data_3IN4 # _model_server_result.job_id Wo7c7pUxSyuaDUYHSE2uxA _model_server_result.datetime_utc '2024-11-08 16:56:59' _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 3in4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3IN4 # _exptl.entry_id 3IN4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 400.476 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (5S)-2-amino-5-(2,6-diethylpyridin-4-yl)-3-methyl-5-(3-pyrimidin-5-ylphenyl)-3,5-dihydro-4H-imidazol-4-one _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 94.79 _cell.angle_gamma 90 _cell.entry_id 3IN4 _cell.length_a 73.379 _cell.length_b 104.854 _cell.length_c 50.531 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3IN4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 disulf ? disulf1 A SG CYS 171 A CYS 217 1_555 A SG CYS 375 A CYS 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 233 A CYS 279 1_555 A SG CYS 398 A CYS 444 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf3 A SG CYS 285 A CYS 331 1_555 A SG CYS 335 A CYS 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C23 H24 N6 O' _chem_comp.formula_weight 400.476 _chem_comp.id BX2 _chem_comp.mon_nstd_flag . _chem_comp.name (5S)-2-amino-5-(2,6-diethylpyridin-4-yl)-3-methyl-5-(3-pyrimidin-5-ylphenyl)-3,5-dihydro-4H-imidazol-4-one _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 C2 C1 BX2 sing 70 n n C1 H1 BX2 sing 71 n n C1 H1A BX2 sing 72 n n C1 H1B BX2 sing 73 n n C3 N1 BX2 doub 74 n y N1 C7 BX2 sing 75 n y C11 O1 BX2 doub 76 n n C2 C3 BX2 sing 77 n n C2 H2 BX2 sing 78 n n C2 H2A BX2 sing 79 n n C12 N2 BX2 sing 80 n n N2 C13 BX2 sing 81 n n N2 C11 BX2 sing 82 n n C4 C3 BX2 sing 83 n y N3 C12 BX2 doub 84 n n N3 C10 BX2 sing 85 n n C4 C5 BX2 doub 86 n y C4 H4 BX2 sing 87 n n N4 C12 BX2 sing 88 n n N4 HN4 BX2 sing 89 n n N4 HN4A BX2 sing 90 n n C10 C5 BX2 sing 91 n n C5 C6 BX2 sing 92 n y N5 C21 BX2 doub 93 n y N5 C22 BX2 sing 94 n y C6 C7 BX2 doub 95 n y C6 H6 BX2 sing 96 n n C22 N6 BX2 doub 97 n y N6 C23 BX2 sing 98 n y C7 C8 BX2 sing 99 n n C8 C9 BX2 sing 100 n n C8 H8 BX2 sing 101 n n C8 H8A BX2 sing 102 n n C9 H9 BX2 sing 103 n n C9 H9A BX2 sing 104 n n C9 H9B BX2 sing 105 n n C14 C10 BX2 sing 106 n n C10 C11 BX2 sing 107 n n C13 H13 BX2 sing 108 n n C13 H13A BX2 sing 109 n n C13 H13B BX2 sing 110 n n C19 C14 BX2 doub 111 n y C14 C15 BX2 sing 112 n y C16 C15 BX2 doub 113 n y C15 H15 BX2 sing 114 n n C17 C16 BX2 sing 115 n y C16 H16 BX2 sing 116 n n C18 C17 BX2 doub 117 n y C17 H17 BX2 sing 118 n n C20 C18 BX2 sing 119 n y C18 C19 BX2 sing 120 n y C19 H19 BX2 sing 121 n n C21 C20 BX2 sing 122 n y C20 C23 BX2 doub 123 n y C21 H21 BX2 sing 124 n n C22 H22 BX2 sing 125 n n C23 H23 BX2 sing 126 n n # _atom_sites.entry_id 3IN4 _atom_sites.fract_transf_matrix[1][1] 0.013628 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001142 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009537 _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] 0.019859 _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 BX2 A 1 1 1 BX2 BX2 . C 3 HOH A 1 2 2 HOH HOH . C 3 HOH A 2 5 5 HOH HOH . C 3 HOH A 3 6 6 HOH HOH . C 3 HOH A 4 7 7 HOH HOH . C 3 HOH A 5 8 8 HOH HOH . C 3 HOH A 6 10 10 HOH HOH . C 3 HOH A 7 11 11 HOH HOH . C 3 HOH A 8 13 13 HOH HOH . C 3 HOH A 9 14 14 HOH HOH . C 3 HOH A 10 15 15 HOH HOH . C 3 HOH A 11 16 16 HOH HOH . C 3 HOH A 12 17 17 HOH HOH . C 3 HOH A 13 18 18 HOH HOH . C 3 HOH A 14 19 19 HOH HOH . C 3 HOH A 15 20 20 HOH HOH . C 3 HOH A 16 21 21 HOH HOH . C 3 HOH A 17 22 22 HOH HOH . C 3 HOH A 18 23 23 HOH HOH . C 3 HOH A 19 24 24 HOH HOH . C 3 HOH A 20 25 25 HOH HOH . C 3 HOH A 21 26 26 HOH HOH . C 3 HOH A 22 27 27 HOH HOH . C 3 HOH A 23 28 28 HOH HOH . C 3 HOH A 24 29 29 HOH HOH . C 3 HOH A 25 30 30 HOH HOH . C 3 HOH A 26 31 31 HOH HOH . C 3 HOH A 27 32 32 HOH HOH . C 3 HOH A 28 33 33 HOH HOH . C 3 HOH A 29 34 34 HOH HOH . C 3 HOH A 30 35 35 HOH HOH . C 3 HOH A 31 36 36 HOH HOH . C 3 HOH A 32 38 38 HOH HOH . C 3 HOH A 33 39 39 HOH HOH . C 3 HOH A 34 40 40 HOH HOH . C 3 HOH A 35 41 41 HOH HOH . C 3 HOH A 36 42 42 HOH HOH . C 3 HOH A 37 43 43 HOH HOH . C 3 HOH A 38 44 44 HOH HOH . C 3 HOH A 39 45 45 HOH HOH . C 3 HOH A 40 46 46 HOH HOH . C 3 HOH A 41 462 1 HOH HOH . C 3 HOH A 42 463 47 HOH HOH . C 3 HOH A 43 464 48 HOH HOH . C 3 HOH A 44 465 49 HOH HOH . C 3 HOH A 45 466 50 HOH HOH . C 3 HOH A 46 467 51 HOH HOH . C 3 HOH A 47 468 52 HOH HOH . C 3 HOH A 48 469 53 HOH HOH . C 3 HOH A 49 470 54 HOH HOH . C 3 HOH A 50 471 55 HOH HOH . C 3 HOH A 51 472 56 HOH HOH . C 3 HOH A 52 473 57 HOH HOH . C 3 HOH A 53 474 58 HOH HOH . C 3 HOH A 54 475 59 HOH HOH . C 3 HOH A 55 476 60 HOH HOH . C 3 HOH A 56 477 61 HOH HOH . C 3 HOH A 57 478 63 HOH HOH . C 3 HOH A 58 479 64 HOH HOH . C 3 HOH A 59 480 65 HOH HOH . C 3 HOH A 60 481 66 HOH HOH . C 3 HOH A 61 482 67 HOH HOH . C 3 HOH A 62 483 68 HOH HOH . C 3 HOH A 63 484 69 HOH HOH . C 3 HOH A 64 485 71 HOH HOH . C 3 HOH A 65 486 72 HOH HOH . C 3 HOH A 66 487 75 HOH HOH . C 3 HOH A 67 488 76 HOH HOH . C 3 HOH A 68 489 77 HOH HOH . C 3 HOH A 69 490 79 HOH HOH . C 3 HOH A 70 491 80 HOH HOH . C 3 HOH A 71 492 81 HOH HOH . C 3 HOH A 72 493 82 HOH HOH . C 3 HOH A 73 494 83 HOH HOH . C 3 HOH A 74 495 84 HOH HOH . C 3 HOH A 75 496 86 HOH HOH . C 3 HOH A 76 497 87 HOH HOH . C 3 HOH A 77 498 88 HOH HOH . C 3 HOH A 78 499 90 HOH HOH . C 3 HOH A 79 500 91 HOH HOH . C 3 HOH A 80 501 92 HOH HOH . C 3 HOH A 81 502 94 HOH HOH . C 3 HOH A 82 503 95 HOH HOH . C 3 HOH A 83 504 97 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 BX2 . . . B 2 16.309 -13.241 15.577 1 31.65 ? C1 BX2 1 A 1 HETATM 2 N N1 BX2 . . . B 2 15.804 -11.322 17.469 1 28.93 ? N1 BX2 1 A 1 HETATM 3 O O1 BX2 . . . B 2 14.349 -6.189 18.826 1 27.9 ? O1 BX2 1 A 1 HETATM 4 C C2 BX2 . . . B 2 15.696 -11.934 15.096 1 30.81 ? C2 BX2 1 A 1 HETATM 5 N N2 BX2 . . . B 2 15.429 -5.349 16.971 1 24.1 ? N2 BX2 1 A 1 HETATM 6 C C3 BX2 . . . B 2 15.491 -10.938 16.209 1 31.61 ? C3 BX2 1 A 1 HETATM 7 N N3 BX2 . . . B 2 14.855 -6.788 15.348 1 20.77 ? N3 BX2 1 A 1 HETATM 8 C C4 BX2 . . . B 2 14.994 -9.673 15.915 1 27.53 ? C4 BX2 1 A 1 HETATM 9 N N4 BX2 . . . B 2 16.432 -5.183 14.849 1 20.19 ? N4 BX2 1 A 1 HETATM 10 C C5 BX2 . . . B 2 14.799 -8.738 16.938 1 29.53 ? C5 BX2 1 A 1 HETATM 11 N N5 BX2 . . . B 2 9.882 -2.939 14.097 1 32.47 ? N5 BX2 1 A 1 HETATM 12 C C6 BX2 . . . B 2 15.123 -9.139 18.242 1 26.87 ? C6 BX2 1 A 1 HETATM 13 N N6 BX2 . . . B 2 8.325 -3.151 15.884 1 31.73 ? N6 BX2 1 A 1 HETATM 14 C C7 BX2 . . . B 2 15.618 -10.423 18.466 1 30.4 ? C7 BX2 1 A 1 HETATM 15 C C8 BX2 . . . B 2 15.97 -10.866 19.863 1 34.78 ? C8 BX2 1 A 1 HETATM 16 C C9 BX2 . . . B 2 17.474 -10.963 20.069 1 33.49 ? C9 BX2 1 A 1 HETATM 17 C C10 BX2 . . . B 2 14.247 -7.337 16.619 1 25.76 ? C10 BX2 1 A 1 HETATM 18 C C11 BX2 . . . B 2 14.665 -6.253 17.645 1 26.85 ? C11 BX2 1 A 1 HETATM 19 C C12 BX2 . . . B 2 15.545 -5.748 15.69 1 23.41 ? C12 BX2 1 A 1 HETATM 20 C C13 BX2 . . . B 2 16.004 -4.178 17.585 1 23.21 ? C13 BX2 1 A 1 HETATM 21 C C14 BX2 . . . B 2 12.718 -7.367 16.503 1 26.84 ? C14 BX2 1 A 1 HETATM 22 C C15 BX2 . . . B 2 11.936 -8.498 16.765 1 30.78 ? C15 BX2 1 A 1 HETATM 23 C C16 BX2 . . . B 2 10.548 -8.439 16.634 1 29.61 ? C16 BX2 1 A 1 HETATM 24 C C17 BX2 . . . B 2 9.914 -7.26 16.246 1 24.37 ? C17 BX2 1 A 1 HETATM 25 C C18 BX2 . . . B 2 10.662 -6.11 15.977 1 25.83 ? C18 BX2 1 A 1 HETATM 26 C C19 BX2 . . . B 2 12.057 -6.186 16.113 1 26.03 ? C19 BX2 1 A 1 HETATM 27 C C20 BX2 . . . B 2 10.024 -4.856 15.574 1 26.39 ? C20 BX2 1 A 1 HETATM 28 C C21 BX2 . . . B 2 10.449 -4.101 14.497 1 25.49 ? C21 BX2 1 A 1 HETATM 29 C C22 BX2 . . . B 2 8.838 -2.517 14.822 1 30.48 ? C22 BX2 1 A 1 HETATM 30 C C23 BX2 . . . B 2 8.937 -4.307 16.233 1 27.71 ? C23 BX2 1 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 329 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 30 #