data_3IR6 # _model_server_result.job_id hp7x-ad1r0wNWirxuzqbsA _model_server_result.datetime_utc '2024-11-24 04:45:21' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 3ir6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":1249}' # _entry.id 3IR6 # _exptl.entry_id 3IR6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 455.457 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(1S)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PENTANOYLOXY)METHYL]ETHYL OCTANOATE' _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 3IR6 _cell.length_a 154.142 _cell.length_b 239.825 _cell.length_c 139.873 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IR6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA trimeric 3 author_and_software_defined_assembly 1 PISA hexameric 6 software_defined_assembly 2 PISA hexameric 6 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 2 1,2 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O 3 1,3 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_354 -x-2,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 -308.284 0 -69.9365 3 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_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_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 C C FME 1 C FME 1 1_555 C N GLN 2 C GLN 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.353 ? metalc ? metalc1 B SG CYS 16 B CYS 16 1_555 G FE4 SF4 . B SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc2 B SG CYS 19 B CYS 19 1_555 G FE3 SF4 . B SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.305 ? metalc ? metalc3 B SG CYS 22 B CYS 22 1_555 G FE2 SF4 . B SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? metalc ? metalc4 B SG CYS 26 B CYS 26 1_555 H FE4 SF4 . B SF4 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc5 B SG CYS 184 B CYS 184 1_555 I FE1 SF4 . B SF4 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.296 ? metalc ? metalc6 B SG CYS 187 B CYS 187 1_555 I FE2 SF4 . B SF4 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc7 B SG CYS 192 B CYS 192 1_555 I FE3 SF4 . B SF4 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc8 B SG CYS 196 B CYS 196 1_555 J FE1 F3S . B F3S 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc9 B SG CYS 217 B CYS 217 1_555 J FE4 F3S . B F3S 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc10 B SG CYS 223 B CYS 223 1_555 J FE3 F3S . B F3S 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.265 ? metalc ? metalc11 B SG CYS 227 B CYS 227 1_555 I FE4 SF4 . B SF4 804 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.291 ? metalc ? metalc12 B SG CYS 244 B CYS 244 1_555 H FE2 SF4 . B SF4 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc13 B SG CYS 247 B CYS 247 1_555 H FE1 SF4 . B SF4 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc14 B SG CYS 259 B CYS 259 1_555 H FE3 SF4 . B SF4 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc15 B SG CYS 263 B CYS 263 1_555 G FE1 SF4 . B SF4 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc16 C NE2 HIS 56 C HIS 56 1_555 K FE HEM . C HEM 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc17 C NE2 HIS 66 C HIS 66 1_555 L FE HEM . C HEM 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? metalc ? metalc18 C NE2 HIS 187 C HIS 187 1_555 L FE HEM . C HEM 807 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? metalc ? metalc19 C NE2 HIS 205 C HIS 205 1_555 K FE HEM . C HEM 806 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? # _chem_comp.formula 'C19 H36 O10 P -1' _chem_comp.formula_weight 455.457 _chem_comp.id AGA _chem_comp.mon_nstd_flag . _chem_comp.name '(1S)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}-1-[(PENTANOYLOXY)METHYL]ETHYL OCTANOATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PHOSPHATIDYL GLYCEROL' # _atom_sites.entry_id 3IR6 _atom_sites.fract_transf_matrix[1][1] 0.006488 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00417 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.007149 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_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_ins_code D 4 GDP A 1 1247 900 GDP GDP . E 4 GDP A 1 1248 901 GDP GDP . F 5 AGA A 1 1249 309 AGA AGA . G 6 SF4 B 1 802 802 SF4 SF4 . H 6 SF4 B 1 803 803 SF4 SF4 . I 6 SF4 B 1 804 804 SF4 SF4 . J 7 F3S B 1 805 805 F3S F3S . K 8 HEM C 1 806 806 HEM HEM . L 8 HEM C 1 807 807 HEM HEM . M 9 HOH A 1 1250 1 HOH HOH . M 9 HOH A 2 1251 2 HOH HOH . M 9 HOH A 3 1252 5 HOH HOH . M 9 HOH A 4 1253 6 HOH HOH . M 9 HOH A 5 1254 8 HOH HOH . M 9 HOH A 6 1255 9 HOH HOH . M 9 HOH A 7 1256 16 HOH HOH . M 9 HOH A 8 1257 19 HOH HOH . M 9 HOH A 9 1258 20 HOH HOH . M 9 HOH A 10 1259 22 HOH HOH . M 9 HOH A 11 1260 24 HOH HOH . M 9 HOH A 12 1261 27 HOH HOH . M 9 HOH A 13 1262 29 HOH HOH . M 9 HOH A 14 1263 30 HOH HOH . M 9 HOH A 15 1264 31 HOH HOH . M 9 HOH A 16 1265 32 HOH HOH . M 9 HOH A 17 1266 33 HOH HOH . M 9 HOH A 18 1267 34 HOH HOH . M 9 HOH A 19 1268 39 HOH HOH . M 9 HOH A 20 1269 41 HOH HOH . M 9 HOH A 21 1270 43 HOH HOH . M 9 HOH A 22 1271 44 HOH HOH . M 9 HOH A 23 1272 45 HOH HOH . M 9 HOH A 24 1273 47 HOH HOH . M 9 HOH A 25 1274 48 HOH HOH . M 9 HOH A 26 1275 49 HOH HOH . M 9 HOH A 27 1276 50 HOH HOH . M 9 HOH A 28 1277 51 HOH HOH . M 9 HOH A 29 1278 52 HOH HOH . M 9 HOH A 30 1279 53 HOH HOH . M 9 HOH A 31 1280 54 HOH HOH . M 9 HOH A 32 1281 55 HOH HOH . M 9 HOH A 33 1282 56 HOH HOH . M 9 HOH A 34 1283 63 HOH HOH . M 9 HOH A 35 1284 67 HOH HOH . M 9 HOH A 36 1285 68 HOH HOH . M 9 HOH A 37 1286 73 HOH HOH . M 9 HOH A 38 1287 74 HOH HOH . M 9 HOH A 39 1288 75 HOH HOH . M 9 HOH A 40 1289 77 HOH HOH . M 9 HOH A 41 1290 80 HOH HOH . M 9 HOH A 42 1291 82 HOH HOH . M 9 HOH A 43 1292 83 HOH HOH . N 9 HOH B 1 513 4 HOH HOH . N 9 HOH B 2 514 7 HOH HOH . N 9 HOH B 3 515 10 HOH HOH . N 9 HOH B 4 516 12 HOH HOH . N 9 HOH B 5 517 14 HOH HOH . N 9 HOH B 6 518 15 HOH HOH . N 9 HOH B 7 519 18 HOH HOH . N 9 HOH B 8 520 21 HOH HOH . N 9 HOH B 9 521 23 HOH HOH . N 9 HOH B 10 522 25 HOH HOH . N 9 HOH B 11 523 28 HOH HOH . N 9 HOH B 12 524 38 HOH HOH . N 9 HOH B 13 525 40 HOH HOH . N 9 HOH B 14 526 42 HOH HOH . N 9 HOH B 15 527 46 HOH HOH . N 9 HOH B 16 528 57 HOH HOH . N 9 HOH B 17 529 58 HOH HOH . N 9 HOH B 18 530 60 HOH HOH . N 9 HOH B 19 531 61 HOH HOH . N 9 HOH B 20 532 62 HOH HOH . N 9 HOH B 21 533 64 HOH HOH . N 9 HOH B 22 534 65 HOH HOH . N 9 HOH B 23 535 69 HOH HOH . N 9 HOH B 24 536 70 HOH HOH . N 9 HOH B 25 537 71 HOH HOH . N 9 HOH B 26 538 72 HOH HOH . N 9 HOH B 27 539 76 HOH HOH . N 9 HOH B 28 540 78 HOH HOH . N 9 HOH B 29 541 79 HOH HOH . O 9 HOH C 1 226 3 HOH HOH . O 9 HOH C 2 227 11 HOH HOH . O 9 HOH C 3 228 13 HOH HOH . O 9 HOH C 4 229 17 HOH HOH . O 9 HOH C 5 230 26 HOH HOH . O 9 HOH C 6 231 35 HOH HOH . O 9 HOH C 7 232 36 HOH HOH . O 9 HOH C 8 233 37 HOH HOH . O 9 HOH C 9 234 59 HOH HOH . O 9 HOH C 10 235 66 HOH HOH . O 9 HOH C 11 236 81 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 P P1 AGA . . . F 5 -159.649 -18.39 -19.186 1 44.14 ? P1 AGA 1249 A 1 HETATM 2 O O3 AGA . . . F 5 -159.995 -19.582 -20.048 1 44.14 ? O3 AGA 1249 A 1 HETATM 3 O O4 AGA . . . F 5 -158.14 -18.282 -18.856 1 44.14 ? O4 AGA 1249 A 1 HETATM 4 O O5 AGA . . . F 5 -160.446 -18.429 -17.834 1 44.14 ? O5 AGA 1249 A 1 HETATM 5 O O6 AGA . . . F 5 -160.069 -17.024 -19.921 1 44.14 ? O6 AGA 1249 A 1 HETATM 6 C C4 AGA . . . F 5 -159.844 -15.744 -19.331 1 44.14 ? C4 AGA 1249 A 1 HETATM 7 C C5 AGA . . . F 5 -160.364 -14.683 -20.233 1 44.14 ? C5 AGA 1249 A 1 HETATM 8 C C6 AGA . . . F 5 -160.791 -13.421 -19.517 1 44.14 ? C6 AGA 1249 A 1 HETATM 9 O O7 AGA . . . F 5 -161.236 -12.453 -20.503 1 44.14 ? O7 AGA 1249 A 1 HETATM 10 C C7 AGA . . . F 5 -162.546 -12.234 -20.844 1 44.14 ? C7 AGA 1249 A 1 HETATM 11 O O8 AGA . . . F 5 -163.43 -13.09 -20.916 1 44.14 ? O8 AGA 1249 A 1 HETATM 12 C C8 AGA . . . F 5 -162.773 -10.701 -21.164 1 44.14 ? C8 AGA 1249 A 1 HETATM 13 C C9 AGA . . . F 5 -163.519 -9.991 -22.322 1 44.14 ? C9 AGA 1249 A 1 HETATM 14 C C10 AGA . . . F 5 -163.147 -8.52 -22.488 1 44.14 ? C10 AGA 1249 A 1 HETATM 15 C C11 AGA . . . F 5 -163.544 -7.921 -23.832 1 44.14 ? C11 AGA 1249 A 1 HETATM 16 O O9 AGA . . . F 5 -159.393 -14.375 -21.302 1 44.14 ? O9 AGA 1249 A 1 HETATM 17 C C12 AGA . . . F 5 -159.753 -14.27 -22.625 1 44.14 ? C12 AGA 1249 A 1 HETATM 18 O O10 AGA . . . F 5 -160.868 -14.459 -23.055 1 44.14 ? O10 AGA 1249 A 1 HETATM 19 C C13 AGA . . . F 5 -158.678 -13.681 -23.513 1 44.14 ? C13 AGA 1249 A 1 HETATM 20 C C14 AGA . . . F 5 -158.684 -13.192 -24.958 1 44.14 ? C14 AGA 1249 A 1 HETATM 21 C C15 AGA . . . F 5 -159.549 -11.909 -25.05 1 44.14 ? C15 AGA 1249 A 1 HETATM 22 C C16 AGA . . . F 5 -159.656 -11.292 -26.447 1 44.14 ? C16 AGA 1249 A 1 HETATM 23 C C17 AGA . . . F 5 -160.547 -10.009 -26.499 1 44.14 ? C17 AGA 1249 A 1 HETATM 24 C C18 AGA . . . F 5 -160.706 -9.335 -27.894 1 44.14 ? C18 AGA 1249 A 1 HETATM 25 C C19 AGA . . . F 5 -161.617 -8.089 -27.847 1 44.14 ? C19 AGA 1249 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 370 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 25 #