data_5CCS # _model_server_result.job_id EHQmGUdTMRhPWm_Ond-jSA _model_server_result.datetime_utc '2024-10-19 09:31:05' _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 5ccs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5CCS # _exptl.entry_id 5CCS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 352.43 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-(4-aminobenzyl)-3-{2-oxo-2-[(2R)-2-phenylpyrrolidin-1-yl]ethyl}urea _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 5CCS _cell.length_a 37.27 _cell.length_b 58.7 _cell.length_c 77.03 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CCS _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # _chem_comp.formula 'C20 H24 N4 O2' _chem_comp.formula_weight 352.43 _chem_comp.id C4Y _chem_comp.mon_nstd_flag . _chem_comp.name 1-(4-aminobenzyl)-3-{2-oxo-2-[(2R)-2-phenylpyrrolidin-1-yl]ethyl}urea _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 C44 C45 C4Y doub 70 n y C44 C43 C4Y sing 71 n y C45 C46 C4Y sing 72 n y C43 C42 C4Y doub 73 n y C46 C47 C4Y doub 74 n y C42 C47 C4Y sing 75 n y C42 C26 C4Y sing 76 n n C26 C27 C4Y sing 77 n n C26 N25 C4Y sing 78 n n C27 C28 C4Y sing 79 n n C19 N18 C4Y sing 80 n n C19 C20 C4Y sing 81 n n C28 C29 C4Y sing 82 n n N25 C20 C4Y sing 83 n n N25 C29 C4Y sing 84 n n O17 C2 C4Y doub 85 n n N18 C2 C4Y sing 86 n n C2 N1 C4Y sing 87 n n C20 O23 C4Y doub 88 n n N1 C3 C4Y sing 89 n n C3 C4 C4Y sing 90 n n C4 C9 C4Y doub 91 n y C4 C5 C4Y sing 92 n y C9 C8 C4Y sing 93 n y C5 C6 C4Y doub 94 n y C8 C7 C4Y doub 95 n y C6 C7 C4Y sing 96 n y C7 N16 C4Y sing 97 n n N1 H1 C4Y sing 98 n n C3 H2 C4Y sing 99 n n C3 H3 C4Y sing 100 n n C5 H4 C4Y sing 101 n n C6 H5 C4Y sing 102 n n C8 H6 C4Y sing 103 n n C9 H7 C4Y sing 104 n n N16 H8 C4Y sing 105 n n N16 H9 C4Y sing 106 n n N18 H10 C4Y sing 107 n n C19 H11 C4Y sing 108 n n C19 H12 C4Y sing 109 n n C26 H13 C4Y sing 110 n n C27 H14 C4Y sing 111 n n C27 H15 C4Y sing 112 n n C28 H16 C4Y sing 113 n n C28 H17 C4Y sing 114 n n C29 H18 C4Y sing 115 n n C29 H19 C4Y sing 116 n n C43 H20 C4Y sing 117 n n C44 H21 C4Y sing 118 n n C45 H22 C4Y sing 119 n n C46 H23 C4Y sing 120 n n C47 H24 C4Y sing 121 n n # _atom_sites.entry_id 5CCS _atom_sites.fract_transf_matrix[1][1] 0.026831 _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] 0.017036 _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] 0.012982 _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 C4Y X 1 201 1 C4Y c4y . C 3 HOH X 1 301 41 HOH HOH . C 3 HOH X 2 302 19 HOH HOH . C 3 HOH X 3 303 104 HOH HOH . C 3 HOH X 4 304 10 HOH HOH . C 3 HOH X 5 305 36 HOH HOH . C 3 HOH X 6 306 83 HOH HOH . C 3 HOH X 7 307 8 HOH HOH . C 3 HOH X 8 308 78 HOH HOH . C 3 HOH X 9 309 59 HOH HOH . C 3 HOH X 10 310 14 HOH HOH . C 3 HOH X 11 311 18 HOH HOH . C 3 HOH X 12 312 37 HOH HOH . C 3 HOH X 13 313 72 HOH HOH . C 3 HOH X 14 314 39 HOH HOH . C 3 HOH X 15 315 108 HOH HOH . C 3 HOH X 16 316 103 HOH HOH . C 3 HOH X 17 317 49 HOH HOH . C 3 HOH X 18 318 94 HOH HOH . C 3 HOH X 19 319 27 HOH HOH . C 3 HOH X 20 320 74 HOH HOH . C 3 HOH X 21 321 50 HOH HOH . C 3 HOH X 22 322 1 HOH HOH . C 3 HOH X 23 323 91 HOH HOH . C 3 HOH X 24 324 5 HOH HOH . C 3 HOH X 25 325 98 HOH HOH . C 3 HOH X 26 326 9 HOH HOH . C 3 HOH X 27 327 89 HOH HOH . C 3 HOH X 28 328 97 HOH HOH . C 3 HOH X 29 329 99 HOH HOH . C 3 HOH X 30 330 77 HOH HOH . C 3 HOH X 31 331 2 HOH HOH . C 3 HOH X 32 332 82 HOH HOH . C 3 HOH X 33 333 54 HOH HOH . C 3 HOH X 34 334 30 HOH HOH . C 3 HOH X 35 335 42 HOH HOH . C 3 HOH X 36 336 75 HOH HOH . C 3 HOH X 37 337 20 HOH HOH . C 3 HOH X 38 338 22 HOH HOH . C 3 HOH X 39 339 32 HOH HOH . C 3 HOH X 40 340 28 HOH HOH . C 3 HOH X 41 341 101 HOH HOH . C 3 HOH X 42 342 46 HOH HOH . C 3 HOH X 43 343 71 HOH HOH . C 3 HOH X 44 344 53 HOH HOH . C 3 HOH X 45 345 13 HOH HOH . C 3 HOH X 46 346 29 HOH HOH . C 3 HOH X 47 347 84 HOH HOH . C 3 HOH X 48 348 4 HOH HOH . C 3 HOH X 49 349 107 HOH HOH . C 3 HOH X 50 350 7 HOH HOH . C 3 HOH X 51 351 6 HOH HOH . C 3 HOH X 52 352 51 HOH HOH . C 3 HOH X 53 353 15 HOH HOH . C 3 HOH X 54 354 17 HOH HOH . C 3 HOH X 55 355 12 HOH HOH . C 3 HOH X 56 356 3 HOH HOH . C 3 HOH X 57 357 55 HOH HOH . C 3 HOH X 58 358 23 HOH HOH . C 3 HOH X 59 359 81 HOH HOH . C 3 HOH X 60 360 79 HOH HOH . C 3 HOH X 61 361 80 HOH HOH . C 3 HOH X 62 362 109 HOH HOH . C 3 HOH X 63 363 85 HOH HOH . C 3 HOH X 64 364 38 HOH HOH . C 3 HOH X 65 365 16 HOH HOH . C 3 HOH X 66 366 73 HOH HOH . C 3 HOH X 67 367 86 HOH HOH . C 3 HOH X 68 368 100 HOH HOH . C 3 HOH X 69 369 106 HOH HOH . C 3 HOH X 70 370 11 HOH HOH . C 3 HOH X 71 371 95 HOH HOH . C 3 HOH X 72 372 24 HOH HOH . C 3 HOH X 73 373 76 HOH HOH . C 3 HOH X 74 374 70 HOH HOH . C 3 HOH X 75 375 43 HOH HOH . C 3 HOH X 76 376 34 HOH HOH . C 3 HOH X 77 377 58 HOH HOH . C 3 HOH X 78 378 31 HOH HOH . C 3 HOH X 79 379 40 HOH HOH . C 3 HOH X 80 380 105 HOH HOH . C 3 HOH X 81 381 90 HOH HOH . C 3 HOH X 82 382 87 HOH HOH . C 3 HOH X 83 383 35 HOH HOH . C 3 HOH X 84 384 25 HOH HOH . C 3 HOH X 85 385 44 HOH HOH . C 3 HOH X 86 386 93 HOH HOH . C 3 HOH X 87 387 92 HOH HOH . C 3 HOH X 88 388 65 HOH HOH . C 3 HOH X 89 389 45 HOH HOH . C 3 HOH X 90 390 56 HOH HOH . C 3 HOH X 91 391 88 HOH HOH . C 3 HOH X 92 392 48 HOH HOH . C 3 HOH X 93 393 68 HOH HOH . C 3 HOH X 94 394 102 HOH HOH . C 3 HOH X 95 395 61 HOH HOH . C 3 HOH X 96 396 62 HOH HOH . C 3 HOH X 97 397 21 HOH HOH . C 3 HOH X 98 398 66 HOH HOH . C 3 HOH X 99 399 60 HOH HOH . C 3 HOH X 100 400 57 HOH HOH . C 3 HOH X 101 401 69 HOH HOH . C 3 HOH X 102 402 52 HOH HOH . C 3 HOH X 103 403 64 HOH HOH . C 3 HOH X 104 404 67 HOH HOH . C 3 HOH X 105 405 26 HOH HOH . C 3 HOH X 106 406 33 HOH HOH . C 3 HOH X 107 407 63 HOH HOH . C 3 HOH X 108 408 47 HOH HOH . C 3 HOH X 109 409 96 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 N N1 C4Y . . . B 2 -20.36 17.545 4.771 1 17.48 ? N1 C4Y 201 X 1 HETATM 2 C C2 C4Y . . . B 2 -20.026 16.467 4.066 1 17.31 ? C2 C4Y 201 X 1 HETATM 3 C C3 C4Y . . . B 2 -21.687 17.775 5.292 1 18.44 ? C3 C4Y 201 X 1 HETATM 4 C C4 C4Y . . . B 2 -21.69 17.958 6.761 1 18.24 ? C4 C4Y 201 X 1 HETATM 5 C C5 C4Y . . . B 2 -20.982 17.053 7.563 1 19.89 ? C5 C4Y 201 X 1 HETATM 6 C C6 C4Y . . . B 2 -20.987 17.17 8.948 1 19.71 ? C6 C4Y 201 X 1 HETATM 7 C C7 C4Y . . . B 2 -21.71 18.215 9.523 1 19.87 ? C7 C4Y 201 X 1 HETATM 8 C C8 C4Y . . . B 2 -22.441 19.125 8.721 1 19.49 ? C8 C4Y 201 X 1 HETATM 9 C C9 C4Y . . . B 2 -22.428 19.005 7.33 1 19.52 ? C9 C4Y 201 X 1 HETATM 10 N N16 C4Y . . . B 2 -21.704 18.32 10.992 1 19.96 ? N16 C4Y 201 X 1 HETATM 11 O O17 C4Y . . . B 2 -20.856 15.628 3.759 1 16.52 ? O17 C4Y 201 X 1 HETATM 12 N N18 C4Y . . . B 2 -18.714 16.335 3.79 1 18.33 ? N18 C4Y 201 X 1 HETATM 13 C C19 C4Y . . . B 2 -18.134 15.182 3.152 1 18.68 ? C19 C4Y 201 X 1 HETATM 14 C C20 C4Y . . . B 2 -17.79 14.081 4.144 1 20.02 ? C20 C4Y 201 X 1 HETATM 15 O O23 C4Y . . . B 2 -17.709 14.365 5.338 1 17.36 ? O23 C4Y 201 X 1 HETATM 16 N N25 C4Y . . . B 2 -17.551 12.832 3.656 1 23.17 ? N25 C4Y 201 X 1 HETATM 17 C C26 C4Y . . . B 2 -17.75 12.425 2.235 1 26.14 ? C26 C4Y 201 X 1 HETATM 18 C C27 C4Y . . . B 2 -17.757 10.898 2.272 1 25.65 ? C27 C4Y 201 X 1 HETATM 19 C C28 C4Y . . . B 2 -16.779 10.551 3.388 1 24.24 ? C28 C4Y 201 X 1 HETATM 20 C C29 C4Y . . . B 2 -17.021 11.675 4.395 1 24.02 ? C29 C4Y 201 X 1 HETATM 21 C C42 C4Y . . . B 2 -16.615 12.821 1.353 1 27.65 ? C42 C4Y 201 X 1 HETATM 22 C C43 C4Y . . . B 2 -16.86 12.831 -0.046 1 28.7 ? C43 C4Y 201 X 1 HETATM 23 C C44 C4Y . . . B 2 -15.822 13.147 -0.926 1 26.98 ? C44 C4Y 201 X 1 HETATM 24 C C45 C4Y . . . B 2 -14.57 13.454 -0.41 1 28.38 ? C45 C4Y 201 X 1 HETATM 25 C C46 C4Y . . . B 2 -14.308 13.414 0.976 1 30.62 ? C46 C4Y 201 X 1 HETATM 26 C C47 C4Y . . . B 2 -15.337 13.114 1.879 1 27.62 ? C47 C4Y 201 X 1 # _model_server_stats.io_time_ms 77 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 26 #