data_5ZTK # _model_server_result.job_id xfpq0Pjqb0ZJpBPkZACwzA _model_server_result.datetime_utc '2024-11-13 06:06:55' _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 5ztk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 5ZTK # _exptl.entry_id 5ZTK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description RETINAL _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 109.85 _cell.angle_gamma 90 _cell.entry_id 5ZTK _cell.length_a 102.756 _cell.length_b 49.402 _cell.length_c 69.327 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZTK _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NZ _struct_conn.ptnr1_label_comp_id LYS _struct_conn.ptnr1_label_seq_id 238 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 235 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id C15 _struct_conn.ptnr2_label_comp_id RET _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id RET _struct_conn.ptnr2_auth_seq_id 303 _struct_conn.ptnr2_symmetry 1_555 _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 1.319 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C20 H28 O' _chem_comp.formula_weight 284.436 _chem_comp.id RET _chem_comp.mon_nstd_flag . _chem_comp.name RETINAL _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 C1 C2 RET sing 330 n n C1 C6 RET sing 331 n n C1 C16 RET sing 332 n n C1 C17 RET sing 333 n n C2 C3 RET sing 334 n n C2 H21 RET sing 335 n n C2 H22 RET sing 336 n n C3 C4 RET sing 337 n n C3 H31 RET sing 338 n n C3 H32 RET sing 339 n n C4 C5 RET sing 340 n n C4 H41 RET sing 341 n n C4 H42 RET sing 342 n n C5 C6 RET doub 343 n n C5 C18 RET sing 344 n n C6 C7 RET sing 345 n n C7 C8 RET doub 346 e n C7 H7 RET sing 347 n n C8 C9 RET sing 348 n n C8 H8 RET sing 349 n n C9 C10 RET doub 350 e n C9 C19 RET sing 351 n n C10 C11 RET sing 352 n n C10 H10 RET sing 353 n n C11 C12 RET doub 354 e n C11 H11 RET sing 355 n n C12 C13 RET sing 356 n n C12 H12 RET sing 357 n n C13 C14 RET doub 358 e n C13 C20 RET sing 359 n n C14 C15 RET sing 360 n n C14 H14 RET sing 361 n n C15 O1 RET doub 362 n n C15 H15 RET sing 363 n n C16 H161 RET sing 364 n n C16 H162 RET sing 365 n n C16 H163 RET sing 366 n n C17 H171 RET sing 367 n n C17 H172 RET sing 368 n n C17 H173 RET sing 369 n n C18 H181 RET sing 370 n n C18 H182 RET sing 371 n n C18 H183 RET sing 372 n n C19 H191 RET sing 373 n n C19 H192 RET sing 374 n n C19 H193 RET sing 375 n n C20 H201 RET sing 376 n n C20 H202 RET sing 377 n n C20 H203 RET sing 378 n n # _atom_sites.entry_id 5ZTK _atom_sites.fract_transf_matrix[1][1] 0.009732 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003513 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020242 _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] 0.015336 _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 CL A 1 301 1 CL CL . C 2 CL A 1 302 2 CL CL . D 3 RET A 1 303 1 RET RET . E 4 OLA A 1 304 1 OLA OLA . F 4 OLA A 1 305 2 OLA OLA . G 4 OLA A 1 306 3 OLA OLA . H 4 OLA A 1 307 5 OLA OLA . I 4 OLA A 1 308 6 OLA OLA . J 4 OLA A 1 309 7 OLA OLA . K 4 OLA A 1 310 8 OLA OLA . L 5 HOH A 1 401 563 HOH HOH . L 5 HOH A 2 402 565 HOH HOH . L 5 HOH A 3 403 505 HOH HOH . L 5 HOH A 4 404 502 HOH HOH . L 5 HOH A 5 405 510 HOH HOH . L 5 HOH A 6 406 512 HOH HOH . L 5 HOH A 7 407 525 HOH HOH . L 5 HOH A 8 408 536 HOH HOH . L 5 HOH A 9 409 533 HOH HOH . L 5 HOH A 10 410 567 HOH HOH . L 5 HOH A 11 411 540 HOH HOH . L 5 HOH A 12 412 544 HOH HOH . L 5 HOH A 13 413 526 HOH HOH . L 5 HOH A 14 414 550 HOH HOH . L 5 HOH A 15 415 508 HOH HOH . L 5 HOH A 16 416 503 HOH HOH . L 5 HOH A 17 417 516 HOH HOH . L 5 HOH A 18 418 537 HOH HOH . L 5 HOH A 19 419 514 HOH HOH . L 5 HOH A 20 420 557 HOH HOH . L 5 HOH A 21 421 501 HOH HOH . L 5 HOH A 22 422 534 HOH HOH . L 5 HOH A 23 423 507 HOH HOH . L 5 HOH A 24 424 547 HOH HOH . L 5 HOH A 25 425 527 HOH HOH . L 5 HOH A 26 426 546 HOH HOH . L 5 HOH A 27 427 532 HOH HOH . L 5 HOH A 28 428 538 HOH HOH . L 5 HOH A 29 429 556 HOH HOH . L 5 HOH A 30 430 543 HOH HOH . L 5 HOH A 31 431 569 HOH HOH . L 5 HOH A 32 432 551 HOH HOH . L 5 HOH A 33 433 519 HOH HOH . L 5 HOH A 34 434 513 HOH HOH . L 5 HOH A 35 435 504 HOH HOH . L 5 HOH A 36 436 576 HOH HOH . L 5 HOH A 37 437 521 HOH HOH . L 5 HOH A 38 438 515 HOH HOH . L 5 HOH A 39 439 559 HOH HOH . L 5 HOH A 40 440 539 HOH HOH . L 5 HOH A 41 441 575 HOH HOH . L 5 HOH A 42 442 523 HOH HOH . L 5 HOH A 43 443 535 HOH HOH . L 5 HOH A 44 444 511 HOH HOH . L 5 HOH A 45 445 529 HOH HOH . L 5 HOH A 46 446 522 HOH HOH . L 5 HOH A 47 447 509 HOH HOH . L 5 HOH A 48 448 528 HOH HOH . L 5 HOH A 49 449 524 HOH HOH . L 5 HOH A 50 450 541 HOH HOH . L 5 HOH A 51 451 560 HOH HOH . L 5 HOH A 52 452 518 HOH HOH . L 5 HOH A 53 453 530 HOH HOH . L 5 HOH A 54 454 545 HOH HOH . L 5 HOH A 55 455 506 HOH HOH . L 5 HOH A 56 456 548 HOH HOH . L 5 HOH A 57 457 570 HOH HOH . L 5 HOH A 58 458 520 HOH HOH . L 5 HOH A 59 459 517 HOH HOH . L 5 HOH A 60 460 542 HOH HOH . L 5 HOH A 61 461 549 HOH HOH . L 5 HOH A 62 462 531 HOH HOH . L 5 HOH A 63 463 554 HOH HOH . L 5 HOH A 64 464 564 HOH HOH . L 5 HOH A 65 465 555 HOH HOH . L 5 HOH A 66 466 552 HOH HOH . L 5 HOH A 67 467 577 HOH HOH . L 5 HOH A 68 468 571 HOH HOH . L 5 HOH A 69 469 558 HOH HOH . L 5 HOH A 70 470 562 HOH HOH . L 5 HOH A 71 471 561 HOH HOH . L 5 HOH A 72 472 572 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 RET . . . D 3 -20.444 7.905 5.237 1 12.92 ? C1 RET 303 A 1 HETATM 2 C C2 RET . . . D 3 -21.288 8.926 6.228 1 13.42 ? C2 RET 303 A 1 HETATM 3 C C3 RET . . . D 3 -22.666 8.803 6.092 1 13.31 ? C3 RET 303 A 1 HETATM 4 C C4 RET . . . D 3 -23.173 9.212 4.599 1 14.03 ? C4 RET 303 A 1 HETATM 5 C C5 RET . . . D 3 -22.353 8.675 3.545 1 15.65 ? C5 RET 303 A 1 HETATM 6 C C6 RET . . . D 3 -21.033 7.852 3.878 1 12.88 ? C6 RET 303 A 1 HETATM 7 C C7 RET . . . D 3 -20.43 7.081 2.695 1 13.41 ? C7 RET 303 A 1 HETATM 8 C C8 RET . . . D 3 -19.345 6.288 2.796 1 13.19 ? C8 RET 303 A 1 HETATM 9 C C9 RET . . . D 3 -18.861 5.481 1.626 1 14.23 ? C9 RET 303 A 1 HETATM 10 C C10 RET . . . D 3 -17.758 4.737 1.887 1 15.33 ? C10 RET 303 A 1 HETATM 11 C C11 RET . . . D 3 -17.138 3.829 0.862 1 15.99 ? C11 RET 303 A 1 HETATM 12 C C12 RET . . . D 3 -16.13 3.099 1.33 1 15.17 ? C12 RET 303 A 1 HETATM 13 C C13 RET . . . D 3 -15.443 2.094 0.421 1 17.36 ? C13 RET 303 A 1 HETATM 14 C C14 RET . . . D 3 -14.443 1.344 1.01 1 18.8 ? C14 RET 303 A 1 HETATM 15 C C15 RET . . . D 3 -13.651 0.287 0.265 1 22.95 ? C15 RET 303 A 1 HETATM 16 C C16 RET . . . D 3 -19.024 8.519 5.172 1 12.21 ? C16 RET 303 A 1 HETATM 17 C C17 RET . . . D 3 -20.432 6.468 5.886 1 13.12 ? C17 RET 303 A 1 HETATM 18 C C18 RET . . . D 3 -22.901 8.766 2.086 1 14.57 ? C18 RET 303 A 1 HETATM 19 C C19 RET . . . D 3 -19.639 5.484 0.239 1 11.98 ? C19 RET 303 A 1 HETATM 20 C C20 RET . . . D 3 -15.928 1.94 -1.011 1 17.63 ? C20 RET 303 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 28 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #