data_8D2S # _model_server_result.job_id eyaP6cSge-wyXqXLelvH7Q _model_server_result.datetime_utc '2024-10-20 05:45:23' _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 8d2s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":602}' # _entry.id 8D2S # _exptl.entry_id 8D2S _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 518.644 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2~{R})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{Z},12~{Z},15~{Z})-octadeca-9,12,15-trienoate' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _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,W,X,Y,Z _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N 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 disulf ? disulf1 B SG CYS 22 B CYS 22 1_555 B SG CYS 86 B CYS 86 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 B SG CYS 130 B CYS 130 1_555 B SG CYS 186 B CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf3 C SG CYS 22 C CYS 22 1_555 C SG CYS 93 C CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 C SG CYS 139 C CYS 139 1_555 C SG CYS 186 C CYS 186 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc1 A OE1 GLN 50 A GLN 51 1_555 X NA NA . A NA 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.49 ? metalc ? metalc2 A OE1 GLU 183 A GLU 184 1_555 X NA NA . A NA 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.738 ? metalc ? metalc3 A OE2 GLU 183 A GLU 184 1_555 X NA NA . A NA 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.15 ? metalc ? metalc4 E O19 ZGS . A ZGS 602 1_555 X NA NA . A NA 621 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc5 X NA NA . A NA 621 1_555 Y O HOH . A HOH 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.733 ? # _chem_comp.formula 'C26 H49 N O7 P 1' _chem_comp.formula_weight 518.644 _chem_comp.id ZGS _chem_comp.mon_nstd_flag . _chem_comp.name '[(2~{R})-2-oxidanyl-3-[oxidanyl-[2-(trimethyl-$l^{4}-azanyl)ethoxy]phosphoryl]oxy-propyl] (9~{Z},12~{Z},15~{Z})-octadeca-9,12,15-trienoate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms LysoPC(18:3(9Z,12Z,15Z)) # 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 ZGS sing 458 n n C03 C02 ZGS sing 459 n n C03 C04 ZGS doub 460 z n C04 C05 ZGS sing 461 n n C05 C06 ZGS sing 462 n n C06 C07 ZGS doub 463 z n C08 C07 ZGS sing 464 n n C08 C09 ZGS sing 465 n n C09 C10 ZGS doub 466 z n C10 C11 ZGS sing 467 n n C11 C12 ZGS sing 468 n n C12 C13 ZGS sing 469 n n C13 C14 ZGS sing 470 n n C14 C15 ZGS sing 471 n n O19 C18 ZGS doub 472 n n C16 C17 ZGS sing 473 n n C16 C15 ZGS sing 474 n n C17 C18 ZGS sing 475 n n C18 O20 ZGS sing 476 n n O20 C21 ZGS sing 477 n n O35 C22 ZGS sing 478 n n C21 C22 ZGS sing 479 n n O26 P25 ZGS doub 480 n n C22 C23 ZGS sing 481 n n O27 P25 ZGS sing 482 n n P25 O24 ZGS sing 483 n n P25 O28 ZGS sing 484 n n C23 O24 ZGS sing 485 n n O28 C29 ZGS sing 486 n n C29 C30 ZGS sing 487 n n C30 N31 ZGS sing 488 n n C32 N31 ZGS sing 489 n n N31 C33 ZGS sing 490 n n N31 C34 ZGS sing 491 n n C01 H1 ZGS sing 492 n n C01 H2 ZGS sing 493 n n C01 H3 ZGS sing 494 n n C02 H4 ZGS sing 495 n n C02 H5 ZGS sing 496 n n C03 H6 ZGS sing 497 n n C04 H7 ZGS sing 498 n n C05 H8 ZGS sing 499 n n C05 H9 ZGS sing 500 n n C06 H10 ZGS sing 501 n n C07 H11 ZGS sing 502 n n C08 H12 ZGS sing 503 n n C08 H13 ZGS sing 504 n n C09 H14 ZGS sing 505 n n C10 H15 ZGS sing 506 n n C11 H16 ZGS sing 507 n n C11 H17 ZGS sing 508 n n C12 H18 ZGS sing 509 n n C12 H19 ZGS sing 510 n n C13 H20 ZGS sing 511 n n C13 H21 ZGS sing 512 n n C14 H22 ZGS sing 513 n n C14 H23 ZGS sing 514 n n C15 H24 ZGS sing 515 n n C15 H25 ZGS sing 516 n n C16 H26 ZGS sing 517 n n C16 H27 ZGS sing 518 n n C17 H28 ZGS sing 519 n n C17 H29 ZGS sing 520 n n C21 H30 ZGS sing 521 n n C21 H31 ZGS sing 522 n n C22 H32 ZGS sing 523 n n C23 H33 ZGS sing 524 n n C23 H34 ZGS sing 525 n n C29 H35 ZGS sing 526 n n C29 H36 ZGS sing 527 n n C30 H37 ZGS sing 528 n n C30 H38 ZGS sing 529 n n C32 H39 ZGS sing 530 n n C32 H40 ZGS sing 531 n n C32 H41 ZGS sing 532 n n C33 H42 ZGS sing 533 n n C33 H43 ZGS sing 534 n n C33 H44 ZGS sing 535 n n C34 H45 ZGS sing 536 n n C34 H46 ZGS sing 537 n n C34 H47 ZGS sing 538 n n O27 H48 ZGS sing 539 n n O35 H49 ZGS sing 540 n n # _atom_sites.entry_id 8D2S _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 D 4 ZGS A 1 601 600 ZGS ZGS . E 4 ZGS A 1 602 601 ZGS ZGS . F 4 ZGS A 1 603 602 ZGS ZGS . G 5 LMT A 1 604 1 LMT LMT . H 5 LMT A 1 605 2 LMT LMT . I 5 LMT A 1 606 3 LMT LMT . J 5 LMT A 1 607 4 LMT LMT . K 5 LMT A 1 608 5 LMT LMT . L 5 LMT A 1 609 6 LMT LMT . M 5 LMT A 1 610 7 LMT LMT . N 5 LMT A 1 611 8 LMT LMT . O 5 LMT A 1 612 9 LMT LMT . P 5 LMT A 1 613 10 LMT LMT . Q 5 LMT A 1 614 11 LMT LMT . R 5 LMT A 1 615 12 LMT LMT . S 5 LMT A 1 616 13 LMT LMT . T 5 LMT A 1 617 14 LMT LMT . U 5 LMT A 1 618 15 LMT LMT . V 5 LMT A 1 619 16 LMT LMT . W 5 LMT A 1 620 17 LMT LMT . X 6 NA A 1 621 1 NA NA . Y 7 HOH A 1 701 16 HOH HOH . Y 7 HOH A 2 702 18 HOH HOH . Y 7 HOH A 3 703 12 HOH HOH . Y 7 HOH A 4 704 2 HOH HOH . Y 7 HOH A 5 705 15 HOH HOH . Y 7 HOH A 6 706 10 HOH HOH . Y 7 HOH A 7 707 11 HOH HOH . Y 7 HOH A 8 708 3 HOH HOH . Y 7 HOH A 9 709 24 HOH HOH . Y 7 HOH A 10 710 8 HOH HOH . Y 7 HOH A 11 711 4 HOH HOH . Y 7 HOH A 12 712 23 HOH HOH . Y 7 HOH A 13 713 7 HOH HOH . Y 7 HOH A 14 714 14 HOH HOH . Y 7 HOH A 15 715 27 HOH HOH . Y 7 HOH A 16 716 22 HOH HOH . Y 7 HOH A 17 717 25 HOH HOH . Y 7 HOH A 18 718 9 HOH HOH . Y 7 HOH A 19 719 17 HOH HOH . Y 7 HOH A 20 720 1 HOH HOH . Y 7 HOH A 21 721 5 HOH HOH . Y 7 HOH A 22 722 6 HOH HOH . Z 7 HOH C 1 301 19 HOH HOH . Z 7 HOH C 2 302 28 HOH HOH . Z 7 HOH C 3 303 20 HOH HOH . Z 7 HOH C 4 304 26 HOH HOH . Z 7 HOH C 5 305 21 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 ZGS . . . E 4 156.124 162.901 184.577 1 34.23 ? C01 ZGS 602 A 1 HETATM 2 C C02 ZGS . . . E 4 157.639 162.948 184.76 1 34.23 ? C02 ZGS 602 A 1 HETATM 3 C C03 ZGS . . . E 4 157.866 162.178 186.043 1 34.23 ? C03 ZGS 602 A 1 HETATM 4 C C04 ZGS . . . E 4 158.763 161.247 185.888 1 34.23 ? C04 ZGS 602 A 1 HETATM 5 C C05 ZGS . . . E 4 159.541 160.107 186.532 1 34.23 ? C05 ZGS 602 A 1 HETATM 6 C C06 ZGS . . . E 4 160.95 159.58 186.339 1 34.23 ? C06 ZGS 602 A 1 HETATM 7 C C07 ZGS . . . E 4 161.423 159.504 187.554 1 34.23 ? C07 ZGS 602 A 1 HETATM 8 C C08 ZGS . . . E 4 161.284 159.697 189.053 1 34.23 ? C08 ZGS 602 A 1 HETATM 9 C C09 ZGS . . . E 4 162.262 160.831 189.3 1 34.23 ? C09 ZGS 602 A 1 HETATM 10 C C10 ZGS . . . E 4 162.426 161.077 190.562 1 34.23 ? C10 ZGS 602 A 1 HETATM 11 C C11 ZGS . . . E 4 163.101 161.892 191.632 1 34.23 ? C11 ZGS 602 A 1 HETATM 12 C C12 ZGS . . . E 4 163.884 162.935 190.854 1 34.23 ? C12 ZGS 602 A 1 HETATM 13 C C13 ZGS . . . E 4 165.344 162.526 190.814 1 34.23 ? C13 ZGS 602 A 1 HETATM 14 C C14 ZGS . . . E 4 166.137 163.794 190.536 1 34.23 ? C14 ZGS 602 A 1 HETATM 15 C C15 ZGS . . . E 4 167.536 163.416 190.069 1 34.23 ? C15 ZGS 602 A 1 HETATM 16 C C16 ZGS . . . E 4 168.528 164.24 190.883 1 34.23 ? C16 ZGS 602 A 1 HETATM 17 C C17 ZGS . . . E 4 168.182 165.64 190.444 1 34.23 ? C17 ZGS 602 A 1 HETATM 18 C C18 ZGS . . . E 4 169.171 165.888 189.342 1 34.23 ? C18 ZGS 602 A 1 HETATM 19 C C21 ZGS . . . E 4 171.043 167.225 189.171 1 34.23 ? C21 ZGS 602 A 1 HETATM 20 C C22 ZGS . . . E 4 172.373 167.496 189.868 1 34.23 ? C22 ZGS 602 A 1 HETATM 21 C C23 ZGS . . . E 4 171.975 168.061 191.29 1 34.23 ? C23 ZGS 602 A 1 HETATM 22 C C29 ZGS . . . E 4 174.007 164.336 194.006 1 34.23 ? C29 ZGS 602 A 1 HETATM 23 C C30 ZGS . . . E 4 172.863 164.637 195.032 1 34.23 ? C30 ZGS 602 A 1 HETATM 24 C C32 ZGS . . . E 4 174.814 165.196 196.339 1 34.23 ? C32 ZGS 602 A 1 HETATM 25 C C33 ZGS . . . E 4 172.586 165.616 197.188 1 34.23 ? C33 ZGS 602 A 1 HETATM 26 C C34 ZGS . . . E 4 173.413 163.32 196.875 1 34.23 ? C34 ZGS 602 A 1 HETATM 27 N N31 ZGS . . . E 4 173.433 164.699 196.412 1 34.23 ? N31 ZGS 602 A 1 HETATM 28 O O19 ZGS . . . E 4 168.818 165.926 188.22 1 34.23 ? O19 ZGS 602 A 1 HETATM 29 O O20 ZGS . . . E 4 170.497 166.066 189.72 1 34.23 ? O20 ZGS 602 A 1 HETATM 30 O O24 ZGS . . . E 4 171.947 167.198 192.471 1 34.23 ? O24 ZGS 602 A 1 HETATM 31 O O26 ZGS . . . E 4 174.472 166.845 191.604 1 34.23 -1 O26 ZGS 602 A 1 HETATM 32 O O27 ZGS . . . E 4 174.02 167.103 193.906 1 34.23 ? O27 ZGS 602 A 1 HETATM 33 O O28 ZGS . . . E 4 173.526 164.849 192.775 1 34.23 ? O28 ZGS 602 A 1 HETATM 34 O O35 ZGS . . . E 4 173.189 168.285 188.97 1 34.23 ? O35 ZGS 602 A 1 HETATM 35 P P25 ZGS . . . E 4 173.459 166.498 192.664 1 34.23 ? P25 ZGS 602 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 35 #