data_6JO0 # _model_server_result.job_id UaJJBYLPsHKcWgrKsQgDIQ _model_server_result.datetime_utc '2024-12-18 09:47:53' _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 6jo0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 6JO0 # _exptl.entry_id 6JO0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 284.436 _entity.id 2 _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 90 _cell.angle_gamma 90 _cell.entry_id 6JO0 _cell.length_a 45.194 _cell.length_b 57.832 _cell.length_c 117.037 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6JO0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 21' # _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,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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 218 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 211 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _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 301 _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 1.425 _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 472 n n C1 C6 RET sing 473 n n C1 C16 RET sing 474 n n C1 C17 RET sing 475 n n C2 C3 RET sing 476 n n C2 H21 RET sing 477 n n C2 H22 RET sing 478 n n C3 C4 RET sing 479 n n C3 H31 RET sing 480 n n C3 H32 RET sing 481 n n C4 C5 RET sing 482 n n C4 H41 RET sing 483 n n C4 H42 RET sing 484 n n C5 C6 RET doub 485 n n C5 C18 RET sing 486 n n C6 C7 RET sing 487 n n C7 C8 RET doub 488 e n C7 H7 RET sing 489 n n C8 C9 RET sing 490 n n C8 H8 RET sing 491 n n C9 C10 RET doub 492 e n C9 C19 RET sing 493 n n C10 C11 RET sing 494 n n C10 H10 RET sing 495 n n C11 C12 RET doub 496 e n C11 H11 RET sing 497 n n C12 C13 RET sing 498 n n C12 H12 RET sing 499 n n C13 C14 RET doub 500 e n C13 C20 RET sing 501 n n C14 C15 RET sing 502 n n C14 H14 RET sing 503 n n C15 O1 RET doub 504 n n C15 H15 RET sing 505 n n C16 H161 RET sing 506 n n C16 H162 RET sing 507 n n C16 H163 RET sing 508 n n C17 H171 RET sing 509 n n C17 H172 RET sing 510 n n C17 H173 RET sing 511 n n C18 H181 RET sing 512 n n C18 H182 RET sing 513 n n C18 H183 RET sing 514 n n C19 H191 RET sing 515 n n C19 H192 RET sing 516 n n C19 H193 RET sing 517 n n C20 H201 RET sing 518 n n C20 H202 RET sing 519 n n C20 H203 RET sing 520 n n # _atom_sites.entry_id 6JO0 _atom_sites.fract_transf_matrix[1][1] 0.022127 _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] 0.017291 _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] 0.008544 _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 RET A 1 301 301 RET RET . C 3 OCT A 1 302 1 OCT OCT . D 3 OCT A 1 303 2 OCT OCT . E 3 OCT A 1 304 3 OCT OCT . F 3 OCT A 1 305 4 OCT OCT . G 3 OCT A 1 306 5 OCT OCT . H 3 OCT A 1 307 6 OCT OCT . I 4 PO4 A 1 308 1 PO4 PO4 . J 5 HEX A 1 309 1 HEX HEX . K 5 HEX A 1 310 2 HEX HEX . L 5 HEX A 1 311 3 HEX HEX . M 5 HEX A 1 312 4 HEX HEX . N 5 HEX A 1 313 5 HEX HEX . O 6 D10 A 1 314 1 D10 D10 . P 7 D12 A 1 315 1 D12 D12 . Q 8 DD9 A 1 316 1 DD9 DD9 . R 8 DD9 A 1 317 2 DD9 DD9 . S 8 DD9 A 1 318 3 DD9 DD9 . T 9 OLB A 1 319 1 OLB OLB . U 10 HOH A 1 401 442 HOH HOH . U 10 HOH A 2 402 416 HOH HOH . U 10 HOH A 3 403 447 HOH HOH . U 10 HOH A 4 404 505 HOH HOH . U 10 HOH A 5 405 418 HOH HOH . U 10 HOH A 6 406 507 HOH HOH . U 10 HOH A 7 407 535 HOH HOH . U 10 HOH A 8 408 503 HOH HOH . U 10 HOH A 9 409 509 HOH HOH . U 10 HOH A 10 410 402 HOH HOH . U 10 HOH A 11 411 527 HOH HOH . U 10 HOH A 12 412 508 HOH HOH . U 10 HOH A 13 413 438 HOH HOH . U 10 HOH A 14 414 449 HOH HOH . U 10 HOH A 15 415 504 HOH HOH . U 10 HOH A 16 416 539 HOH HOH . U 10 HOH A 17 417 448 HOH HOH . U 10 HOH A 18 418 433 HOH HOH . U 10 HOH A 19 419 432 HOH HOH . U 10 HOH A 20 420 529 HOH HOH . U 10 HOH A 21 421 409 HOH HOH . U 10 HOH A 22 422 439 HOH HOH . U 10 HOH A 23 423 506 HOH HOH . U 10 HOH A 24 424 425 HOH HOH . U 10 HOH A 25 425 522 HOH HOH . U 10 HOH A 26 426 541 HOH HOH . U 10 HOH A 27 427 437 HOH HOH . U 10 HOH A 28 428 411 HOH HOH . U 10 HOH A 29 429 428 HOH HOH . U 10 HOH A 30 430 517 HOH HOH . U 10 HOH A 31 431 440 HOH HOH . U 10 HOH A 32 432 445 HOH HOH . U 10 HOH A 33 433 406 HOH HOH . U 10 HOH A 34 434 520 HOH HOH . U 10 HOH A 35 435 538 HOH HOH . U 10 HOH A 36 436 412 HOH HOH . U 10 HOH A 37 437 407 HOH HOH . U 10 HOH A 38 438 511 HOH HOH . U 10 HOH A 39 439 423 HOH HOH . U 10 HOH A 40 440 422 HOH HOH . U 10 HOH A 41 441 419 HOH HOH . U 10 HOH A 42 442 542 HOH HOH . U 10 HOH A 43 443 435 HOH HOH . U 10 HOH A 44 444 518 HOH HOH . U 10 HOH A 45 445 421 HOH HOH . U 10 HOH A 46 446 514 HOH HOH . U 10 HOH A 47 447 530 HOH HOH . U 10 HOH A 48 448 519 HOH HOH . U 10 HOH A 49 449 414 HOH HOH . U 10 HOH A 50 450 536 HOH HOH . U 10 HOH A 51 451 525 HOH HOH . U 10 HOH A 52 452 526 HOH HOH . U 10 HOH A 53 453 453 HOH HOH . U 10 HOH A 54 454 443 HOH HOH . U 10 HOH A 55 455 426 HOH HOH . U 10 HOH A 56 456 528 HOH HOH . U 10 HOH A 57 457 516 HOH HOH . U 10 HOH A 58 458 413 HOH HOH . U 10 HOH A 59 459 532 HOH HOH . U 10 HOH A 60 460 543 HOH HOH . U 10 HOH A 61 461 534 HOH HOH . U 10 HOH A 62 462 408 HOH HOH . U 10 HOH A 63 463 537 HOH HOH . U 10 HOH A 64 464 452 HOH HOH . U 10 HOH A 65 465 446 HOH HOH . U 10 HOH A 66 466 430 HOH HOH . U 10 HOH A 67 467 410 HOH HOH . U 10 HOH A 68 468 420 HOH HOH . U 10 HOH A 69 469 444 HOH HOH . U 10 HOH A 70 470 531 HOH HOH . U 10 HOH A 71 471 434 HOH HOH . U 10 HOH A 72 472 512 HOH HOH . U 10 HOH A 73 473 401 HOH HOH . U 10 HOH A 74 474 415 HOH HOH . U 10 HOH A 75 475 513 HOH HOH . U 10 HOH A 76 476 417 HOH HOH . U 10 HOH A 77 477 540 HOH HOH . U 10 HOH A 78 478 521 HOH HOH . U 10 HOH A 79 479 429 HOH HOH . U 10 HOH A 80 480 424 HOH HOH . U 10 HOH A 81 481 524 HOH HOH . U 10 HOH A 82 482 436 HOH HOH . U 10 HOH A 83 483 450 HOH HOH . U 10 HOH A 84 484 515 HOH HOH . U 10 HOH A 85 485 431 HOH HOH . U 10 HOH A 86 486 544 HOH HOH . U 10 HOH A 87 487 441 HOH HOH . U 10 HOH A 88 488 533 HOH HOH . U 10 HOH A 89 489 545 HOH HOH . U 10 HOH A 90 490 427 HOH HOH . U 10 HOH A 91 491 523 HOH HOH . U 10 HOH A 92 492 451 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 . . . B 2 12.951 -34.2 -8.35 1 21.42 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . B 2 13.101 -35.117 -7.119 1 22.74 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . B 2 13.709 -34.397 -5.926 1 23.31 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . B 2 12.833 -33.237 -5.505 1 21.34 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . B 2 12.282 -32.434 -6.666 1 21.69 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . B 2 12.443 -32.804 -7.949 1 22.96 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . B 2 12.066 -31.887 -9.013 1 22.19 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . B 2 12.282 -31.9 -10.34 1 22.67 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . B 2 11.837 -30.905 -11.293 1 20.91 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . B 2 11.82 -31.223 -12.606 1 21.83 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . B 2 11.419 -30.384 -13.697 1 19.81 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . B 2 11.229 -30.862 -14.927 1 19.95 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . B 2 10.821 -30.101 -16.084 1 18.85 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . B 2 10.901 -30.676 -17.309 1 20.41 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . B 2 10.561 -30.079 -18.569 1 20.89 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . B 2 14.331 -34.099 -9.016 1 23.35 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . B 2 11.98 -34.903 -9.315 1 21.2 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . B 2 11.722 -31.104 -6.24 1 23.22 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . B 2 11.415 -29.555 -10.773 1 20.7 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . B 2 10.323 -28.698 -15.866 1 21.19 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #