LEU B 22 ? O LEU B 157 N CYS B 129 ? N CYS B 264 B 3 4 O ALA B 125 ? O ALA B 260 N PHE B 28 ? N PHE B 163 B 4 5 N PHE B 28 ? N PHE B 163 O ALA B 125 ? O ALA B 260 B 5 6 N GLN B 130 ? N GLN B 265 O LYS B 43 ? O LYS B 178 B 6 7 O LYS B 43 ? O LYS B 178 N GLN B 130 ? N GLN B 265 B 7 8 O PHE B 126 ? O PHE B 261 N TRP B 68 ? N TRP B 203 B 8 9 O SER B 72 ? O SER B 207 N LEU B 81 ? N LEU B 216 B 9 10 N LEU B 81 ? N LEU B 216 O SER B 72 ? O SER B 207 B 10 11 N ARG B 73 ? N ARG B 208 O THR B 107 ? O THR B 242 B 11 12 N GLN B 112 ? N GLN B 247 O ALA B 115 ? O ALA B 250 # _pdbx_entry_details.entry_id 1YXK _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 ASP A 147 ? ? 82.67 -13.92 2 1 TYR A 197 ? ? -69.25 4.51 3 1 CYS B 140 ? ? -146.16 -38.36 4 1 SER B 141 ? ? 59.42 109.47 5 1 ASP B 147 ? ? 83.35 -5.65 6 1 ALA B 177 ? ? -129.69 -149.71 7 1 PRO B 225 ? ? -56.71 -72.70 8 1 HIS B 226 ? ? -28.38 -42.20 # 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 A ARG 136 ? A ARG 1 2 1 Y 1 A VAL 137 ? A VAL 2 3 1 Y 1 A ALA 138 ? A ALA 3 4 1 Y 1 A ASN 139 ? A ASN 4 5 1 Y 1 A CYS 140 ? A CYS 5 # 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 PHE N N N N 250 PHE CA C N S 251 PHE C C N N 252 PHE O O N N 253 PHE CB C N N 254 PHE CG C Y N 255 PHE CD1 C Y N 256 PHE CD2 C Y N 257 PHE CE1 C Y N 258 PHE CE2 C Y N 259 PHE CZ C Y N 260 PHE OXT O N N 261 PHE H H N N 262 PHE H2 H N N 263 PHE HA H N N 264 PHE HB2 H N N 265 PHE HB3 H N N 266 PHE HD1 H N N 267 PHE HD2 H N N 268 PHE HE1 H N N 269 PHE HE2 H N N 270 PHE HZ H N N 271 PHE HXT H N N 272 PRO N N N N 273 PRO CA C N S 274 PRO C C N N 275 PRO O O N N 276 PRO CB C N N 277 PRO CG C N N 278 PRO CD C N N 279 PRO OXT O N N 280 PRO H H N N 281 PRO HA H N N 282 PRO HB2 H N N 283 PRO HB3 H N N 284 PRO HG2 H N N 285 PRO HG3 H N N 286 PRO HD2 H N N 287 PRO HD3 H N N 288 PRO HXT H N N 289 SER N N N N 290 SER CA C N S 291 SER C C N N 292 SER O O N N 293 SER CB C N N 294 SER OG O N N 295 SER OXT O N N 296 SER H H N N 297 SER H2 H N N 298 SER HA H N N 299 SER HB2 H N N 300 SER HB3 H N N 301 SER HG H N N 302 SER HXT H N N 303 THR N N N N 304 THR CA C N S 305 THR C C N N 306 THR O O N N 307 THR CB C N R 308 THR OG1 O N N 309 THR CG2 C N N 310 THR OXT O N N 311 THR H H N N 312 THR H2 H N N 313 THR HA H N N 314 THR HB H N N 315 THR HG1 H N N 316 THR HG21 H N N 317 THR HG22 H N N 318 THR HG23 H N N 319 THR HXT H N N 320 TRP N N N N 321 TRP CA C N S 322 TRP C C N N 323 TRP O O N N 324 TRP CB C N N 325 TRP CG C Y N 326 TRP CD1 C Y N 327 TRP CD2 C Y N 328 TRP NE1 N Y N 329 TRP CE2 C Y N 330 TRP CE3 C Y N 331 TRP CZ2 C Y N 332 TRP CZ3 C Y N 333 TRP CH2 C Y N 334 TRP OXT O N N 335 TRP H H N N 336 TRP H2 H N N 337 TRP HA H N N 338 TRP HB2 H N N 339 TRP HB3 H N N 340 TRP HD1 H N N 341 TRP HE1 H N N 342 TRP HE3 H N N 343 TRP HZ2 H N N 344 TRP HZ3 H N N 345 TRP HH2 H N N 346 TRP HXT H N N 347 TYR N N N N 348 TYR CA C N S 349 TYR C C N N 350 TYR O O N N 351 TYR CB C N N 352 TYR CG C Y N 353 TYR CD1 C Y N 354 TYR CD2 C Y N 355 TYR CE1 C Y N 356 TYR CE2 C Y N 357 TYR CZ C Y N 358 TYR OH O N N 359 TYR OXT O N N 360 TYR H H N N 361 TYR H2 H N N 362 TYR HA H N N 363 TYR HB2 H N N 364 TYR HB3 H N N 365 TYR HD1 H N N 366 TYR HD2 H N N 367 TYR HE1 H N N 368 TYR HE2 H N N 369 TYR HH H N N 370 TYR HXT H N N 371 VAL N N N N 372 VAL CA C N S 373 VAL C C N N 374 VAL O O N N 375 VAL CB C N N 376 VAL CG1 C N N 377 VAL CG2 C N N 378 VAL OXT O N N 379 VAL H H N N 380 VAL H2 H N N 381 VAL HA H N N 382 VAL HB H N N 383 VAL HG11 H N N 384 VAL HG12 H N N 385 VAL HG13 H N N 386 VAL HG21 H N N 387 VAL HG22 H N N 388 VAL HG23 H N N 389 VAL HXT H N N 390 # 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 # _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.accession_code 1YXJ _pdbx_initial_refinement_model.details 'LOX-1 structure (MAD) at acidic pH. PDB entry 1YXJ' # _atom_sites.entry_id 1YXK _atom_sites.fract_transf_matrix[1][1] 0.014112 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.002132 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.020187 _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] 0.013181 _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 O S # loop_