data_6QNO # _model_server_result.job_id taO-SlcWqahOm7U2cMxCVQ _model_server_result.datetime_utc '2024-11-21 13:58:42' _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 6qno # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":401}' # _entry.id 6QNO # _exptl.entry_id 6QNO _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 284.436 _entity.id 8 _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 6QNO _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6QNO _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 ? _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 8 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 7 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 7 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 7 n G NAG 1 C 1 NAG S 501 NAG 7 n G NAG 2 C 2 NAG S 502 NAG # 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 D SG CYS 43 L CYS 43 1_555 D SG CYS 113 L CYS 113 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf2 D SG CYS 159 L CYS 159 1_555 D SG CYS 219 L CYS 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 E SG CYS 41 H CYS 41 1_555 E SG CYS 115 H CYS 115 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf4 E SG CYS 167 H CYS 167 1_555 E SG CYS 222 H CYS 222 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 F SG CYS 2 R CYS 2 1_555 F SG CYS 282 R CYS 282 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 F SG CYS 110 R CYS 110 1_555 F SG CYS 187 R CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? covale ? covale1 F ND2 ASN 15 R ASN 15 1_555 G C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale2 F NZ LYS 296 R LYS 296 1_555 H C15 RET . R RET 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale3 G O4 NAG . C NAG 1 1_555 G C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? # _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 305 n n C1 C6 RET sing 306 n n C1 C16 RET sing 307 n n C1 C17 RET sing 308 n n C2 C3 RET sing 309 n n C2 H21 RET sing 310 n n C2 H22 RET sing 311 n n C3 C4 RET sing 312 n n C3 H31 RET sing 313 n n C3 H32 RET sing 314 n n C4 C5 RET sing 315 n n C4 H41 RET sing 316 n n C4 H42 RET sing 317 n n C5 C6 RET doub 318 n n C5 C18 RET sing 319 n n C6 C7 RET sing 320 n n C7 C8 RET doub 321 e n C7 H7 RET sing 322 n n C8 C9 RET sing 323 n n C8 H8 RET sing 324 n n C9 C10 RET doub 325 e n C9 C19 RET sing 326 n n C10 C11 RET sing 327 n n C10 H10 RET sing 328 n n C11 C12 RET doub 329 e n C11 H11 RET sing 330 n n C12 C13 RET sing 331 n n C12 H12 RET sing 332 n n C13 C14 RET doub 333 e n C13 C20 RET sing 334 n n C14 C15 RET sing 335 n n C14 H14 RET sing 336 n n C15 O1 RET doub 337 n n C15 H15 RET sing 338 n n C16 H161 RET sing 339 n n C16 H162 RET sing 340 n n C16 H163 RET sing 341 n n C17 H171 RET sing 342 n n C17 H172 RET sing 343 n n C17 H173 RET sing 344 n n C18 H181 RET sing 345 n n C18 H182 RET sing 346 n n C18 H183 RET sing 347 n n C19 H191 RET sing 348 n n C19 H192 RET sing 349 n n C19 H193 RET sing 350 n n C20 H201 RET sing 351 n n C20 H202 RET sing 352 n n C20 H203 RET sing 353 n n # _atom_sites.entry_id 6QNO _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id H _pdbx_nonpoly_scheme.entity_id 8 _pdbx_nonpoly_scheme.mon_id RET _pdbx_nonpoly_scheme.pdb_strand_id R _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 401 _pdbx_nonpoly_scheme.auth_seq_num 401 _pdbx_nonpoly_scheme.pdb_mon_id RET _pdbx_nonpoly_scheme.auth_mon_id RET _pdbx_nonpoly_scheme.pdb_ins_code . # 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 . . . H 8 128.015 118.548 112.776 1 158.76 ? C1 RET 401 R 1 HETATM 2 C C2 RET . . . H 8 126.706 117.774 112.319 1 158.76 ? C2 RET 401 R 1 HETATM 3 C C3 RET . . . H 8 126.48 116.464 113.096 1 158.76 ? C3 RET 401 R 1 HETATM 4 C C4 RET . . . H 8 127.7 115.49 112.974 1 158.76 ? C4 RET 401 R 1 HETATM 5 C C5 RET . . . H 8 129.09 116.218 112.73 1 158.76 ? C5 RET 401 R 1 HETATM 6 C C6 RET . . . H 8 129.264 117.537 112.906 1 158.76 ? C6 RET 401 R 1 HETATM 7 C C7 RET . . . H 8 130.658 118.294 113.385 1 158.76 ? C7 RET 401 R 1 HETATM 8 C C8 RET . . . H 8 131.632 117.781 114.207 1 158.76 ? C8 RET 401 R 1 HETATM 9 C C9 RET . . . H 8 132.998 118.432 114.704 1 158.76 ? C9 RET 401 R 1 HETATM 10 C C10 RET . . . H 8 134.229 118.179 114.136 1 158.76 ? C10 RET 401 R 1 HETATM 11 C C11 RET . . . H 8 135.616 118.75 114.517 1 158.76 ? C11 RET 401 R 1 HETATM 12 C C12 RET . . . H 8 136.629 119.083 113.659 1 158.76 ? C12 RET 401 R 1 HETATM 13 C C13 RET . . . H 8 138.011 119.651 114.007 1 158.76 ? C13 RET 401 R 1 HETATM 14 C C14 RET . . . H 8 139.155 119.143 113.459 1 158.76 ? C14 RET 401 R 1 HETATM 15 C C15 RET . . . H 8 140.581 119.639 113.743 1 158.76 ? C15 RET 401 R 1 HETATM 16 C C16 RET . . . H 8 127.782 119.123 114.223 1 158.76 ? C16 RET 401 R 1 HETATM 17 C C17 RET . . . H 8 128.229 119.728 111.771 1 158.76 ? C17 RET 401 R 1 HETATM 18 C C18 RET . . . H 8 129.982 115.309 111.803 1 158.76 ? C18 RET 401 R 1 HETATM 19 C C19 RET . . . H 8 132.942 119.387 115.9 1 158.76 ? C19 RET 401 R 1 HETATM 20 C C20 RET . . . H 8 138.127 120.823 114.991 1 158.76 ? C20 RET 401 R 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #