data_5VED # _model_server_result.job_id fTCxbvlHx1ME94XQqq1K3Q _model_server_result.datetime_utc '2024-10-18 18:17:26' _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 5ved # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 5VED # _exptl.entry_id 5VED _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 466.531 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description STAUROSPORINE _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 5VED _cell.length_a 62.716 _cell.length_b 62.716 _cell.length_c 177.197 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VED _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 x,y,z _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 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 C LYS 201 A LYS 473 1_555 A N SEP 202 A SEP 474 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A C SEP 202 A SEP 474 1_555 A N LEU 203 A LEU 475 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? # _chem_comp.formula 'C28 H26 N4 O3' _chem_comp.formula_weight 466.531 _chem_comp.id STU _chem_comp.mon_nstd_flag . _chem_comp.name STAUROSPORINE _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 O4 C25 STU sing 308 n n O4 C21 STU sing 309 n n C25 C24 STU sing 310 n n C25 N3 STU sing 311 n n C25 H25 STU sing 312 n n C24 C23 STU sing 313 n n C24 H241 STU sing 314 n n C24 H242 STU sing 315 n n C23 C22 STU sing 316 n n C23 N4 STU sing 317 n n C23 H23 STU sing 318 n n C22 C21 STU sing 319 n n C22 O6 STU sing 320 n n C22 H22 STU sing 321 n n C21 C26 STU sing 322 n n C21 N2 STU sing 323 n n C26 H261 STU sing 324 n n C26 H262 STU sing 325 n n C26 H263 STU sing 326 n n N2 C18 STU sing 327 n y N2 C17 STU sing 328 n y C18 C19 STU doub 329 n y C18 C11 STU sing 330 n y C19 C6 STU sing 331 n y C19 N3 STU sing 332 n y C6 C7 STU doub 333 n y C6 C5 STU sing 334 n y C7 C10 STU sing 335 n y C7 C8 STU sing 336 n n C10 C11 STU doub 337 n y C10 C9 STU sing 338 n n C11 C12 STU sing 339 n y C12 C17 STU doub 340 n y C12 C13 STU sing 341 n y C17 C16 STU sing 342 n y C16 C15 STU doub 343 n y C16 H16 STU sing 344 n n C15 C14 STU sing 345 n y C15 H15 STU sing 346 n n C14 C13 STU doub 347 n y C14 H14 STU sing 348 n n C13 H13 STU sing 349 n n C9 N1 STU sing 350 n n C9 H91 STU sing 351 n n C9 H92 STU sing 352 n n N1 C8 STU sing 353 n n N1 HN1 STU sing 354 n n C8 O5 STU doub 355 n n C5 C20 STU doub 356 n y C5 C4 STU sing 357 n y C20 C1 STU sing 358 n y C20 N3 STU sing 359 n y C1 C2 STU doub 360 n y C1 H1 STU sing 361 n n C2 C3 STU sing 362 n y C2 H2 STU sing 363 n n C3 C4 STU doub 364 n y C3 H3 STU sing 365 n n C4 H4 STU sing 366 n n O6 C27 STU sing 367 n n C27 H271 STU sing 368 n n C27 H272 STU sing 369 n n C27 H273 STU sing 370 n n N4 C28 STU sing 371 n n N4 HN4 STU sing 372 n n C28 H281 STU sing 373 n n C28 H282 STU sing 374 n n C28 H283 STU sing 375 n n # _atom_sites.entry_id 5VED _atom_sites.fract_transf_matrix[1][1] 0.015945 _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] 0.015945 _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] 0.005643 _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 STU A 1 601 1 STU STU . C 3 HOH A 1 701 2 HOH HOH . C 3 HOH A 2 702 36 HOH HOH . C 3 HOH A 3 703 32 HOH HOH . C 3 HOH A 4 704 41 HOH HOH . C 3 HOH A 5 705 7 HOH HOH . C 3 HOH A 6 706 5 HOH HOH . C 3 HOH A 7 707 1 HOH HOH . C 3 HOH A 8 708 4 HOH HOH . C 3 HOH A 9 709 37 HOH HOH . C 3 HOH A 10 710 9 HOH HOH . C 3 HOH A 11 711 29 HOH HOH . C 3 HOH A 12 712 34 HOH HOH . C 3 HOH A 13 713 6 HOH HOH . C 3 HOH A 14 714 39 HOH HOH . C 3 HOH A 15 715 31 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 O O4 STU . . . B 2 -29.553 16.532 -12.836 1 42.3 ? O4 STU 601 A 1 HETATM 2 C C25 STU . . . B 2 -30.481 15.574 -12.434 1 39.93 ? C25 STU 601 A 1 HETATM 3 C C24 STU . . . B 2 -30.388 15.208 -10.961 1 43.08 ? C24 STU 601 A 1 HETATM 4 C C23 STU . . . B 2 -29.454 16.209 -10.271 1 47.8 ? C23 STU 601 A 1 HETATM 5 C C22 STU . . . B 2 -28.07 16.104 -10.93 1 43.83 ? C22 STU 601 A 1 HETATM 6 C C21 STU . . . B 2 -28.228 16.393 -12.413 1 43.45 ? C21 STU 601 A 1 HETATM 7 C C26 STU . . . B 2 -27.729 17.831 -12.58 1 36.58 ? C26 STU 601 A 1 HETATM 8 N N2 STU . . . B 2 -27.443 15.448 -13.238 1 36.75 ? N2 STU 601 A 1 HETATM 9 C C18 STU . . . B 2 -28.021 14.335 -13.855 1 40.3 ? C18 STU 601 A 1 HETATM 10 C C19 STU . . . B 2 -29.347 13.872 -13.863 1 38.61 ? C19 STU 601 A 1 HETATM 11 C C6 STU . . . B 2 -29.696 12.716 -14.569 1 36.72 ? C6 STU 601 A 1 HETATM 12 C C7 STU . . . B 2 -28.705 12.006 -15.285 1 29.43 ? C7 STU 601 A 1 HETATM 13 C C10 STU . . . B 2 -27.395 12.469 -15.271 1 22.86 ? C10 STU 601 A 1 HETATM 14 C C11 STU . . . B 2 -27.05 13.617 -14.568 1 40.11 ? C11 STU 601 A 1 HETATM 15 C C12 STU . . . B 2 -25.798 14.334 -14.37 1 36.11 ? C12 STU 601 A 1 HETATM 16 C C17 STU . . . B 2 -26.082 15.449 -13.546 1 38.04 ? C17 STU 601 A 1 HETATM 17 C C16 STU . . . B 2 -25.025 16.303 -13.204 1 39.83 ? C16 STU 601 A 1 HETATM 18 C C15 STU . . . B 2 -23.76 16.025 -13.689 1 32.77 ? C15 STU 601 A 1 HETATM 19 C C14 STU . . . B 2 -23.505 14.935 -14.493 1 37.49 ? C14 STU 601 A 1 HETATM 20 C C13 STU . . . B 2 -24.517 14.065 -14.851 1 39.96 ? C13 STU 601 A 1 HETATM 21 C C9 STU . . . B 2 -26.592 11.508 -16.111 1 22.01 ? C9 STU 601 A 1 HETATM 22 N N1 STU . . . B 2 -27.536 10.491 -16.585 1 32.45 ? N1 STU 601 A 1 HETATM 23 C C8 STU . . . B 2 -28.755 10.783 -16.104 1 29.78 ? C8 STU 601 A 1 HETATM 24 O O5 STU . . . B 2 -29.754 10.126 -16.32 1 45.88 ? O5 STU 601 A 1 HETATM 25 C C5 STU . . . B 2 -31.129 12.533 -14.36 1 37.86 ? C5 STU 601 A 1 HETATM 26 C C20 STU . . . B 2 -31.56 13.598 -13.535 1 41.13 ? C20 STU 601 A 1 HETATM 27 C C1 STU . . . B 2 -32.895 13.708 -13.151 1 35.52 ? C1 STU 601 A 1 HETATM 28 C C2 STU . . . B 2 -33.766 12.735 -13.612 1 33.88 ? C2 STU 601 A 1 HETATM 29 C C3 STU . . . B 2 -33.342 11.694 -14.418 1 36.98 ? C3 STU 601 A 1 HETATM 30 C C4 STU . . . B 2 -32.022 11.562 -14.815 1 37.45 ? C4 STU 601 A 1 HETATM 31 N N3 STU . . . B 2 -30.445 14.381 -13.262 1 33.56 ? N3 STU 601 A 1 HETATM 32 O O6 STU . . . B 2 -27.589 14.767 -10.776 1 39.97 ? O6 STU 601 A 1 HETATM 33 C C27 STU . . . B 2 -26.305 14.859 -10.154 1 60.3 ? C27 STU 601 A 1 HETATM 34 N N4 STU . . . B 2 -29.365 15.93 -8.83 1 56.66 ? N4 STU 601 A 1 HETATM 35 C C28 STU . . . B 2 -28.595 17.035 -8.241 1 59.78 ? C28 STU 601 A 1 # _model_server_stats.io_time_ms 65 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 35 #