data_7D92 # _model_server_result.job_id 1NfgrGgBwDjseIpD7VfxBg _model_server_result.datetime_utc '2024-11-24 10:40:47' _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 7d92 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":1111}' # _entry.id 7D92 # _exptl.entry_id 7D92 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 787.121 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE _entity.pdbx_number_of_molecules 8 _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 7D92 _cell.length_a 84.234 _cell.length_b 84.234 _cell.length_c 646.262 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7D92 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall 'P 4nw 2abw' _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,K,L,M,N,O,P,Q,R,S,T,U _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 x,y,z _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 ? 7 I N N ? 7 J N N ? 7 K N N ? 7 L N N ? 7 M N N ? 7 N N N ? 7 O N N ? 7 P N N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 C 1 NAG B 421 NAG 4 n D NAG 2 C 2 NAG B 422 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 B SG CYS 126 B CYS 126 1_555 B SG CYS 149 B CYS 149 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 B SG CYS 159 B CYS 159 1_555 B SG CYS 175 B CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf3 B SG CYS 213 B CYS 213 1_555 B SG CYS 276 B CYS 276 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? covale ? covale1 A C SER 368 A SER 368 1_555 A N BFD 369 A BFD 369 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale2 A C BFD 369 A BFD 369 1_555 A N LYS 370 A LYS 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale3 B ND2 ASN 158 B ASN 158 1_555 D C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.423 ? covale ? covale4 B ND2 ASN 265 B ASN 265 1_555 S C1 NAG . B NAG 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale5 D O4 NAG . C NAG 1 1_555 D C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? metalc ? metalc1 A OE2 GLU 327 A GLU 327 1_555 G MG MG . A MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.304 ? metalc ? metalc2 A OD2 BFD 369 A BFD 369 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc3 A O THR 371 A THR 371 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc4 A OD1 ASP 710 A ASP 710 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? metalc ? metalc5 A OD2 ASP 710 A ASP 710 1_555 E MG MG . A MG 1101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.886 ? metalc ? metalc6 A OD2 ASP 740 A ASP 740 1_555 F MG MG . A MG 1102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc7 A OE2 GLU 779 A GLU 779 1_555 G MG MG . A MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.21 ? metalc ? metalc8 A OD1 ASP 804 A ASP 804 1_555 G MG MG . A MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc9 A OD2 ASP 804 A ASP 804 1_555 G MG MG . A MG 1103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc10 E MG MG . A MG 1101 1_555 U O HOH . A HOH 1201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? metalc ? metalc11 E MG MG . A MG 1101 1_555 U O HOH . A HOH 1202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc12 F MG MG . A MG 1102 1_555 U O HOH . A HOH 1204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.132 ? metalc ? metalc13 G MG MG . A MG 1103 1_555 U O HOH . A HOH 1203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc14 G MG MG . A MG 1103 1_555 U O HOH . A HOH 1205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc15 G MG MG . A MG 1103 1_555 U O HOH . A HOH 1207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.526 ? # _chem_comp.formula 'C44 H85 N O8 P 1' _chem_comp.formula_weight 787.121 _chem_comp.id PCW _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-DIOLEOYL-SN-GLYCERO-3-PHOSPHOCHOLINE _chem_comp.type non-polymer _chem_comp.pdbx_synonyms (Z,Z)-4-HYDROXY-N,N,N-TRIMETHYL-10-OXO-7-[(1-OXO-9-OCTADECENYL)OXY]-3,5,9-TRIOXA-4-PHOSPHAHEPTACOS-18-EN-1-AMINIUM-4-OXIDE # 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 C1 C2 PCW sing 479 n n C1 O3P PCW sing 480 n n C1 H11 PCW sing 481 n n C1 H12 PCW sing 482 n n C2 C3 PCW sing 483 n n C2 O2 PCW sing 484 n n C2 H2 PCW sing 485 n n C3 O3 PCW sing 486 n n C3 H31 PCW sing 487 n n C3 H32 PCW sing 488 n n C4 C5 PCW sing 489 n n C4 O4P PCW sing 490 n n C4 H41 PCW sing 491 n n C4 H42 PCW sing 492 n n C5 N PCW sing 493 n n C5 H51 PCW sing 494 n n C5 H52 PCW sing 495 n n C6 N PCW sing 496 n n C6 H61 PCW sing 497 n n C6 H62 PCW sing 498 n n C6 H63 PCW sing 499 n n C7 N PCW sing 500 n n C7 H71 PCW sing 501 n n C7 H72 PCW sing 502 n n C7 H73 PCW sing 503 n n C8 N PCW sing 504 n n C8 H81 PCW sing 505 n n C8 H82 PCW sing 506 n n C8 H83 PCW sing 507 n n C11 C12 PCW sing 508 n n C11 O3 PCW sing 509 n n C11 O11 PCW doub 510 n n C12 C13 PCW sing 511 n n C12 H121 PCW sing 512 n n C12 H122 PCW sing 513 n n C13 C14 PCW sing 514 n n C13 H131 PCW sing 515 n n C13 H132 PCW sing 516 n n C14 C15 PCW sing 517 n n C14 H141 PCW sing 518 n n C14 H142 PCW sing 519 n n C15 C16 PCW sing 520 n n C15 H151 PCW sing 521 n n C15 H152 PCW sing 522 n n C16 C17 PCW sing 523 n n C16 H161 PCW sing 524 n n C16 H162 PCW sing 525 n n C17 C18 PCW sing 526 n n C17 H171 PCW sing 527 n n C17 H172 PCW sing 528 n n C18 C19 PCW sing 529 n n C18 H181 PCW sing 530 n n C18 H182 PCW sing 531 n n C19 C20 PCW doub 532 z n C19 H19 PCW sing 533 n n C20 C21 PCW sing 534 n n C20 H20 PCW sing 535 n n C21 C22 PCW sing 536 n n C21 H211 PCW sing 537 n n C21 H212 PCW sing 538 n n C22 C23 PCW sing 539 n n C22 H221 PCW sing 540 n n C22 H222 PCW sing 541 n n C23 C24 PCW sing 542 n n C23 H231 PCW sing 543 n n C23 H232 PCW sing 544 n n C24 C25 PCW sing 545 n n C24 H241 PCW sing 546 n n C24 H242 PCW sing 547 n n C25 C26 PCW sing 548 n n C25 H251 PCW sing 549 n n C25 H252 PCW sing 550 n n C26 C27 PCW sing 551 n n C26 H261 PCW sing 552 n n C26 H262 PCW sing 553 n n C27 C28 PCW sing 554 n n C27 H271 PCW sing 555 n n C27 H272 PCW sing 556 n n C28 H281 PCW sing 557 n n C28 H282 PCW sing 558 n n C28 H283 PCW sing 559 n n C31 C32 PCW sing 560 n n C31 O2 PCW sing 561 n n C31 O31 PCW doub 562 n n C32 C33 PCW sing 563 n n C32 H321 PCW sing 564 n n C32 H322 PCW sing 565 n n C33 C34 PCW sing 566 n n C33 H331 PCW sing 567 n n C33 H332 PCW sing 568 n n C34 C35 PCW sing 569 n n C34 H341 PCW sing 570 n n C34 H342 PCW sing 571 n n C35 C36 PCW sing 572 n n C35 H351 PCW sing 573 n n C35 H352 PCW sing 574 n n C36 C37 PCW sing 575 n n C36 H361 PCW sing 576 n n C36 H362 PCW sing 577 n n C37 C38 PCW sing 578 n n C37 H371 PCW sing 579 n n C37 H372 PCW sing 580 n n C38 C39 PCW sing 581 n n C38 H381 PCW sing 582 n n C38 H382 PCW sing 583 n n C39 C40 PCW doub 584 z n C39 H39 PCW sing 585 n n C40 C41 PCW sing 586 n n C40 H40 PCW sing 587 n n C41 C42 PCW sing 588 n n C41 H411 PCW sing 589 n n C41 H412 PCW sing 590 n n C42 C43 PCW sing 591 n n C42 H421 PCW sing 592 n n C42 H422 PCW sing 593 n n C43 C44 PCW sing 594 n n C43 H431 PCW sing 595 n n C43 H432 PCW sing 596 n n C44 C45 PCW sing 597 n n C44 H441 PCW sing 598 n n C44 H442 PCW sing 599 n n C45 C46 PCW sing 600 n n C45 H451 PCW sing 601 n n C45 H452 PCW sing 602 n n C46 C47 PCW sing 603 n n C46 H461 PCW sing 604 n n C46 H462 PCW sing 605 n n C47 C48 PCW sing 606 n n C47 H471 PCW sing 607 n n C47 H472 PCW sing 608 n n C48 H481 PCW sing 609 n n C48 H482 PCW sing 610 n n C48 H483 PCW sing 611 n n O1P P PCW sing 612 n n O1P H1P PCW sing 613 n n O2P P PCW doub 614 n n O3P P PCW sing 615 n n O4P P PCW sing 616 n n # _atom_sites.entry_id 7D92 _atom_sites.fract_transf_matrix[1][1] 0.011872 _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] 0.011872 _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] 0.001547 _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 MG A 1 1101 1101 MG MG . F 5 MG A 1 1102 1102 MG MG . G 5 MG A 1 1103 1103 MG MG . H 6 CLR A 1 1104 1107 CLR CLR . I 7 PCW A 1 1105 1201 PCW PCW . J 7 PCW A 1 1106 1202 PCW PCW . K 7 PCW A 1 1107 1203 PCW PCW . L 7 PCW A 1 1108 1204 PCW PCW . M 7 PCW A 1 1109 1205 PCW PCW . N 7 PCW A 1 1110 1206 PCW PCW . O 7 PCW A 1 1111 1210 PCW PCW . P 7 PCW A 1 1112 1211 PCW PCW . Q 8 H0C A 1 1121 2201 H0C 9AO . R 6 CLR B 1 501 1105 CLR CLR . S 9 NAG B 1 421 431 NAG NAG . T 6 CLR G 1 101 1106 CLR CLR . U 10 HOH A 1 1201 2105 HOH HOH . U 10 HOH A 2 1202 2114 HOH HOH . U 10 HOH A 3 1203 2003 HOH HOH . U 10 HOH A 4 1204 2115 HOH HOH . U 10 HOH A 5 1205 2001 HOH HOH . U 10 HOH A 6 1206 2002 HOH HOH . U 10 HOH A 7 1207 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 C1 PCW . . . O 7 80.084 72.264 13.991 1 261.6 ? C1 PCW 1111 A 1 HETATM 2 C C2 PCW . . . O 7 79.374 71.401 12.938 1 239.77 ? C2 PCW 1111 A 1 HETATM 3 C C3 PCW . . . O 7 77.993 71.951 12.559 1 232.64 ? C3 PCW 1111 A 1 HETATM 4 C C4 PCW . . . O 7 80.246 73.726 18.366 1 230.68 ? C4 PCW 1111 A 1 HETATM 5 C C5 PCW . . . O 7 81.398 74.414 19.105 1 212.4 ? C5 PCW 1111 A 1 HETATM 6 C C6 PCW . . . O 7 80.057 74.848 21.05 1 190.93 ? C6 PCW 1111 A 1 HETATM 7 C C7 PCW . . . O 7 81.305 72.807 20.891 1 192.38 ? C7 PCW 1111 A 1 HETATM 8 C C8 PCW . . . O 7 82.451 74.893 21.208 1 193.51 ? C8 PCW 1111 A 1 HETATM 9 C C11 PCW . . . O 7 76.282 71.704 11.051 1 228.61 ? C11 PCW 1111 A 1 HETATM 10 C C12 PCW . . . O 7 75.576 70.91 9.949 1 243.18 ? C12 PCW 1111 A 1 HETATM 11 C C31 PCW . . . O 7 80.494 72.169 10.968 1 223.37 ? C31 PCW 1111 A 1 HETATM 12 C C32 PCW . . . O 7 81.311 71.779 9.733 1 234.91 ? C32 PCW 1111 A 1 HETATM 13 N N PCW . . . O 7 81.303 74.239 20.562 1 198.08 ? N PCW 1111 A 1 HETATM 14 O O2 PCW . . . O 7 80.194 71.119 11.79 1 232.2 ? O2 PCW 1111 A 1 HETATM 15 O O3 PCW . . . O 7 77.397 71.114 11.561 1 229.83 ? O3 PCW 1111 A 1 HETATM 16 O O11 PCW . . . O 7 75.84 72.788 11.428 1 213.75 ? O11 PCW 1111 A 1 HETATM 17 O O31 PCW . . . O 7 80.221 73.351 11.172 1 206.14 ? O31 PCW 1111 A 1 HETATM 18 O O1P PCW . . . O 7 77.874 73.651 16.753 1 276.31 ? O1P PCW 1111 A 1 HETATM 19 O O2P PCW . . . O 7 79.051 74.796 14.971 1 290.81 ? O2P PCW 1111 A 1 HETATM 20 O O3P PCW . . . O 7 79.348 72.315 15.22 1 271.06 ? O3P PCW 1111 A 1 HETATM 21 O O4P PCW . . . O 7 80.373 73.972 16.962 1 252.33 ? O4P PCW 1111 A 1 HETATM 22 P P PCW . . . O 7 79.135 73.7 15.969 1 272.71 ? P PCW 1111 A 1 # _model_server_stats.io_time_ms 94 _model_server_stats.parse_time_ms 49 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 832 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 22 #