data_7KO6 # _model_server_result.job_id qSMi6CcfdOZYLDibycrZnQ _model_server_result.datetime_utc '2024-11-27 23:01:00' _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 7ko6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":304}' # _entry.id 7KO6 # _exptl.entry_id 7KO6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 482.568 _entity.id 4 _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 98.39 _cell.angle_gamma 90 _cell.entry_id 7KO6 _cell.length_a 34.384 _cell.length_b 25.909 _cell.length_c 57.731 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KO6 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? metalc ? metalc2 A SG CYS 16 A CYS 244 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.339 ? metalc ? metalc3 A SG CYS 19 A CYS 247 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.31 ? metalc ? metalc4 A SG CYS 33 A CYS 261 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc5 A SG CYS 36 A CYS 264 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc6 A ND1 HIS 41 A HIS 269 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.135 ? metalc ? metalc7 A SG CYS 44 A CYS 272 1_555 C ZN ZN . A ZN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc8 A SG CYS 52 A CYS 280 1_555 B ZN ZN . A ZN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? # _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 423 n n O2 P1 XP5 sing 424 n n P1 O3 XP5 sing 425 n n P1 O4 XP5 sing 426 n n O3 C1 XP5 sing 427 n n C1 C2 XP5 sing 428 n n C2 N1 XP5 sing 429 n n N1 C3 XP5 sing 430 n n N1 C4 XP5 sing 431 n n N1 C5 XP5 sing 432 n n O4 C6 XP5 sing 433 n n C6 CAM XP5 sing 434 n n C8 O5 XP5 sing 435 n n C8 CAM XP5 sing 436 n n O5 C9 XP5 sing 437 n n C9 O6 XP5 doub 438 n n C9 C10 XP5 sing 439 n n C10 C11 XP5 sing 440 n n C11 C12 XP5 sing 441 n n C12 C13 XP5 sing 442 n n C13 C14 XP5 sing 443 n n C14 C15 XP5 sing 444 n n O7 C17 XP5 doub 445 n n C17 O8 XP5 sing 446 n n C17 C18 XP5 sing 447 n n O8 CAM XP5 sing 448 n n C18 C19 XP5 sing 449 n n C19 C20 XP5 sing 450 n n C20 C21 XP5 sing 451 n n C21 C22 XP5 sing 452 n n C22 C23 XP5 sing 453 n n O2 H2 XP5 sing 454 n n C1 H11C XP5 sing 455 n n C1 H12C XP5 sing 456 n n C2 H21C XP5 sing 457 n n C2 H22C XP5 sing 458 n n C3 H31C XP5 sing 459 n n C3 H32C XP5 sing 460 n n C3 H33C XP5 sing 461 n n C4 H41C XP5 sing 462 n n C4 H42C XP5 sing 463 n n C4 H43C XP5 sing 464 n n C5 H51C XP5 sing 465 n n C5 H52C XP5 sing 466 n n C5 H53C XP5 sing 467 n n C6 H61C XP5 sing 468 n n C6 H62C XP5 sing 469 n n CAM HAM XP5 sing 470 n n C8 H81C XP5 sing 471 n n C8 H82C XP5 sing 472 n n C10 H101 XP5 sing 473 n n C10 H102 XP5 sing 474 n n C11 H111 XP5 sing 475 n n C11 H112 XP5 sing 476 n n C12 H121 XP5 sing 477 n n C12 H122 XP5 sing 478 n n C13 H131 XP5 sing 479 n n C13 H132 XP5 sing 480 n n C14 H141 XP5 sing 481 n n C14 H142 XP5 sing 482 n n C15 H151 XP5 sing 483 n n C15 H152 XP5 sing 484 n n C15 H153 XP5 sing 485 n n C18 H181 XP5 sing 486 n n C18 H182 XP5 sing 487 n n C19 H191 XP5 sing 488 n n C19 H192 XP5 sing 489 n n C20 H201 XP5 sing 490 n n C20 H202 XP5 sing 491 n n C21 H211 XP5 sing 492 n n C21 H212 XP5 sing 493 n n C22 H221 XP5 sing 494 n n C22 H222 XP5 sing 495 n n C23 H231 XP5 sing 496 n n C23 H232 XP5 sing 497 n n C23 H233 XP5 sing 498 n n # _atom_sites.entry_id 7KO6 _atom_sites.fract_transf_matrix[1][1] 0.029083 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004291 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.038597 _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] 0.017509 _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 ZN A 1 301 1 ZN ZN . C 2 ZN A 1 302 2 ZN ZN . D 3 WUD A 1 303 1 WUD ing . E 4 XP5 A 1 304 1 XP5 LIG . F 5 HOH A 1 401 56 HOH HOH . F 5 HOH A 2 402 1 HOH HOH . F 5 HOH A 3 403 59 HOH HOH . F 5 HOH A 4 404 60 HOH HOH . F 5 HOH A 5 405 36 HOH HOH . F 5 HOH A 6 406 49 HOH HOH . F 5 HOH A 7 407 52 HOH HOH . F 5 HOH A 8 408 3 HOH HOH . F 5 HOH A 9 409 57 HOH HOH . F 5 HOH A 10 410 10 HOH HOH . F 5 HOH A 11 411 13 HOH HOH . F 5 HOH A 12 412 27 HOH HOH . F 5 HOH A 13 413 9 HOH HOH . F 5 HOH A 14 414 28 HOH HOH . F 5 HOH A 15 415 18 HOH HOH . F 5 HOH A 16 416 15 HOH HOH . F 5 HOH A 17 417 12 HOH HOH . F 5 HOH A 18 418 11 HOH HOH . F 5 HOH A 19 419 4 HOH HOH . F 5 HOH A 20 420 35 HOH HOH . F 5 HOH A 21 421 48 HOH HOH . F 5 HOH A 22 422 6 HOH HOH . F 5 HOH A 23 423 58 HOH HOH . F 5 HOH A 24 424 17 HOH HOH . F 5 HOH A 25 425 2 HOH HOH . F 5 HOH A 26 426 53 HOH HOH . F 5 HOH A 27 427 8 HOH HOH . F 5 HOH A 28 428 23 HOH HOH . F 5 HOH A 29 429 51 HOH HOH . F 5 HOH A 30 430 14 HOH HOH . F 5 HOH A 31 431 21 HOH HOH . F 5 HOH A 32 432 5 HOH HOH . F 5 HOH A 33 433 37 HOH HOH . F 5 HOH A 34 434 19 HOH HOH . F 5 HOH A 35 435 54 HOH HOH . F 5 HOH A 36 436 26 HOH HOH . F 5 HOH A 37 437 29 HOH HOH . F 5 HOH A 38 438 20 HOH HOH . F 5 HOH A 39 439 24 HOH HOH . F 5 HOH A 40 440 25 HOH HOH . F 5 HOH A 41 441 7 HOH HOH . F 5 HOH A 42 442 61 HOH HOH . F 5 HOH A 43 443 40 HOH HOH . F 5 HOH A 44 444 55 HOH HOH . F 5 HOH A 45 445 31 HOH HOH . F 5 HOH A 46 446 32 HOH HOH . F 5 HOH A 47 447 50 HOH HOH . F 5 HOH A 48 448 47 HOH HOH . F 5 HOH A 49 449 33 HOH HOH . F 5 HOH A 50 450 44 HOH HOH . F 5 HOH A 51 451 39 HOH HOH . F 5 HOH A 52 452 42 HOH HOH . F 5 HOH A 53 453 43 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 . . . E 4 -4.346 10.191 11.136 1 50.1 ? O1 XP5 304 A 1 HETATM 2 O O2 XP5 . . . E 4 -3.426 12.212 10.167 1 50.72 -1 O2 XP5 304 A 1 HETATM 3 P P1 XP5 . . . E 4 -3.084 10.846 10.69 1 65 ? P1 XP5 304 A 1 HETATM 4 O O3 XP5 . . . E 4 -2.038 10.936 11.94 1 50.38 ? O3 XP5 304 A 1 HETATM 5 C C1 XP5 . . . E 4 -1.331 9.821 12.384 1 39.67 ? C1 XP5 304 A 1 HETATM 6 C C2 XP5 . . . E 4 -1.42 9.694 13.903 1 34.69 ? C2 XP5 304 A 1 HETATM 7 N N1 XP5 . . . E 4 -1.611 10.942 14.607 1 50.48 ? N1 XP5 304 A 1 HETATM 8 C C3 XP5 . . . E 4 -1.46 10.755 16.032 1 30.53 ? C3 XP5 304 A 1 HETATM 9 C C4 XP5 . . . E 4 -0.595 11.899 14.193 1 52.56 ? C4 XP5 304 A 1 HETATM 10 C C5 XP5 . . . E 4 -2.962 11.434 14.421 1 47.55 ? C5 XP5 304 A 1 HETATM 11 O O4 XP5 . . . E 4 -2.384 9.977 9.493 1 54.7 ? O4 XP5 304 A 1 HETATM 12 C C6 XP5 . . . E 4 -2.698 10.218 8.159 1 34.44 ? C6 XP5 304 A 1 HETATM 13 C C8 XP5 . . . E 4 -4.682 10.717 6.755 1 32.84 ? C8 XP5 304 A 1 HETATM 14 O O5 XP5 . . . E 4 -4.4 9.838 5.732 1 47.14 ? O5 XP5 304 A 1 HETATM 15 C C9 XP5 . . . E 4 -3.515 10.286 4.76 1 39.36 ? C9 XP5 304 A 1 HETATM 16 O O6 XP5 . . . E 4 -3.856 10.297 3.636 1 45.4 ? O6 XP5 304 A 1 HETATM 17 C C10 XP5 . . . E 4 -2.099 10.708 5.136 1 46 ? C10 XP5 304 A 1 HETATM 18 C C11 XP5 . . . E 4 -1.927 11.937 6.026 1 41.67 ? C11 XP5 304 A 1 HETATM 19 C C12 XP5 . . . E 4 -0.497 12.441 5.953 1 39.41 ? C12 XP5 304 A 1 HETATM 20 C C13 XP5 . . . E 4 -0.353 13.929 6.259 1 30.89 ? C13 XP5 304 A 1 HETATM 21 C C14 XP5 . . . E 4 -0.501 14.827 5.032 1 36.96 ? C14 XP5 304 A 1 HETATM 22 C C15 XP5 . . . E 4 -0.011 14.169 3.738 1 37.16 ? C15 XP5 304 A 1 HETATM 23 O O7 XP5 . . . E 4 -3.937 7.217 6.973 1 24.83 ? O7 XP5 304 A 1 HETATM 24 C C17 XP5 . . . E 4 -4.813 7.82 7.479 1 27.98 ? C17 XP5 304 A 1 HETATM 25 O O8 XP5 . . . E 4 -4.596 8.831 8.396 1 50.88 ? O8 XP5 304 A 1 HETATM 26 C C18 XP5 . . . E 4 -6.262 7.466 7.21 1 34.33 ? C18 XP5 304 A 1 HETATM 27 C C19 XP5 . . . E 4 -7.267 8.138 8.136 1 28.02 ? C19 XP5 304 A 1 HETATM 28 C C20 XP5 . . . E 4 -8.614 8.29 7.429 1 33.48 ? C20 XP5 304 A 1 HETATM 29 C C21 XP5 . . . E 4 -9.344 6.993 7.138 1 23.22 ? C21 XP5 304 A 1 HETATM 30 C C22 XP5 . . . E 4 -10.553 7.128 6.212 1 33.55 ? C22 XP5 304 A 1 HETATM 31 C C23 XP5 . . . E 4 -11.093 5.785 5.728 1 26.48 ? C23 XP5 304 A 1 HETATM 32 C CAM XP5 . . . E 4 -4.206 10.138 8.073 1 41.55 ? CAM XP5 304 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 32 #