data_8OHO # _model_server_result.job_id 97pj4NI501HldczGFJqFxg _model_server_result.datetime_utc '2024-11-13 07:43:01' _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 8oho # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":301}' # _entry.id 8OHO # _exptl.entry_id 8OHO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 212.289 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N-cyclopentyl-N'-{[(2R)-oxolan-2-yl]methyl}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 95.28 _cell.angle_gamma 90 _cell.entry_id 8OHO _cell.length_a 118.7 _cell.length_b 39.33 _cell.length_c 68.11 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8OHO _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 C _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 metalc ? metalc1 E MG MG . B MG 302 1_555 G O HOH . B HOH 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? metalc ? metalc2 E MG MG . B MG 302 1_555 G O HOH . B HOH 448 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc3 E MG MG . B MG 302 1_555 G O HOH . B HOH 453 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.118 ? metalc ? metalc4 E MG MG . B MG 302 1_555 G O HOH . B HOH 456 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc5 E MG MG . B MG 302 1_555 G O HOH . B HOH 458 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc6 E MG MG . B MG 302 1_555 G O HOH . B HOH 459 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? # _chem_comp.formula 'C11 H20 N2 O2' _chem_comp.formula_weight 212.289 _chem_comp.id TBJ _chem_comp.mon_nstd_flag . _chem_comp.name "N-cyclopentyl-N'-{[(2R)-oxolan-2-yl]methyl}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 O C5 TBJ doub 326 n n C C4 TBJ sing 327 n n C C1 TBJ sing 328 n n C4 C3 TBJ sing 329 n n C1 C2 TBJ sing 330 n n C3 C2 TBJ sing 331 n n C3 N TBJ sing 332 n n C5 N TBJ sing 333 n n C5 N1 TBJ sing 334 n n C6 N1 TBJ sing 335 n n C6 C7 TBJ sing 336 n n O1 C10 TBJ sing 337 n n O1 C7 TBJ sing 338 n n C10 C9 TBJ sing 339 n n C7 C8 TBJ sing 340 n n C9 C8 TBJ sing 341 n n C4 H1 TBJ sing 342 n n C4 H2 TBJ sing 343 n n C6 H3 TBJ sing 344 n n C6 H4 TBJ sing 345 n n N1 H5 TBJ sing 346 n n C7 H6 TBJ sing 347 n n C8 H7 TBJ sing 348 n n C8 H8 TBJ sing 349 n n C9 H9 TBJ sing 350 n n C9 H10 TBJ sing 351 n n C10 H11 TBJ sing 352 n n C10 H12 TBJ sing 353 n n N H13 TBJ sing 354 n n C3 H14 TBJ sing 355 n n C2 H15 TBJ sing 356 n n C2 H16 TBJ sing 357 n n C1 H17 TBJ sing 358 n n C1 H18 TBJ sing 359 n n C H19 TBJ sing 360 n n C H20 TBJ sing 361 n n # _atom_sites.entry_id 8OHO _atom_sites.fract_transf_matrix[1][1] 0.008425 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000779 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025426 _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] 0.014745 _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 C 2 TBJ A 1 301 301 TBJ LIG . D 3 REG B 1 301 301 REG LIG . E 4 MG B 1 302 1 MG MG . F 5 HOH A 1 401 22 HOH HOH . F 5 HOH A 2 402 39 HOH HOH . F 5 HOH A 3 403 76 HOH HOH . F 5 HOH A 4 404 64 HOH HOH . F 5 HOH A 5 405 106 HOH HOH . F 5 HOH A 6 406 4 HOH HOH . F 5 HOH A 7 407 71 HOH HOH . F 5 HOH A 8 408 62 HOH HOH . F 5 HOH A 9 409 77 HOH HOH . F 5 HOH A 10 410 14 HOH HOH . F 5 HOH A 11 411 10 HOH HOH . F 5 HOH A 12 412 13 HOH HOH . F 5 HOH A 13 413 24 HOH HOH . F 5 HOH A 14 414 41 HOH HOH . F 5 HOH A 15 415 7 HOH HOH . F 5 HOH A 16 416 60 HOH HOH . F 5 HOH A 17 417 63 HOH HOH . F 5 HOH A 18 418 43 HOH HOH . F 5 HOH A 19 419 32 HOH HOH . F 5 HOH A 20 420 54 HOH HOH . F 5 HOH A 21 421 12 HOH HOH . F 5 HOH A 22 422 17 HOH HOH . F 5 HOH A 23 423 85 HOH HOH . F 5 HOH A 24 424 8 HOH HOH . F 5 HOH A 25 425 101 HOH HOH . F 5 HOH A 26 426 59 HOH HOH . F 5 HOH A 27 427 81 HOH HOH . F 5 HOH A 28 428 23 HOH HOH . F 5 HOH A 29 429 16 HOH HOH . F 5 HOH A 30 430 103 HOH HOH . F 5 HOH A 31 431 66 HOH HOH . F 5 HOH A 32 432 31 HOH HOH . F 5 HOH A 33 433 107 HOH HOH . F 5 HOH A 34 434 50 HOH HOH . F 5 HOH A 35 435 36 HOH HOH . F 5 HOH A 36 436 75 HOH HOH . F 5 HOH A 37 437 42 HOH HOH . F 5 HOH A 38 438 86 HOH HOH . F 5 HOH A 39 439 104 HOH HOH . F 5 HOH A 40 440 79 HOH HOH . F 5 HOH A 41 441 84 HOH HOH . F 5 HOH A 42 442 68 HOH HOH . F 5 HOH A 43 443 27 HOH HOH . F 5 HOH A 44 444 91 HOH HOH . F 5 HOH A 45 445 88 HOH HOH . F 5 HOH A 46 446 57 HOH HOH . G 5 HOH B 1 401 92 HOH HOH . G 5 HOH B 2 402 29 HOH HOH . G 5 HOH B 3 403 93 HOH HOH . G 5 HOH B 4 404 55 HOH HOH . G 5 HOH B 5 405 38 HOH HOH . G 5 HOH B 6 406 96 HOH HOH . G 5 HOH B 7 407 46 HOH HOH . G 5 HOH B 8 408 94 HOH HOH . G 5 HOH B 9 409 33 HOH HOH . G 5 HOH B 10 410 40 HOH HOH . G 5 HOH B 11 411 102 HOH HOH . G 5 HOH B 12 412 110 HOH HOH . G 5 HOH B 13 413 78 HOH HOH . G 5 HOH B 14 414 28 HOH HOH . G 5 HOH B 15 415 5 HOH HOH . G 5 HOH B 16 416 9 HOH HOH . G 5 HOH B 17 417 3 HOH HOH . G 5 HOH B 18 418 37 HOH HOH . G 5 HOH B 19 419 95 HOH HOH . G 5 HOH B 20 420 73 HOH HOH . G 5 HOH B 21 421 2 HOH HOH . G 5 HOH B 22 422 21 HOH HOH . G 5 HOH B 23 423 11 HOH HOH . G 5 HOH B 24 424 49 HOH HOH . G 5 HOH B 25 425 6 HOH HOH . G 5 HOH B 26 426 19 HOH HOH . G 5 HOH B 27 427 53 HOH HOH . G 5 HOH B 28 428 48 HOH HOH . G 5 HOH B 29 429 97 HOH HOH . G 5 HOH B 30 430 56 HOH HOH . G 5 HOH B 31 431 20 HOH HOH . G 5 HOH B 32 432 15 HOH HOH . G 5 HOH B 33 433 109 HOH HOH . G 5 HOH B 34 434 74 HOH HOH . G 5 HOH B 35 435 52 HOH HOH . G 5 HOH B 36 436 51 HOH HOH . G 5 HOH B 37 437 67 HOH HOH . G 5 HOH B 38 438 47 HOH HOH . G 5 HOH B 39 439 70 HOH HOH . G 5 HOH B 40 440 98 HOH HOH . G 5 HOH B 41 441 34 HOH HOH . G 5 HOH B 42 442 69 HOH HOH . G 5 HOH B 43 443 80 HOH HOH . G 5 HOH B 44 444 25 HOH HOH . G 5 HOH B 45 445 105 HOH HOH . G 5 HOH B 46 446 58 HOH HOH . G 5 HOH B 47 447 100 HOH HOH . G 5 HOH B 48 448 30 HOH HOH . G 5 HOH B 49 449 87 HOH HOH . G 5 HOH B 50 450 72 HOH HOH . G 5 HOH B 51 451 99 HOH HOH . G 5 HOH B 52 452 82 HOH HOH . G 5 HOH B 53 453 44 HOH HOH . G 5 HOH B 54 454 83 HOH HOH . G 5 HOH B 55 455 90 HOH HOH . G 5 HOH B 56 456 26 HOH HOH . G 5 HOH B 57 457 18 HOH HOH . G 5 HOH B 58 458 35 HOH HOH . G 5 HOH B 59 459 89 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 C4 TBJ . B . C 2 22.987 -16.235 23.917 0.45 27.74 ? C4 TBJ 301 A 1 HETATM 2 C C5 TBJ . B . C 2 21.111 -16.038 26.815 0.45 30.89 ? C5 TBJ 301 A 1 HETATM 3 C C6 TBJ . B . C 2 20.385 -16.419 29.241 0.45 35.85 ? C6 TBJ 301 A 1 HETATM 4 N N1 TBJ . B . C 2 21.217 -15.725 28.236 0.45 34.08 ? N1 TBJ 301 A 1 HETATM 5 C C7 TBJ . B . C 2 20.448 -15.665 30.575 0.45 36.52 ? C7 TBJ 301 A 1 HETATM 6 C C8 TBJ . B . C 2 18.98 -15.542 31.217 0.45 35.87 ? C8 TBJ 301 A 1 HETATM 7 C C9 TBJ . B . C 2 18.733 -16.722 31.766 0.45 37.12 ? C9 TBJ 301 A 1 HETATM 8 C C10 TBJ . B . C 2 20.123 -17.298 32.134 0.45 37.5 ? C10 TBJ 301 A 1 HETATM 9 O O TBJ . B . C 2 20.306 -16.91 26.38 0.45 29.94 ? O TBJ 301 A 1 HETATM 10 N N TBJ . B . C 2 21.957 -15.316 25.877 0.45 30.52 ? N TBJ 301 A 1 HETATM 11 C C3 TBJ . B . C 2 21.846 -15.647 24.376 0.45 30.34 ? C3 TBJ 301 A 1 HETATM 12 C C2 TBJ . B . C 2 21.577 -14.253 23.5 0.45 29.4 ? C2 TBJ 301 A 1 HETATM 13 C C1 TBJ . B . C 2 22.544 -14.143 22.525 0.45 28.03 ? C1 TBJ 301 A 1 HETATM 14 C C TBJ . B . C 2 23.345 -15.507 22.522 0.45 27.02 ? C TBJ 301 A 1 HETATM 15 O O1 TBJ . B . C 2 21.15 -16.369 31.448 0.45 38.5 ? O1 TBJ 301 A 1 # _model_server_stats.io_time_ms 87 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 258 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 15 #