data_2NTU # _model_server_result.job_id lmrgaCV4z0T9yyCrwlKnzw _model_server_result.datetime_utc '2024-11-17 20:31:11' _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 2ntu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 2NTU # _exptl.entry_id 2NTU _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 2NTU _cell.length_a 60.966 _cell.length_b 60.966 _cell.length_c 110.388 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2NTU _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,PQS _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 _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 30.483 52.798105 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 -30.483 52.798105 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 216 _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 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 1.324 _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 243 n n C1 C6 RET sing 244 n n C1 C16 RET sing 245 n n C1 C17 RET sing 246 n n C2 C3 RET sing 247 n n C2 H21 RET sing 248 n n C2 H22 RET sing 249 n n C3 C4 RET sing 250 n n C3 H31 RET sing 251 n n C3 H32 RET sing 252 n n C4 C5 RET sing 253 n n C4 H41 RET sing 254 n n C4 H42 RET sing 255 n n C5 C6 RET doub 256 n n C5 C18 RET sing 257 n n C6 C7 RET sing 258 n n C7 C8 RET doub 259 e n C7 H7 RET sing 260 n n C8 C9 RET sing 261 n n C8 H8 RET sing 262 n n C9 C10 RET doub 263 e n C9 C19 RET sing 264 n n C10 C11 RET sing 265 n n C10 H10 RET sing 266 n n C11 C12 RET doub 267 e n C11 H11 RET sing 268 n n C12 C13 RET sing 269 n n C12 H12 RET sing 270 n n C13 C14 RET doub 271 e n C13 C20 RET sing 272 n n C14 C15 RET sing 273 n n C14 H14 RET sing 274 n n C15 O1 RET doub 275 n n C15 H15 RET sing 276 n n C16 H161 RET sing 277 n n C16 H162 RET sing 278 n n C16 H163 RET sing 279 n n C17 H171 RET sing 280 n n C17 H172 RET sing 281 n n C17 H173 RET sing 282 n n C18 H181 RET sing 283 n n C18 H182 RET sing 284 n n C18 H183 RET sing 285 n n C19 H191 RET sing 286 n n C19 H192 RET sing 287 n n C19 H193 RET sing 288 n n C20 H201 RET sing 289 n n C20 H202 RET sing 290 n n C20 H203 RET sing 291 n n # _atom_sites.entry_id 2NTU _atom_sites.fract_transf_matrix[1][1] 0.016403 _atom_sites.fract_transf_matrix[1][2] 0.00947 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01894 _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] 0.009059 _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 HOH A 1 401 401 HOH HOH . C 3 HOH A 2 402 402 HOH HOH . C 3 HOH A 3 403 403 HOH HOH . C 3 HOH A 4 404 404 HOH HOH . C 3 HOH A 5 405 405 HOH HOH . C 3 HOH A 6 406 406 HOH HOH . C 3 HOH A 7 407 407 HOH HOH . C 3 HOH A 8 411 411 HOH HOH . C 3 HOH A 9 412 412 HOH HOH . C 3 HOH A 10 413 413 HOH HOH . C 3 HOH A 11 414 414 HOH HOH . C 3 HOH A 12 415 415 HOH HOH . C 3 HOH A 13 416 416 HOH HOH . C 3 HOH A 14 417 417 HOH HOH . C 3 HOH A 15 418 418 HOH HOH . C 3 HOH A 16 419 419 HOH HOH . C 3 HOH A 17 420 420 HOH HOH . C 3 HOH A 18 501 501 HOH HOH . C 3 HOH A 19 502 502 HOH HOH . C 3 HOH A 20 511 511 HOH HOH . C 3 HOH A 21 512 512 HOH HOH . C 3 HOH A 22 513 513 HOH HOH . C 3 HOH A 23 514 514 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 14.928 45.448 0.297 1 19.02 ? C1 RET 301 A 1 HETATM 2 C C2 RET . . . B 2 14.693 46.357 -0.892 1 21.23 ? C2 RET 301 A 1 HETATM 3 C C3 RET . . . B 2 14.229 47.713 -0.663 1 25.69 ? C3 RET 301 A 1 HETATM 4 C C4 RET . . . B 2 14.741 48.39 0.567 1 20.43 ? C4 RET 301 A 1 HETATM 5 C C5 RET . . . B 2 15.02 47.51 1.741 1 19.72 ? C5 RET 301 A 1 HETATM 6 C C6 RET . . . B 2 15.214 46.175 1.611 1 19.68 ? C6 RET 301 A 1 HETATM 7 C C7 RET . . . B 2 15.596 45.444 2.817 1 16.73 ? C7 RET 301 A 1 HETATM 8 C C8 RET . . . B 2 15.703 44.101 3.005 1 16.21 ? C8 RET 301 A 1 HETATM 9 C C9 RET . . . B 2 16.226 43.432 4.19 1 15.95 ? C9 RET 301 A 1 HETATM 10 C C10 RET . . . B 2 16.386 42.088 4.025 1 21.26 ? C10 RET 301 A 1 HETATM 11 C C11 RET . . . B 2 16.879 41.268 5.144 1 22.95 ? C11 RET 301 A 1 HETATM 12 C C12 RET . . . B 2 17.18 39.958 4.86 1 22.15 ? C12 RET 301 A 1 HETATM 13 C C13 RET . . . B 2 17.454 38.974 5.881 1 21.5 ? C13 RET 301 A 1 HETATM 14 C C14 RET . . . B 2 17.511 37.721 5.337 1 25.99 ? C14 RET 301 A 1 HETATM 15 C C15 RET . . . B 2 17.253 36.535 6.153 1 25.68 ? C15 RET 301 A 1 HETATM 16 C C16 RET . . . B 2 13.673 44.52 0.441 1 20.33 ? C16 RET 301 A 1 HETATM 17 C C17 RET . . . B 2 16.094 44.519 -0.222 1 17.41 ? C17 RET 301 A 1 HETATM 18 C C18 RET . . . B 2 15.18 48.344 2.98 1 19.12 ? C18 RET 301 A 1 HETATM 19 C C19 RET . . . B 2 16.602 44.175 5.426 1 19.59 ? C19 RET 301 A 1 HETATM 20 C C20 RET . . . B 2 17.835 39.294 7.297 1 21.44 ? C20 RET 301 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 20 #