data_3UG9 # _model_server_result.job_id bKp4PMAmU0_gPMLifYtmqQ _model_server_result.datetime_utc '2025-02-23 03:15:26' _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 3ug9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 3UG9 # _exptl.entry_id 3UG9 _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 3UG9 _cell.length_a 59.471 _cell.length_b 139.114 _cell.length_c 90.049 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3UG9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 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_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 45.0245 # _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 disulf ? disulf1 A SG CYS 43 A CYS 66 1_555 A SG CYS 43 A CYS 66 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 50 A CYS 73 1_555 A SG CYS 52 A CYS 75 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? covale ? covale1 A NZ LYS 273 A LYS 296 1_555 B C15 RET . A RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.47 ? # _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 3UG9 _atom_sites.fract_transf_matrix[1][1] 0.016815 _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] 0.007188 _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] 0.011105 _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 1 401 1 RET RET . C 3 OLA A 1 501 1 OLA OLA . D 3 OLA A 1 502 2 OLA OLA . E 3 OLA A 1 503 3 OLA OLA . F 3 OLA A 1 504 4 OLA OLA . G 3 OLA A 1 505 5 OLA OLA . H 3 OLA A 1 506 6 OLA OLA . I 4 HOH A 1 601 1 HOH HOH . I 4 HOH A 2 602 2 HOH HOH . I 4 HOH A 3 603 3 HOH HOH . I 4 HOH A 4 604 4 HOH HOH . I 4 HOH A 5 605 5 HOH HOH . I 4 HOH A 6 606 6 HOH HOH . I 4 HOH A 7 607 7 HOH HOH . I 4 HOH A 8 608 8 HOH HOH . I 4 HOH A 9 609 9 HOH HOH . I 4 HOH A 10 610 10 HOH HOH . I 4 HOH A 11 611 11 HOH HOH . I 4 HOH A 12 612 12 HOH HOH . I 4 HOH A 13 613 13 HOH HOH . I 4 HOH A 14 614 14 HOH HOH . I 4 HOH A 15 615 15 HOH HOH . I 4 HOH A 16 616 16 HOH HOH . I 4 HOH A 17 617 17 HOH HOH . I 4 HOH A 18 618 18 HOH HOH . I 4 HOH A 19 619 19 HOH HOH . I 4 HOH A 20 620 20 HOH HOH . I 4 HOH A 21 621 21 HOH HOH . I 4 HOH A 22 622 22 HOH HOH . I 4 HOH A 23 623 23 HOH HOH . I 4 HOH A 24 624 24 HOH HOH . I 4 HOH A 25 625 25 HOH HOH . I 4 HOH A 26 626 26 HOH HOH . I 4 HOH A 27 627 27 HOH HOH . I 4 HOH A 28 628 28 HOH HOH . I 4 HOH A 29 629 29 HOH HOH . I 4 HOH A 30 630 30 HOH HOH . I 4 HOH A 31 631 31 HOH HOH . I 4 HOH A 32 632 32 HOH HOH . I 4 HOH A 33 633 33 HOH HOH . I 4 HOH A 34 634 34 HOH HOH . I 4 HOH A 35 635 35 HOH HOH . I 4 HOH A 36 636 36 HOH HOH . I 4 HOH A 37 637 37 HOH HOH . I 4 HOH A 38 638 38 HOH HOH . I 4 HOH A 39 639 39 HOH HOH . I 4 HOH A 40 640 40 HOH HOH . I 4 HOH A 41 641 41 HOH HOH . I 4 HOH A 42 642 42 HOH HOH . I 4 HOH A 43 643 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 C C1 RET . . . B 2 -0.591 32.492 10.45 1 41.42 ? C1 RET 401 A 1 HETATM 2 C C2 RET . . . B 2 -1.786 31.613 10.105 1 42.18 ? C2 RET 401 A 1 HETATM 3 C C3 RET . . . B 2 -3.074 32.415 10.016 1 38.14 ? C3 RET 401 A 1 HETATM 4 C C4 RET . . . B 2 -2.959 33.369 8.854 1 36.57 ? C4 RET 401 A 1 HETATM 5 C C5 RET . . . B 2 -1.817 34.293 9.163 1 40.92 ? C5 RET 401 A 1 HETATM 6 C C6 RET . . . B 2 -0.755 33.913 9.893 1 40.61 ? C6 RET 401 A 1 HETATM 7 C C7 RET . . . B 2 0.248 34.988 10.064 1 33.72 ? C7 RET 401 A 1 HETATM 8 C C8 RET . . . B 2 1.368 34.906 10.77 1 44.06 ? C8 RET 401 A 1 HETATM 9 C C9 RET . . . B 2 2.307 36.042 10.83 1 47.72 ? C9 RET 401 A 1 HETATM 10 C C10 RET . . . B 2 3.476 35.826 11.444 1 43.86 ? C10 RET 401 A 1 HETATM 11 C C11 RET . . . B 2 4.545 36.8 11.613 1 44.68 ? C11 RET 401 A 1 HETATM 12 C C12 RET . . . B 2 5.659 36.311 12.147 1 49.36 ? C12 RET 401 A 1 HETATM 13 C C13 RET . . . B 2 6.884 37.089 12.408 1 50.69 ? C13 RET 401 A 1 HETATM 14 C C14 RET . . . B 2 7.873 36.5 13.094 1 55.03 ? C14 RET 401 A 1 HETATM 15 C C15 RET . . . B 2 9.125 37.178 13.417 1 47.68 ? C15 RET 401 A 1 HETATM 16 C C16 RET . . . B 2 0.649 31.831 9.844 1 34.94 ? C16 RET 401 A 1 HETATM 17 C C17 RET . . . B 2 -0.514 32.478 11.978 1 41.58 ? C17 RET 401 A 1 HETATM 18 C C18 RET . . . B 2 -1.894 35.693 8.639 1 41.75 ? C18 RET 401 A 1 HETATM 19 C C19 RET . . . B 2 1.972 37.363 10.206 1 47.74 ? C19 RET 401 A 1 HETATM 20 C C20 RET . . . B 2 7.048 38.483 11.894 1 49.43 ? C20 RET 401 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #