data_8EOG # _model_server_result.job_id rF75pHTcG5FlheCU-HEEdQ _model_server_result.datetime_utc '2025-01-22 04:22:49' _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 8eog # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":1704}' # _entry.id 8EOG # _exptl.entry_id 8EOG _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 579.746 _entity.id 11 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(2R)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(dodecanoyloxy)propyl dodecanoate' _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 8EOG _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8EOG _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _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 ? _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 11 _struct_asym.id R _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 4 oligosaccharide 5 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 4 n D NAG 1 A 1 NAG D 1105 NAG 4 n D NAG 2 A 2 NAG D 1106 NAG 4 n D NAG 3 A 3 NAG D 1107 NAG 5 n E NAG 1 B 1 NAG D 1110 NAG 5 n E NAG 2 B 2 NAG D 1111 NAG 5 n F NAG 1 E 1 NAG D 1113 NAG 5 n F NAG 2 E 2 NAG D 1114 NAG # 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 disulf ? disulf1 A SG CYS 277 D CYS 305 1_555 A SG CYS 1018 D CYS 1046 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 328 D CYS 356 1_555 A SG CYS 1033 D CYS 1061 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 A SG CYS 378 D CYS 406 1_555 A SG CYS 1045 D CYS 1073 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 641 D CYS 669 1_555 A SG CYS 671 D CYS 699 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 878 D CYS 906 1_555 A SG CYS 948 D CYS 976 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 A SG CYS 970 D CYS 998 1_555 A SG CYS 1000 D CYS 1028 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 973 D CYS 1001 1_555 A SG CYS 998 D CYS 1026 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 B SG CYS 205 K CYS 316 1_555 B SG CYS 221 K CYS 332 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf9 B SG CYS 947 K CYS 1058 1_555 B SG CYS 958 K CYS 1069 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 B SG CYS 1320 K CYS 1431 1_555 B SG CYS 1336 K CYS 1447 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 D O4 NAG . A NAG 1 1_555 D C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 D O4 NAG . A NAG 2 1_555 D C1 NAG . A NAG 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale3 E O4 NAG . B NAG 1 1_555 E C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale4 F O4 NAG . E NAG 1 1_555 F C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? metalc ? metalc1 A OG SER 235 D SER 263 1_555 L CA CA . D CA 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.023 ? metalc ? metalc2 A OG SER 237 D SER 265 1_555 L CA CA . D CA 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc3 A OG1 THR 305 D THR 333 1_555 L CA CA . D CA 1106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.518 ? metalc ? metalc4 A O TRP 420 D TRP 448 1_555 M NA NA . D NA 1107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc5 L CA CA . D CA 1106 1_555 B OD2 ASP 40 K ASP 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.003 ? metalc ? metalc6 B OE1 GLU 252 K GLU 363 1_555 T CA CA . K CA 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.065 ? metalc ? metalc7 B OE1 GLU 595 K GLU 706 1_555 T CA CA . K CA 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.098 ? metalc ? metalc8 B OE2 GLU 1004 K GLU 1115 1_555 T CA CA . K CA 1706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? # _chem_comp.formula 'C29 H58 N O8 P' _chem_comp.formula_weight 579.746 _chem_comp.id WNZ _chem_comp.mon_nstd_flag . _chem_comp.name '(2R)-3-{[(R)-(2-aminoethoxy)(hydroxy)phosphoryl]oxy}-2-(dodecanoyloxy)propyl dodecanoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C01 C02 WNZ sing 483 n n C02 C03 WNZ sing 484 n n C03 C04 WNZ sing 485 n n C04 C05 WNZ sing 486 n n C39 C38 WNZ sing 487 n n C05 C06 WNZ sing 488 n n C38 C37 WNZ sing 489 n n C06 C07 WNZ sing 490 n n C37 C36 WNZ sing 491 n n C07 C08 WNZ sing 492 n n C36 C35 WNZ sing 493 n n C08 C09 WNZ sing 494 n n C35 C34 WNZ sing 495 n n C09 C10 WNZ sing 496 n n C10 C11 WNZ sing 497 n n C34 C33 WNZ sing 498 n n C33 C32 WNZ sing 499 n n C11 C12 WNZ sing 500 n n O13 C12 WNZ doub 501 n n C12 O14 WNZ sing 502 n n C32 C31 WNZ sing 503 n n C31 C30 WNZ sing 504 n n O14 C15 WNZ sing 505 n n C29 C30 WNZ sing 506 n n C29 C27 WNZ sing 507 n n C15 C16 WNZ sing 508 n n C16 O26 WNZ sing 509 n n C16 C17 WNZ sing 510 n n C27 O26 WNZ sing 511 n n C27 O28 WNZ doub 512 n n O18 C17 WNZ sing 513 n n O18 P19 WNZ sing 514 n n O21 P19 WNZ doub 515 n n P19 O22 WNZ sing 516 n n P19 O20 WNZ sing 517 n n O22 C23 WNZ sing 518 n n C23 C24 WNZ sing 519 n n N25 C24 WNZ sing 520 n n C01 H1 WNZ sing 521 n n C01 H2 WNZ sing 522 n n C01 H3 WNZ sing 523 n n C02 H4 WNZ sing 524 n n C02 H5 WNZ sing 525 n n C03 H6 WNZ sing 526 n n C03 H7 WNZ sing 527 n n C04 H8 WNZ sing 528 n n C04 H9 WNZ sing 529 n n C05 H10 WNZ sing 530 n n C05 H11 WNZ sing 531 n n C06 H12 WNZ sing 532 n n C06 H13 WNZ sing 533 n n C07 H14 WNZ sing 534 n n C07 H15 WNZ sing 535 n n C08 H16 WNZ sing 536 n n C08 H17 WNZ sing 537 n n C09 H18 WNZ sing 538 n n C09 H19 WNZ sing 539 n n C10 H20 WNZ sing 540 n n C10 H21 WNZ sing 541 n n C11 H22 WNZ sing 542 n n C11 H23 WNZ sing 543 n n C15 H24 WNZ sing 544 n n C15 H25 WNZ sing 545 n n C16 H26 WNZ sing 546 n n C17 H27 WNZ sing 547 n n C17 H28 WNZ sing 548 n n C23 H29 WNZ sing 549 n n C23 H30 WNZ sing 550 n n C24 H31 WNZ sing 551 n n C24 H32 WNZ sing 552 n n C29 H33 WNZ sing 553 n n C29 H34 WNZ sing 554 n n C30 H35 WNZ sing 555 n n C30 H36 WNZ sing 556 n n C31 H37 WNZ sing 557 n n C31 H38 WNZ sing 558 n n C32 H39 WNZ sing 559 n n C32 H40 WNZ sing 560 n n C33 H41 WNZ sing 561 n n C33 H42 WNZ sing 562 n n C34 H43 WNZ sing 563 n n C34 H44 WNZ sing 564 n n C35 H45 WNZ sing 565 n n C35 H46 WNZ sing 566 n n C36 H47 WNZ sing 567 n n C36 H48 WNZ sing 568 n n C37 H49 WNZ sing 569 n n C37 H50 WNZ sing 570 n n C38 H51 WNZ sing 571 n n C38 H52 WNZ sing 572 n n C39 H53 WNZ sing 573 n n C39 H54 WNZ sing 574 n n C39 H55 WNZ sing 575 n n N25 H56 WNZ sing 576 n n N25 H57 WNZ sing 577 n n O20 H59 WNZ sing 578 n n # _atom_sites.entry_id 8EOG _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 G 6 NAG D 1 1101 1102 NAG NAG . H 6 NAG D 1 1102 1103 NAG NAG . I 6 NAG D 1 1103 1104 NAG NAG . J 6 NAG D 1 1104 1109 NAG NAG . K 6 NAG D 1 1105 1115 NAG NAG . L 7 CA D 1 1106 3 CA CA . M 8 NA D 1 1107 1 NA NA . N 9 LEU D 1 1108 1 LEU UNL . O 10 CLR K 1 1701 1702 CLR CLR . P 10 CLR K 1 1702 1703 CLR CLR . Q 10 CLR K 1 1703 1704 CLR CLR . R 11 WNZ K 1 1704 1705 WNZ P12 . S 12 WO9 K 1 1705 1706 WO9 P18 . T 7 CA K 1 1706 1 CA CA . U 7 CA K 1 1707 2 CA CA . V 13 HOH K 1 1801 3 HOH HOH . V 13 HOH K 2 1802 1 HOH HOH . V 13 HOH K 3 1803 2 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 C C01 WNZ . . . R 11 165.881 176.978 183.641 1 73.28 ? C01 WNZ 1704 K 1 HETATM 2 C C02 WNZ . . . R 11 166.848 176.093 184.424 1 73.28 ? C02 WNZ 1704 K 1 HETATM 3 C C03 WNZ . . . R 11 166.396 176.017 185.881 1 73.28 ? C03 WNZ 1704 K 1 HETATM 4 C C04 WNZ . . . R 11 167.618 175.931 186.79 1 73.28 ? C04 WNZ 1704 K 1 HETATM 5 C C05 WNZ . . . R 11 167.669 174.542 187.422 1 73.28 ? C05 WNZ 1704 K 1 HETATM 6 C C06 WNZ . . . R 11 167.42 174.657 188.923 1 73.28 ? C06 WNZ 1704 K 1 HETATM 7 C C07 WNZ . . . R 11 168.485 173.861 189.671 1 73.28 ? C07 WNZ 1704 K 1 HETATM 8 C C08 WNZ . . . R 11 168.264 174.006 191.174 1 73.28 ? C08 WNZ 1704 K 1 HETATM 9 C C09 WNZ . . . R 11 167.509 172.783 191.687 1 73.28 ? C09 WNZ 1704 K 1 HETATM 10 C C10 WNZ . . . R 11 168.354 172.069 192.737 1 73.28 ? C10 WNZ 1704 K 1 HETATM 11 C C11 WNZ . . . R 11 168.498 172.962 193.966 1 73.28 ? C11 WNZ 1704 K 1 HETATM 12 C C12 WNZ . . . R 11 168.92 172.104 195.154 1 73.28 ? C12 WNZ 1704 K 1 HETATM 13 C C15 WNZ . . . R 11 168.684 172.403 197.468 1 73.28 ? C15 WNZ 1704 K 1 HETATM 14 C C16 WNZ . . . R 11 168.805 173.556 198.466 1 73.28 ? C16 WNZ 1704 K 1 HETATM 15 C C17 WNZ . . . R 11 169.302 173.016 199.807 1 73.28 ? C17 WNZ 1704 K 1 HETATM 16 C C23 WNZ . . . R 11 173.079 174.17 201.647 1 73.28 ? C23 WNZ 1704 K 1 HETATM 17 C C24 WNZ . . . R 11 172.952 175.572 202.24 1 73.28 ? C24 WNZ 1704 K 1 HETATM 18 C C27 WNZ . . . R 11 166.402 173.491 198.519 1 73.28 ? C27 WNZ 1704 K 1 HETATM 19 C C29 WNZ . . . R 11 165.46 173.748 197.342 1 73.28 ? C29 WNZ 1704 K 1 HETATM 20 C C30 WNZ . . . R 11 164.165 172.956 197.522 1 73.28 ? C30 WNZ 1704 K 1 HETATM 21 C C31 WNZ . . . R 11 163.539 172.637 196.163 1 73.28 ? C31 WNZ 1704 K 1 HETATM 22 C C32 WNZ . . . R 11 163.724 173.81 195.201 1 73.28 ? C32 WNZ 1704 K 1 HETATM 23 C C33 WNZ . . . R 11 163.134 173.464 193.836 1 73.28 ? C33 WNZ 1704 K 1 HETATM 24 C C34 WNZ . . . R 11 163.68 174.44 192.795 1 73.28 ? C34 WNZ 1704 K 1 HETATM 25 C C35 WNZ . . . R 11 162.808 174.408 191.542 1 73.28 ? C35 WNZ 1704 K 1 HETATM 26 C C36 WNZ . . . R 11 163.187 175.58 190.639 1 73.28 ? C36 WNZ 1704 K 1 HETATM 27 C C37 WNZ . . . R 11 162.622 175.356 189.238 1 73.28 ? C37 WNZ 1704 K 1 HETATM 28 C C38 WNZ . . . R 11 162.825 176.618 188.402 1 73.28 ? C38 WNZ 1704 K 1 HETATM 29 C C39 WNZ . . . R 11 161.819 176.645 187.255 1 73.28 ? C39 WNZ 1704 K 1 HETATM 30 N N25 WNZ . . . R 11 171.729 176.189 201.759 1 73.28 ? N25 WNZ 1704 K 1 HETATM 31 O O13 WNZ . . . R 11 168.83 170.925 195.091 1 73.28 ? O13 WNZ 1704 K 1 HETATM 32 O O14 WNZ . . . R 11 169.416 172.706 196.315 1 73.28 ? O14 WNZ 1704 K 1 HETATM 33 O O18 WNZ . . . R 11 170.352 172.119 199.587 1 73.28 ? O18 WNZ 1704 K 1 HETATM 34 O O20 WNZ . . . R 11 171.71 171.244 201.585 1 73.28 ? O20 WNZ 1704 K 1 HETATM 35 O O21 WNZ . . . R 11 172.901 171.86 199.775 1 73.28 ? O21 WNZ 1704 K 1 HETATM 36 O O22 WNZ . . . R 11 171.844 173.77 201.126 1 73.28 ? O22 WNZ 1704 K 1 HETATM 37 O O26 WNZ . . . R 11 167.586 174.234 198.646 1 73.28 ? O26 WNZ 1704 K 1 HETATM 38 O O28 WNZ . . . R 11 166.116 172.68 199.336 1 73.28 ? O28 WNZ 1704 K 1 HETATM 39 P P19 WNZ . . . R 11 171.705 172.243 200.52 1 73.28 ? P19 WNZ 1704 K 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 273 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 39 #