data_7KNJ # _model_server_result.job_id TdYDUxRzjD6-T5iEHjvF4g _model_server_result.datetime_utc '2024-11-24 05:54:21' _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 7knj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":302}' # _entry.id 7KNJ # _exptl.entry_id 7KNJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 482.568 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '(4S,7R)-7-(heptanoyloxy)-4-hydroxy-N,N,N-trimethyl-10-oxo-3,5,9-trioxa-4-phosphahexadecan-1-aminium 4-oxide' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 96.92 _cell.angle_gamma 90 _cell.entry_id 7KNJ _cell.length_a 34.205 _cell.length_b 26.138 _cell.length_c 58.158 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KNJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 2 B N N ? 2 C 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 metalc ? metalc1 A ND1 HIS 3 A HIS 231 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? metalc ? metalc2 A SG CYS 16 A CYS 244 1_555 E ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc3 A SG CYS 19 A CYS 247 1_555 E ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc4 A SG CYS 33 A CYS 261 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc5 A SG CYS 36 A CYS 264 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.3 ? metalc ? metalc6 A ND1 HIS 41 A HIS 269 1_555 E ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc7 A SG CYS 44 A CYS 272 1_555 E ZN ZN . A ZN 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc8 A SG CYS 52 A CYS 280 1_555 D ZN ZN . A ZN 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.303 ? # _chem_comp.formula 'C22 H45 N O8 P 1' _chem_comp.formula_weight 482.568 _chem_comp.id XP5 _chem_comp.mon_nstd_flag . _chem_comp.name '(4S,7R)-7-(heptanoyloxy)-4-hydroxy-N,N,N-trimethyl-10-oxo-3,5,9-trioxa-4-phosphahexadecan-1-aminium 4-oxide' _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 O1 P1 XP5 doub 434 n n O2 P1 XP5 sing 435 n n P1 O3 XP5 sing 436 n n P1 O4 XP5 sing 437 n n O3 C1 XP5 sing 438 n n C1 C2 XP5 sing 439 n n C2 N1 XP5 sing 440 n n N1 C3 XP5 sing 441 n n N1 C4 XP5 sing 442 n n N1 C5 XP5 sing 443 n n O4 C6 XP5 sing 444 n n C6 CAM XP5 sing 445 n n C8 O5 XP5 sing 446 n n C8 CAM XP5 sing 447 n n O5 C9 XP5 sing 448 n n C9 O6 XP5 doub 449 n n C9 C10 XP5 sing 450 n n C10 C11 XP5 sing 451 n n C11 C12 XP5 sing 452 n n C12 C13 XP5 sing 453 n n C13 C14 XP5 sing 454 n n C14 C15 XP5 sing 455 n n O7 C17 XP5 doub 456 n n C17 O8 XP5 sing 457 n n C17 C18 XP5 sing 458 n n O8 CAM XP5 sing 459 n n C18 C19 XP5 sing 460 n n C19 C20 XP5 sing 461 n n C20 C21 XP5 sing 462 n n C21 C22 XP5 sing 463 n n C22 C23 XP5 sing 464 n n O2 H2 XP5 sing 465 n n C1 H11C XP5 sing 466 n n C1 H12C XP5 sing 467 n n C2 H21C XP5 sing 468 n n C2 H22C XP5 sing 469 n n C3 H31C XP5 sing 470 n n C3 H32C XP5 sing 471 n n C3 H33C XP5 sing 472 n n C4 H41C XP5 sing 473 n n C4 H42C XP5 sing 474 n n C4 H43C XP5 sing 475 n n C5 H51C XP5 sing 476 n n C5 H52C XP5 sing 477 n n C5 H53C XP5 sing 478 n n C6 H61C XP5 sing 479 n n C6 H62C XP5 sing 480 n n CAM HAM XP5 sing 481 n n C8 H81C XP5 sing 482 n n C8 H82C XP5 sing 483 n n C10 H101 XP5 sing 484 n n C10 H102 XP5 sing 485 n n C11 H111 XP5 sing 486 n n C11 H112 XP5 sing 487 n n C12 H121 XP5 sing 488 n n C12 H122 XP5 sing 489 n n C13 H131 XP5 sing 490 n n C13 H132 XP5 sing 491 n n C14 H141 XP5 sing 492 n n C14 H142 XP5 sing 493 n n C15 H151 XP5 sing 494 n n C15 H152 XP5 sing 495 n n C15 H153 XP5 sing 496 n n C18 H181 XP5 sing 497 n n C18 H182 XP5 sing 498 n n C19 H191 XP5 sing 499 n n C19 H192 XP5 sing 500 n n C20 H201 XP5 sing 501 n n C20 H202 XP5 sing 502 n n C21 H211 XP5 sing 503 n n C21 H212 XP5 sing 504 n n C22 H221 XP5 sing 505 n n C22 H222 XP5 sing 506 n n C23 H231 XP5 sing 507 n n C23 H232 XP5 sing 508 n n C23 H233 XP5 sing 509 n n # _atom_sites.entry_id 7KNJ _atom_sites.fract_transf_matrix[1][1] 0.029235 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003546 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.038258 _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] 0.017321 _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 B 2 XP5 A 1 301 2 XP5 PCL . C 2 XP5 A 1 302 3 XP5 PCL . D 3 ZN A 1 303 1 ZN ZN . E 3 ZN A 1 304 2 ZN ZN . F 4 WTS A 1 305 1 WTS 99G . G 5 HOH A 1 401 26 HOH HOH . G 5 HOH A 2 402 23 HOH HOH . G 5 HOH A 3 403 21 HOH HOH . G 5 HOH A 4 404 34 HOH HOH . G 5 HOH A 5 405 30 HOH HOH . G 5 HOH A 6 406 45 HOH HOH . G 5 HOH A 7 407 15 HOH HOH . G 5 HOH A 8 408 28 HOH HOH . G 5 HOH A 9 409 16 HOH HOH . G 5 HOH A 10 410 32 HOH HOH . G 5 HOH A 11 411 14 HOH HOH . G 5 HOH A 12 412 7 HOH HOH . G 5 HOH A 13 413 13 HOH HOH . G 5 HOH A 14 414 4 HOH HOH . G 5 HOH A 15 415 27 HOH HOH . G 5 HOH A 16 416 19 HOH HOH . G 5 HOH A 17 417 41 HOH HOH . G 5 HOH A 18 418 8 HOH HOH . G 5 HOH A 19 419 10 HOH HOH . G 5 HOH A 20 420 47 HOH HOH . G 5 HOH A 21 421 46 HOH HOH . G 5 HOH A 22 422 2 HOH HOH . G 5 HOH A 23 423 38 HOH HOH . G 5 HOH A 24 424 29 HOH HOH . G 5 HOH A 25 425 18 HOH HOH . G 5 HOH A 26 426 12 HOH HOH . G 5 HOH A 27 427 25 HOH HOH . G 5 HOH A 28 428 3 HOH HOH . G 5 HOH A 29 429 11 HOH HOH . G 5 HOH A 30 430 22 HOH HOH . G 5 HOH A 31 431 24 HOH HOH . G 5 HOH A 32 432 9 HOH HOH . G 5 HOH A 33 433 36 HOH HOH . G 5 HOH A 34 434 35 HOH HOH . G 5 HOH A 35 435 48 HOH HOH . G 5 HOH A 36 436 37 HOH HOH . G 5 HOH A 37 437 40 HOH HOH . G 5 HOH A 38 438 43 HOH HOH . G 5 HOH A 39 439 31 HOH HOH . G 5 HOH A 40 440 33 HOH HOH . G 5 HOH A 41 441 39 HOH HOH . G 5 HOH A 42 442 42 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 O O1 XP5 . . . C 2 -3.987 7.716 7.708 1 25.48 -1 O1 XP5 302 A 1 HETATM 2 O O2 XP5 . . . C 2 -2.904 9.076 9.317 1 51.74 ? O2 XP5 302 A 1 HETATM 3 P P1 XP5 . . . C 2 -3.464 9.108 7.912 1 67.57 ? P1 XP5 302 A 1 HETATM 4 O O3 XP5 . . . C 2 -2.235 9.44 6.858 1 50.87 ? O3 XP5 302 A 1 HETATM 5 C C1 XP5 . . . C 2 -2.432 10.392 5.828 1 45.37 ? C1 XP5 302 A 1 HETATM 6 C C2 XP5 . . . C 2 -3.25 9.689 4.715 1 43.82 ? C2 XP5 302 A 1 HETATM 7 N N1 XP5 . . . C 2 -3.309 10.405 3.404 1 50.49 ? N1 XP5 302 A 1 HETATM 8 C C3 XP5 . . . C 2 -4.218 11.553 3.58 1 47.48 ? C3 XP5 302 A 1 HETATM 9 C C4 XP5 . . . C 2 -3.832 9.673 2.232 1 29.48 ? C4 XP5 302 A 1 HETATM 10 C C5 XP5 . . . C 2 -1.956 10.864 3.053 1 48.45 ? C5 XP5 302 A 1 HETATM 11 O O4 XP5 . . . C 2 -4.506 10.392 7.922 1 59.95 ? O4 XP5 302 A 1 HETATM 12 C C6 XP5 . . . C 2 -4.025 11.488 8.694 1 52.74 ? C6 XP5 302 A 1 HETATM 13 C C8 XP5 . . . C 2 -5.999 13.079 8.132 1 50.5 ? C8 XP5 302 A 1 HETATM 14 O O5 XP5 . . . C 2 -6.448 11.948 7.436 1 51.7 ? O5 XP5 302 A 1 HETATM 15 C C9 XP5 . . . C 2 -7.747 11.564 7.762 1 37.45 ? C9 XP5 302 A 1 HETATM 16 O O6 XP5 . . . C 2 -8.497 11.532 6.857 1 42.56 ? O6 XP5 302 A 1 HETATM 17 C C10 XP5 . . . C 2 -8.185 11.178 9.201 1 29.81 ? C10 XP5 302 A 1 HETATM 18 C C11 XP5 . . . C 2 -8.865 12.26 10.09 1 41.31 ? C11 XP5 302 A 1 HETATM 19 C C12 XP5 . . . C 2 -9.009 11.956 11.631 1 20.38 ? C12 XP5 302 A 1 HETATM 20 C C13 XP5 . . . C 2 -7.603 11.688 12.274 1 24.2 ? C13 XP5 302 A 1 HETATM 21 C C14 XP5 . . . C 2 -7.524 11.362 13.781 1 30.34 ? C14 XP5 302 A 1 HETATM 22 C C15 XP5 . . . C 2 -7.542 12.579 14.748 1 43.91 ? C15 XP5 302 A 1 HETATM 23 O O7 XP5 . . . C 2 -5.428 14.109 11.57 1 53.45 ? O7 XP5 302 A 1 HETATM 24 C C17 XP5 . . . C 2 -5.153 12.996 11.467 1 53.04 ? C17 XP5 302 A 1 HETATM 25 O O8 XP5 . . . C 2 -5.654 12.273 10.369 1 54.16 ? O8 XP5 302 A 1 HETATM 26 C C18 XP5 . . . C 2 -4.227 12.371 12.535 1 59.97 ? C18 XP5 302 A 1 HETATM 27 C C19 XP5 . . . C 2 -4.745 12.409 14.008 1 51.52 ? C19 XP5 302 A 1 HETATM 28 C C20 XP5 . . . C 2 -4.824 10.982 14.618 1 40.98 ? C20 XP5 302 A 1 HETATM 29 C C21 XP5 . . . C 2 -5.631 10.831 15.933 1 34.68 ? C21 XP5 302 A 1 HETATM 30 C C22 XP5 . . . C 2 -4.778 10.39 17.129 1 30.98 ? C22 XP5 302 A 1 HETATM 31 C C23 XP5 . . . C 2 -4.654 11.433 18.285 1 27.29 ? C23 XP5 302 A 1 HETATM 32 C CAM XP5 . . . C 2 -5.014 12.569 9.17 1 53.35 ? CAM XP5 302 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #