data_7OH6 # _model_server_result.job_id n0alG9DZRo8hWLxUrxZ0HQ _model_server_result.datetime_utc '2024-11-21 14:07:54' _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 7oh6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1504}' # _entry.id 7OH6 # _exptl.entry_id 7OH6 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 764.022 _entity.id 8 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description O-[(R)-[(2S)-2-(hexadecanoyloxy)-3-(octadecanoyloxy)propoxy](hydroxy)phosphoryl]-D-serine _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 7OH6 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7OH6 _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 PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J _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 8 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 4 3 2 BMA 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 3 n C NAG 1 B 1 NAG C 501 NAG 3 n C NAG 2 B 2 NAG C 502 NAG 4 n D NAG 1 D 1 NAG C 507 NAG 4 n D NAG 2 D 2 NAG C 508 NAG 4 n D BMA 3 D 3 BMA C 509 BMA # 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 B SG CYS 80 C CYS 80 1_555 B SG CYS 123 C CYS 123 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf2 B SG CYS 176 C CYS 176 1_555 B SG CYS 190 C CYS 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? covale ? covale1 B ND2 ASN 199 C ASN 199 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 B ND2 ASN 216 C ASN 216 1_555 I C1 NAG . C NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale3 B ND2 ASN 288 C ASN 288 1_555 C C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale4 C O4 NAG . B NAG 1 1_555 C C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale5 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale6 D O4 NAG . D NAG 2 1_555 D C1 BMA . D BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? metalc ? metalc1 A OD2 ASP 560 A ASP 560 1_555 G MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc2 A O THR 562 A THR 562 1_555 G MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc3 A OD1 ASP 954 A ASP 954 1_555 G MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc4 G MG MG . A MG 1503 1_555 J O HOH . A HOH 1601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.974 ? metalc ? metalc5 G MG MG . A MG 1503 1_555 J O HOH . A HOH 1602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.007 ? # _chem_comp.formula 'C40 H78 N O10 P' _chem_comp.formula_weight 764.022 _chem_comp.id Q3G _chem_comp.mon_nstd_flag . _chem_comp.name O-[(R)-[(2S)-2-(hexadecanoyloxy)-3-(octadecanoyloxy)propoxy](hydroxy)phosphoryl]-D-serine _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 N34 C30 Q3G sing 484 n n O32 C31 Q3G doub 485 n n C30 C31 Q3G sing 486 n n C30 C29 Q3G sing 487 n n C31 O33 Q3G sing 488 n n C29 O28 Q3G sing 489 n n O28 P25 Q3G sing 490 n n O26 P25 Q3G doub 491 n n P25 O24 Q3G sing 492 n n P25 O27 Q3G sing 493 n n O24 C23 Q3G sing 494 n n C23 C22 Q3G sing 495 n n O35 C22 Q3G sing 496 n n O35 C36 Q3G sing 497 n n C22 C21 Q3G sing 498 n n O20 C21 Q3G sing 499 n n O20 C18 Q3G sing 500 n n C17 C18 Q3G sing 501 n n C17 C16 Q3G sing 502 n n C18 O19 Q3G doub 503 n n C38 C36 Q3G sing 504 n n C38 C39 Q3G sing 505 n n C36 O37 Q3G doub 506 n n C16 C15 Q3G sing 507 n n C39 C40 Q3G sing 508 n n C15 C14 Q3G sing 509 n n C41 C40 Q3G sing 510 n n C41 C42 Q3G sing 511 n n C14 C13 Q3G sing 512 n n C42 C43 Q3G sing 513 n n C43 C44 Q3G sing 514 n n C13 C12 Q3G sing 515 n n C44 C45 Q3G sing 516 n n C12 C11 Q3G sing 517 n n C11 C10 Q3G sing 518 n n C10 C09 Q3G sing 519 n n C10 H1 Q3G sing 520 n n C13 H2 Q3G sing 521 n n C15 H4 Q3G sing 522 n n C17 H6 Q3G sing 523 n n C21 H8 Q3G sing 524 n n C22 H10 Q3G sing 525 n n C23 H21 Q3G sing 526 n n C23 H22 Q3G sing 527 n n C29 H23 Q3G sing 528 n n C29 H24 Q3G sing 529 n n C30 H25 Q3G sing 530 n n C38 H26 Q3G sing 531 n n C38 H27 Q3G sing 532 n n C39 H28 Q3G sing 533 n n C39 H29 Q3G sing 534 n n C40 H30 Q3G sing 535 n n C40 H31 Q3G sing 536 n n C41 H32 Q3G sing 537 n n C41 H33 Q3G sing 538 n n C42 H34 Q3G sing 539 n n C42 H35 Q3G sing 540 n n C43 H36 Q3G sing 541 n n C43 H37 Q3G sing 542 n n C44 H38 Q3G sing 543 n n C44 H39 Q3G sing 544 n n C45 H40 Q3G sing 545 n n C45 H41 Q3G sing 546 n n N34 H43 Q3G sing 547 n n N34 H44 Q3G sing 548 n n O27 H46 Q3G sing 549 n n O33 H47 Q3G sing 550 n n C09 C8 Q3G sing 551 n n C8 C7 Q3G sing 552 n n C7 C6 Q3G sing 553 n n C6 C5 Q3G sing 554 n n C5 C4 Q3G sing 555 n n C4 C3 Q3G sing 556 n n C3 C2 Q3G sing 557 n n C45 C46 Q3G sing 558 n n C46 C47 Q3G sing 559 n n C47 C48 Q3G sing 560 n n C48 C49 Q3G sing 561 n n C49 C50 Q3G sing 562 n n C50 C51 Q3G sing 563 n n C10 H3 Q3G sing 564 n n C13 H5 Q3G sing 565 n n C15 H7 Q3G sing 566 n n C17 H9 Q3G sing 567 n n C21 H11 Q3G sing 568 n n C09 H12 Q3G sing 569 n n C09 H13 Q3G sing 570 n n C11 H14 Q3G sing 571 n n C11 H15 Q3G sing 572 n n C12 H16 Q3G sing 573 n n C12 H17 Q3G sing 574 n n C14 H18 Q3G sing 575 n n C14 H19 Q3G sing 576 n n C16 H20 Q3G sing 577 n n C16 H48 Q3G sing 578 n n C8 H42 Q3G sing 579 n n C8 H45 Q3G sing 580 n n C7 H49 Q3G sing 581 n n C7 H50 Q3G sing 582 n n C6 H51 Q3G sing 583 n n C6 H52 Q3G sing 584 n n C5 H53 Q3G sing 585 n n C5 H54 Q3G sing 586 n n C4 H55 Q3G sing 587 n n C4 H56 Q3G sing 588 n n C3 H57 Q3G sing 589 n n C3 H58 Q3G sing 590 n n C2 H59 Q3G sing 591 n n C2 H60 Q3G sing 592 n n C46 H62 Q3G sing 593 n n C46 H63 Q3G sing 594 n n C47 H64 Q3G sing 595 n n C47 H65 Q3G sing 596 n n C48 H66 Q3G sing 597 n n C48 H67 Q3G sing 598 n n C49 H68 Q3G sing 599 n n C49 H69 Q3G sing 600 n n C50 H70 Q3G sing 601 n n C50 H71 Q3G sing 602 n n C51 H72 Q3G sing 603 n n C51 H73 Q3G sing 604 n n C2 C1 Q3G sing 605 n n C51 C52 Q3G sing 606 n n C1 H61 Q3G sing 607 n n C1 H74 Q3G sing 608 n n C1 H75 Q3G sing 609 n n C52 H76 Q3G sing 610 n n C52 H77 Q3G sing 611 n n C52 H78 Q3G sing 612 n n # _atom_sites.entry_id 7OH6 _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 E 5 2Y5 A 1 1501 1301 2Y5 2Y5 . F 6 ALF A 1 1502 2001 ALF ALF . G 7 MG A 1 1503 2002 MG MG . H 8 Q3G A 1 1504 2031 Q3G Q3G . I 9 NAG C 1 501 503 NAG NAG . J 10 HOH A 1 1601 2005 HOH HOH . J 10 HOH A 2 1602 2004 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 C10 Q3G . . . H 8 146.111 124.838 138.621 1 97 ? C10 Q3G 1504 A 1 HETATM 2 C C13 Q3G . . . H 8 142.94 124.215 140.688 1 97 ? C13 Q3G 1504 A 1 HETATM 3 C C15 Q3G . . . H 8 140.772 124.418 139.452 1 97 ? C15 Q3G 1504 A 1 HETATM 4 C C17 Q3G . . . H 8 140.145 122.75 137.698 1 97 ? C17 Q3G 1504 A 1 HETATM 5 C C21 Q3G . . . H 8 137.898 119.903 137.917 1 97 ? C21 Q3G 1504 A 1 HETATM 6 C C22 Q3G . . . H 8 138.091 119.214 136.569 1 97 ? C22 Q3G 1504 A 1 HETATM 7 C C09 Q3G . . . H 8 146.438 124.164 137.292 1 97 ? C09 Q3G 1504 A 1 HETATM 8 C C11 Q3G . . . H 8 144.617 124.706 138.904 1 97 ? C11 Q3G 1504 A 1 HETATM 9 C C12 Q3G . . . H 8 144.382 124.635 140.411 1 97 ? C12 Q3G 1504 A 1 HETATM 10 C C14 Q3G . . . H 8 141.978 125.182 139.997 1 97 ? C14 Q3G 1504 A 1 HETATM 11 C C16 Q3G . . . H 8 141.251 123.214 138.644 1 97 ? C16 Q3G 1504 A 1 HETATM 12 C C18 Q3G . . . H 8 139.219 121.772 138.417 1 97 ? C18 Q3G 1504 A 1 HETATM 13 C C23 Q3G . . . H 8 137.464 120.066 135.469 1 97 ? C23 Q3G 1504 A 1 HETATM 14 C C29 Q3G . . . H 8 133.573 118.937 134.261 1 97 ? C29 Q3G 1504 A 1 HETATM 15 C C30 Q3G . . . H 8 134.031 118.429 132.896 1 97 ? C30 Q3G 1504 A 1 HETATM 16 C C31 Q3G . . . H 8 132.994 117.452 132.348 1 97 ? C31 Q3G 1504 A 1 HETATM 17 C C36 Q3G . . . H 8 139.9 117.747 136.235 1 97 ? C36 Q3G 1504 A 1 HETATM 18 C C38 Q3G . . . H 8 141.389 117.44 136.092 1 97 ? C38 Q3G 1504 A 1 HETATM 19 C C39 Q3G . . . H 8 142.172 118.14 137.203 1 97 ? C39 Q3G 1504 A 1 HETATM 20 C C40 Q3G . . . H 8 141.766 117.562 138.557 1 97 ? C40 Q3G 1504 A 1 HETATM 21 C C41 Q3G . . . H 8 142.162 118.522 139.677 1 97 ? C41 Q3G 1504 A 1 HETATM 22 C C42 Q3G . . . H 8 141.488 118.083 140.975 1 97 ? C42 Q3G 1504 A 1 HETATM 23 C C43 Q3G . . . H 8 141.417 119.253 141.953 1 97 ? C43 Q3G 1504 A 1 HETATM 24 C C44 Q3G . . . H 8 142.812 119.57 142.484 1 97 ? C44 Q3G 1504 A 1 HETATM 25 C C45 Q3G . . . H 8 142.714 119.993 143.95 1 97 ? C45 Q3G 1504 A 1 HETATM 26 N N34 Q3G . . . H 8 135.306 117.752 133.032 1 97 ? N34 Q3G 1504 A 1 HETATM 27 O O19 Q3G . . . H 8 139.459 121.428 139.524 1 97 ? O19 Q3G 1504 A 1 HETATM 28 O O20 Q3G . . . H 8 138.085 121.279 137.764 1 97 ? O20 Q3G 1504 A 1 HETATM 29 O O24 Q3G . . . H 8 136.072 119.931 135.484 1 97 ? O24 Q3G 1504 A 1 HETATM 30 O O26 Q3G . . . H 8 135.036 122.289 135.288 1 97 ? O26 Q3G 1504 A 1 HETATM 31 O O27 Q3G . . . H 8 135.882 121.204 133.249 1 97 ? O27 Q3G 1504 A 1 HETATM 32 O O28 Q3G . . . H 8 133.692 120.329 134.302 1 97 ? O28 Q3G 1504 A 1 HETATM 33 O O32 Q3G . . . H 8 133.286 116.701 131.381 1 97 ? O32 Q3G 1504 A 1 HETATM 34 O O33 Q3G . . . H 8 131.846 117.4 132.864 1 97 ? O33 Q3G 1504 A 1 HETATM 35 O O35 Q3G . . . H 8 139.462 119.072 136.32 1 97 ? O35 Q3G 1504 A 1 HETATM 36 O O37 Q3G . . . H 8 139.115 116.861 136.276 1 97 ? O37 Q3G 1504 A 1 HETATM 37 P P25 Q3G . . . H 8 135.184 120.973 134.567 1 97 ? P25 Q3G 1504 A 1 HETATM 38 C C8 Q3G . . . H 8 147.808 124.629 136.808 1 97 ? C8 Q3G 1504 A 1 HETATM 39 C C7 Q3G . . . H 8 147.634 125.801 135.849 1 97 ? C7 Q3G 1504 A 1 HETATM 40 C C6 Q3G . . . H 8 148.868 125.922 134.964 1 97 ? C6 Q3G 1504 A 1 HETATM 41 C C5 Q3G . . . H 8 149.817 126.957 135.557 1 97 ? C5 Q3G 1504 A 1 HETATM 42 C C4 Q3G . . . H 8 150.983 127.198 134.603 1 97 ? C4 Q3G 1504 A 1 HETATM 43 C C3 Q3G . . . H 8 151.55 128.595 134.841 1 97 ? C3 Q3G 1504 A 1 HETATM 44 C C2 Q3G . . . H 8 152.886 128.746 134.119 1 97 ? C2 Q3G 1504 A 1 HETATM 45 C C46 Q3G . . . H 8 144.062 120.541 144.413 1 97 ? C46 Q3G 1504 A 1 HETATM 46 C C47 Q3G . . . H 8 144.072 120.665 145.936 1 97 ? C47 Q3G 1504 A 1 HETATM 47 C C48 Q3G . . . H 8 145.457 121.118 146.397 1 97 ? C48 Q3G 1504 A 1 HETATM 48 C C49 Q3G . . . H 8 145.469 121.286 147.916 1 97 ? C49 Q3G 1504 A 1 HETATM 49 C C50 Q3G . . . H 8 144.516 122.413 148.317 1 97 ? C50 Q3G 1504 A 1 HETATM 50 C C51 Q3G . . . H 8 144.668 122.714 149.806 1 97 ? C51 Q3G 1504 A 1 HETATM 51 C C1 Q3G . . . H 8 152.708 128.455 132.631 1 97 ? C1 Q3G 1504 A 1 HETATM 52 C C52 Q3G . . . H 8 145.987 123.449 150.041 1 97 ? C52 Q3G 1504 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 52 #