data_1XIO # _model_server_result.job_id OfjiYs6GqMLMoWOjiOtOFQ _model_server_result.datetime_utc '2025-07-10 02:05:46' _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 1xio # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 1XIO # _exptl.entry_id 1XIO _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 1XIO _cell.length_a 103.095 _cell.length_b 116.513 _cell.length_c 56.186 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XIO _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS monomeric 1 author_and_software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_655 -x+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 103.095 0 28.093 # _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 # 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 covale ? covale1 A NZ LYS 210 A LYS 210 1_555 B C15 RET . A RET 301 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.66 ? covale ? covale2 A NZ LYS 210 A LYS 210 1_555 B C15 RET . A RET 301 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.58 ? # _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 405 n n C1 C6 RET sing 406 n n C1 C16 RET sing 407 n n C1 C17 RET sing 408 n n C2 C3 RET sing 409 n n C2 H21 RET sing 410 n n C2 H22 RET sing 411 n n C3 C4 RET sing 412 n n C3 H31 RET sing 413 n n C3 H32 RET sing 414 n n C4 C5 RET sing 415 n n C4 H41 RET sing 416 n n C4 H42 RET sing 417 n n C5 C6 RET doub 418 n n C5 C18 RET sing 419 n n C6 C7 RET sing 420 n n C7 C8 RET doub 421 e n C7 H7 RET sing 422 n n C8 C9 RET sing 423 n n C8 H8 RET sing 424 n n C9 C10 RET doub 425 e n C9 C19 RET sing 426 n n C10 C11 RET sing 427 n n C10 H10 RET sing 428 n n C11 C12 RET doub 429 e n C11 H11 RET sing 430 n n C12 C13 RET sing 431 n n C12 H12 RET sing 432 n n C13 C14 RET doub 433 e n C13 C20 RET sing 434 n n C14 C15 RET sing 435 n n C14 H14 RET sing 436 n n C15 O1 RET doub 437 n n C15 H15 RET sing 438 n n C16 H161 RET sing 439 n n C16 H162 RET sing 440 n n C16 H163 RET sing 441 n n C17 H171 RET sing 442 n n C17 H172 RET sing 443 n n C17 H173 RET sing 444 n n C18 H181 RET sing 445 n n C18 H182 RET sing 446 n n C18 H183 RET sing 447 n n C19 H191 RET sing 448 n n C19 H192 RET sing 449 n n C19 H193 RET sing 450 n n C20 H201 RET sing 451 n n C20 H202 RET sing 452 n n C20 H203 RET sing 453 n n # _atom_sites.entry_id 1XIO _atom_sites.fract_transf_matrix[1][1] 0.0097 _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] 0.008583 _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] 0.017798 _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 PEE A 1 302 302 PEE PEE . D 3 PEE A 1 303 303 PEE PEE . E 3 PEE A 1 304 304 PEE PEE . F 3 PEE A 1 305 305 PEE PEE . G 3 PEE A 1 306 306 PEE PEE . H 3 PEE A 1 307 307 PEE PEE . I 3 PEE A 1 308 308 PEE PEE . J 3 PEE A 1 309 309 PEE PEE . K 3 PEE A 1 310 310 PEE PEE . L 3 PEE A 1 311 311 PEE PEE . M 3 PEE A 1 312 312 PEE PEE . N 3 PEE A 1 313 313 PEE PEE . O 3 PEE A 1 315 315 PEE PEE . P 4 HOH A 1 402 402 HOH HOH . P 4 HOH A 2 403 403 HOH HOH . P 4 HOH A 3 404 404 HOH HOH . P 4 HOH A 4 405 405 HOH HOH . P 4 HOH A 5 406 406 HOH HOH . P 4 HOH A 6 407 407 HOH HOH . P 4 HOH A 7 408 408 HOH HOH . P 4 HOH A 8 501 501 HOH HOH . P 4 HOH A 9 502 502 HOH HOH . P 4 HOH A 10 503 503 HOH HOH . P 4 HOH A 11 504 504 HOH HOH . P 4 HOH A 12 505 505 HOH HOH . P 4 HOH A 13 601 601 HOH HOH . P 4 HOH A 14 602 602 HOH HOH . P 4 HOH A 15 603 603 HOH HOH . P 4 HOH A 16 604 604 HOH HOH . P 4 HOH A 17 605 605 HOH HOH . P 4 HOH A 18 606 606 HOH HOH . P 4 HOH A 19 607 607 HOH HOH . P 4 HOH A 20 608 608 HOH HOH . P 4 HOH A 21 609 609 HOH HOH . P 4 HOH A 22 610 610 HOH HOH . P 4 HOH A 23 611 611 HOH HOH . P 4 HOH A 24 612 612 HOH HOH . P 4 HOH A 25 613 613 HOH HOH . P 4 HOH A 26 614 614 HOH HOH . P 4 HOH A 27 615 615 HOH HOH . P 4 HOH A 28 616 616 HOH HOH . P 4 HOH A 29 617 617 HOH HOH . P 4 HOH A 30 618 618 HOH HOH . P 4 HOH A 31 619 619 HOH HOH . P 4 HOH A 32 620 620 HOH HOH . P 4 HOH A 33 621 621 HOH HOH . P 4 HOH A 34 622 622 HOH HOH . P 4 HOH A 35 623 623 HOH HOH . P 4 HOH A 36 624 624 HOH HOH . P 4 HOH A 37 625 625 HOH HOH . P 4 HOH A 38 626 626 HOH HOH . P 4 HOH A 39 627 627 HOH HOH . P 4 HOH A 40 628 628 HOH HOH . P 4 HOH A 41 629 629 HOH HOH . P 4 HOH A 42 630 630 HOH HOH . P 4 HOH A 43 631 631 HOH HOH . P 4 HOH A 44 632 632 HOH HOH . P 4 HOH A 45 633 633 HOH HOH . P 4 HOH A 46 634 634 HOH HOH . P 4 HOH A 47 635 635 HOH HOH . P 4 HOH A 48 636 636 HOH HOH . P 4 HOH A 49 637 637 HOH HOH . P 4 HOH A 50 638 638 HOH HOH . P 4 HOH A 51 639 639 HOH HOH . P 4 HOH A 52 640 640 HOH HOH . P 4 HOH A 53 641 641 HOH HOH . P 4 HOH A 54 642 642 HOH HOH . P 4 HOH A 55 643 643 HOH HOH . P 4 HOH A 56 644 644 HOH HOH . P 4 HOH A 57 645 645 HOH HOH . P 4 HOH A 58 646 646 HOH HOH . P 4 HOH A 59 647 647 HOH HOH . P 4 HOH A 60 648 648 HOH HOH . P 4 HOH A 61 649 649 HOH HOH . P 4 HOH A 62 650 650 HOH HOH . P 4 HOH A 63 651 651 HOH HOH . P 4 HOH A 64 652 652 HOH HOH . P 4 HOH A 65 653 653 HOH HOH . P 4 HOH A 66 654 654 HOH HOH . P 4 HOH A 67 655 655 HOH HOH . P 4 HOH A 68 656 656 HOH HOH . P 4 HOH A 69 657 657 HOH HOH . P 4 HOH A 70 658 658 HOH HOH . P 4 HOH A 71 659 659 HOH HOH . P 4 HOH A 72 660 660 HOH HOH . P 4 HOH A 73 661 661 HOH HOH . P 4 HOH A 74 662 662 HOH HOH . P 4 HOH A 75 663 663 HOH HOH . P 4 HOH A 76 664 664 HOH HOH . P 4 HOH A 77 665 665 HOH HOH . P 4 HOH A 78 666 666 HOH HOH . P 4 HOH A 79 667 667 HOH HOH . P 4 HOH A 80 668 668 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 . A . B 2 41.038 29.782 10.375 0.5 26.24 ? C1 RET 301 A 1 HETATM 2 C C1 RET . B . B 2 41.022 29.417 10.308 0.5 15.51 ? C1 RET 301 A 1 HETATM 3 C C2 RET . A . B 2 41.632 30.801 9.352 0.5 24.11 ? C2 RET 301 A 1 HETATM 4 C C2 RET . B . B 2 41.664 30.453 9.314 0.5 15.43 ? C2 RET 301 A 1 HETATM 5 C C3 RET . A . B 2 42.655 30.285 8.439 0.5 23.67 ? C3 RET 301 A 1 HETATM 6 C C3 RET . B . B 2 42.684 29.916 8.411 0.5 14.43 ? C3 RET 301 A 1 HETATM 7 C C4 RET . A . B 2 42.17 28.993 7.695 0.5 23.72 ? C4 RET 301 A 1 HETATM 8 C C4 RET . B . B 2 42.111 28.735 7.572 0.5 14.73 ? C4 RET 301 A 1 HETATM 9 C C5 RET . A . B 2 41.403 27.996 8.567 0.5 26.15 ? C5 RET 301 A 1 HETATM 10 C C5 RET . B . B 2 41.348 27.705 8.395 0.5 16.48 ? C5 RET 301 A 1 HETATM 11 C C6 RET . A . B 2 40.875 28.324 9.805 0.5 26.17 ? C6 RET 301 A 1 HETATM 12 C C6 RET . B . B 2 40.834 27.968 9.647 0.5 16.31 ? C6 RET 301 A 1 HETATM 13 C C7 RET . A . B 2 40.158 27.251 10.55 0.5 28.04 ? C7 RET 301 A 1 HETATM 14 C C7 RET . B . B 2 40.111 26.871 10.346 0.5 18.42 ? C7 RET 301 A 1 HETATM 15 C C8 RET . A . B 2 39.53 27.221 11.764 0.5 28.56 ? C8 RET 301 A 1 HETATM 16 C C8 RET . B . B 2 39.528 26.872 11.557 0.5 19.16 ? C8 RET 301 A 1 HETATM 17 C C9 RET . A . B 2 38.864 26.071 12.372 0.5 27.15 ? C9 RET 301 A 1 HETATM 18 C C9 RET . B . B 2 38.808 25.822 12.269 0.5 17.02 ? C9 RET 301 A 1 HETATM 19 C C10 RET . A . B 2 38.302 26.334 13.628 0.5 26.87 ? C10 RET 301 A 1 HETATM 20 C C10 RET . B . B 2 38.32 26.135 13.51 0.5 15.94 ? C10 RET 301 A 1 HETATM 21 C C11 RET . A . B 2 37.613 25.286 14.348 0.5 26.02 ? C11 RET 301 A 1 HETATM 22 C C11 RET . B . B 2 37.584 25.22 14.321 0.5 16.73 ? C11 RET 301 A 1 HETATM 23 C C12 RET . A . B 2 37.086 25.573 15.593 0.5 29.33 ? C12 RET 301 A 1 HETATM 24 C C12 RET . B . B 2 37.167 25.631 15.54 0.5 18.76 ? C12 RET 301 A 1 HETATM 25 C C13 RET . A . B 2 36.387 24.556 16.397 0.5 31.65 ? C13 RET 301 A 1 HETATM 26 C C13 RET . B . B 2 36.419 24.861 16.496 0.5 22.13 ? C13 RET 301 A 1 HETATM 27 C C14 RET . A . B 2 35.916 24.958 17.662 0.5 31.5 ? C14 RET 301 A 1 HETATM 28 C C14 RET . B . B 2 36.2 25.604 17.647 0.5 22.58 ? C14 RET 301 A 1 HETATM 29 C C15 RET . A . B 2 35.962 26.217 18.282 0.5 31.02 ? C15 RET 301 A 1 HETATM 30 C C15 RET . B . B 2 35.534 25.178 18.806 0.5 22.84 ? C15 RET 301 A 1 HETATM 31 C C16 RET . A . B 2 41.905 29.788 11.65 0.5 24.74 ? C16 RET 301 A 1 HETATM 32 C C16 RET . B . B 2 41.921 29.362 11.561 0.5 14.58 ? C16 RET 301 A 1 HETATM 33 C C17 RET . A . B 2 39.689 30.477 10.699 0.5 24.59 ? C17 RET 301 A 1 HETATM 34 C C17 RET . B . B 2 39.664 30.088 10.657 0.5 14.4 ? C17 RET 301 A 1 HETATM 35 C C18 RET . A . B 2 41.352 26.66 7.837 0.5 25.11 ? C18 RET 301 A 1 HETATM 36 C C18 RET . B . B 2 41.252 26.394 7.638 0.5 13.82 ? C18 RET 301 A 1 HETATM 37 C C19 RET . A . B 2 38.834 24.747 11.627 0.5 24.31 ? C19 RET 301 A 1 HETATM 38 C C19 RET . B . B 2 38.681 24.494 11.546 0.5 12.27 ? C19 RET 301 A 1 HETATM 39 C C20 RET . A . B 2 36.219 23.141 15.909 0.5 28.06 ? C20 RET 301 A 1 HETATM 40 C C20 RET . B . B 2 35.958 23.426 16.287 0.5 19.16 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 248 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 40 #