data_6RQP # _model_server_result.job_id 3z9YLYYkyJJHOvOqVLTW7g _model_server_result.datetime_utc '2024-11-13 06:12:04' _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 6rqp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 6RQP # _exptl.entry_id 6RQP _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 120 _cell.entry_id 6RQP _cell.length_a 62 _cell.length_b 62 _cell.length_c 110.3 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6RQP _symmetry.cell_setting ? _symmetry.Int_Tables_number 173 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_665 -y+1,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 31 53.693575 0 3 'crystal symmetry operation' 3_565 -x+y,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -31 53.693575 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 212 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id LYS _struct_conn.ptnr1_auth_seq_id 216 _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 501 _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 1.42 _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 437 n n C1 C6 RET sing 438 n n C1 C16 RET sing 439 n n C1 C17 RET sing 440 n n C2 C3 RET sing 441 n n C2 H21 RET sing 442 n n C2 H22 RET sing 443 n n C3 C4 RET sing 444 n n C3 H31 RET sing 445 n n C3 H32 RET sing 446 n n C4 C5 RET sing 447 n n C4 H41 RET sing 448 n n C4 H42 RET sing 449 n n C5 C6 RET doub 450 n n C5 C18 RET sing 451 n n C6 C7 RET sing 452 n n C7 C8 RET doub 453 e n C7 H7 RET sing 454 n n C8 C9 RET sing 455 n n C8 H8 RET sing 456 n n C9 C10 RET doub 457 e n C9 C19 RET sing 458 n n C10 C11 RET sing 459 n n C10 H10 RET sing 460 n n C11 C12 RET doub 461 e n C11 H11 RET sing 462 n n C12 C13 RET sing 463 n n C12 H12 RET sing 464 n n C13 C14 RET doub 465 e n C13 C20 RET sing 466 n n C14 C15 RET sing 467 n n C14 H14 RET sing 468 n n C15 O1 RET doub 469 n n C15 H15 RET sing 470 n n C16 H161 RET sing 471 n n C16 H162 RET sing 472 n n C16 H163 RET sing 473 n n C17 H171 RET sing 474 n n C17 H172 RET sing 475 n n C17 H173 RET sing 476 n n C18 H181 RET sing 477 n n C18 H182 RET sing 478 n n C18 H183 RET sing 479 n n C19 H191 RET sing 480 n n C19 H192 RET sing 481 n n C19 H193 RET sing 482 n n C20 H201 RET sing 483 n n C20 H202 RET sing 484 n n C20 H203 RET sing 485 n n # _atom_sites.entry_id 6RQP _atom_sites.fract_transf_matrix[1][1] 0.016129 _atom_sites.fract_transf_matrix[1][2] 0.009312 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018624 _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] 0.009066 _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 1 501 501 RET RET . C 3 LI1 A 1 502 606 LI1 LI1 . D 3 LI1 A 1 503 607 LI1 LI1 . E 3 LI1 A 1 504 609 LI1 LI1 . F 3 LI1 A 1 505 610 LI1 LI1 . G 4 OLC A 1 506 2 OLC XXX . H 4 OLC A 1 507 3 OLC XXX . I 4 OLC A 1 508 5 OLC XXX . J 5 HOH A 1 425 425 HOH HOH . J 5 HOH A 2 451 451 HOH HOH . J 5 HOH A 3 402 402 HOH HOH . J 5 HOH A 4 414 414 HOH HOH . J 5 HOH A 5 400 400 HOH HOH . J 5 HOH A 6 401 401 HOH HOH . J 5 HOH A 7 438 438 HOH HOH . J 5 HOH A 8 424 424 HOH HOH . J 5 HOH A 9 406 406 HOH HOH . J 5 HOH A 10 408 408 HOH HOH . J 5 HOH A 11 403 403 HOH HOH . J 5 HOH A 12 407 407 HOH HOH . J 5 HOH A 13 405 405 HOH HOH . J 5 HOH A 14 448 448 HOH HOH . J 5 HOH A 15 433 433 HOH HOH . J 5 HOH A 16 441 441 HOH HOH . J 5 HOH A 17 404 404 HOH HOH . J 5 HOH A 18 444 444 HOH HOH . J 5 HOH A 19 442 442 HOH HOH . J 5 HOH A 20 446 446 HOH HOH . J 5 HOH A 21 443 443 HOH HOH . J 5 HOH A 22 447 447 HOH HOH . J 5 HOH A 23 450 450 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 14.952 45.925 29.981 1 49.81 ? C1 RET 501 A 1 HETATM 2 C C2 RET . . . B 2 14.437 46.845 28.865 1 61.17 ? C2 RET 501 A 1 HETATM 3 C C3 RET . . . B 2 14.984 48.203 28.837 1 56.68 ? C3 RET 501 A 1 HETATM 4 C C4 RET . . . B 2 14.823 48.924 30.167 1 55.18 ? C4 RET 501 A 1 HETATM 5 C C5 RET . . . B 2 15.198 48.049 31.343 1 52.46 ? C5 RET 501 A 1 HETATM 6 C C6 RET . . . B 2 15.289 46.705 31.259 1 50.16 ? C6 RET 501 A 1 HETATM 7 C C7 RET . . . B 2 15.732 45.876 32.439 1 47.64 ? C7 RET 501 A 1 HETATM 8 C C8 RET . . . B 2 15.887 44.612 32.59 1 50.26 ? C8 RET 501 A 1 HETATM 9 C C9 RET . . . B 2 16.415 43.976 33.801 1 51.06 ? C9 RET 501 A 1 HETATM 10 C C10 RET . . . B 2 16.602 42.644 33.791 1 51.45 ? C10 RET 501 A 1 HETATM 11 C C11 RET . . . B 2 17.098 41.837 34.827 1 48.37 ? C11 RET 501 A 1 HETATM 12 C C12 RET . . . B 2 17.215 40.538 34.651 1 50.96 ? C12 RET 501 A 1 HETATM 13 C C13 RET . . . B 2 17.622 39.578 35.597 1 53.36 ? C13 RET 501 A 1 HETATM 14 C C14 RET . . . B 2 17.627 38.257 35.194 1 54.79 ? C14 RET 501 A 1 HETATM 15 C C15 RET . . . B 2 17.795 37.147 35.885 1 61.18 ? C15 RET 501 A 1 HETATM 16 C C16 RET . . . B 2 16.169 45.156 29.466 1 54.38 ? C16 RET 501 A 1 HETATM 17 C C17 RET . . . B 2 13.774 44.977 30.166 1 52.17 ? C17 RET 501 A 1 HETATM 18 C C18 RET . . . B 2 15.314 48.826 32.63 1 52.79 ? C18 RET 501 A 1 HETATM 19 C C19 RET . . . B 2 16.7 44.876 35.007 1 51.32 ? C19 RET 501 A 1 HETATM 20 C C20 RET . . . B 2 17.965 40.08 36.96 1 50.62 ? C20 RET 501 A 1 HETATM 21 H H21 RET . . . B 2 13.352 46.914 28.929 1 73.42 ? H21 RET 501 A 1 HETATM 22 H H22 RET . . . B 2 14.626 46.379 27.9 1 73.42 ? H22 RET 501 A 1 HETATM 23 H H31 RET . . . B 2 14.508 48.778 28.045 1 68.04 ? H31 RET 501 A 1 HETATM 24 H H32 RET . . . B 2 16.037 48.172 28.559 1 68.04 ? H32 RET 501 A 1 HETATM 25 H H41 RET . . . B 2 13.797 49.268 30.288 1 66.24 ? H41 RET 501 A 1 HETATM 26 H H42 RET . . . B 2 15.429 49.828 30.183 1 66.24 ? H42 RET 501 A 1 HETATM 27 H H7 RET . . . B 2 15.95 46.512 33.296 1 57.2 ? H7 RET 501 A 1 HETATM 28 H H8 RET . . . B 2 15.613 43.946 31.774 1 60.33 ? H8 RET 501 A 1 HETATM 29 H H10 RET . . . B 2 16.344 42.102 32.882 1 61.77 ? H10 RET 501 A 1 HETATM 30 H H11 RET . . . B 2 17.373 42.333 35.757 1 58.07 ? H11 RET 501 A 1 HETATM 31 H H12 RET . . . B 2 16.978 40.128 33.671 1 61.18 ? H12 RET 501 A 1 HETATM 32 H H14 RET . . . B 2 17.469 38.051 34.137 1 65.77 ? H14 RET 501 A 1 HETATM 33 H H161 RET . . . B 2 15.888 44.332 28.812 1 65.28 ? H161 RET 501 A 1 HETATM 34 H H162 RET . . . B 2 16.845 45.79 28.895 1 65.28 ? H162 RET 501 A 1 HETATM 35 H H163 RET . . . B 2 16.756 44.725 30.276 1 65.28 ? H163 RET 501 A 1 HETATM 36 H H171 RET . . . B 2 13.059 45.363 30.892 1 62.63 ? H171 RET 501 A 1 HETATM 37 H H172 RET . . . B 2 13.234 44.821 29.233 1 62.63 ? H172 RET 501 A 1 HETATM 38 H H173 RET . . . B 2 14.098 43.999 30.52 1 62.63 ? H173 RET 501 A 1 HETATM 39 H H181 RET . . . B 2 14.507 48.563 33.313 1 63.38 ? H181 RET 501 A 1 HETATM 40 H H182 RET . . . B 2 16.261 48.612 33.125 1 63.38 ? H182 RET 501 A 1 HETATM 41 H H183 RET . . . B 2 15.264 49.897 32.44 1 63.38 ? H183 RET 501 A 1 HETATM 42 H H191 RET . . . B 2 17.303 44.38 35.767 1 61.61 ? H191 RET 501 A 1 HETATM 43 H H192 RET . . . B 2 17.241 45.782 34.734 1 61.61 ? H192 RET 501 A 1 HETATM 44 H H193 RET . . . B 2 15.791 45.206 35.508 1 61.61 ? H193 RET 501 A 1 HETATM 45 H H201 RET . . . B 2 17.989 39.264 37.68 1 60.77 ? H201 RET 501 A 1 HETATM 46 H H202 RET . . . B 2 18.942 40.56 36.962 1 60.77 ? H202 RET 501 A 1 HETATM 47 H H203 RET . . . B 2 17.231 40.809 37.301 1 60.77 ? H203 RET 501 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 47 #