data_4N4T # _model_server_result.job_id kIbFf0TsJ-vhpy-QP1AaFQ _model_server_result.datetime_utc '2025-03-13 18:05:43' _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 4n4t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1402}' # _entry.id 4N4T # _exptl.entry_id 4N4T _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 437.493 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (4S)-3-{4-[6-amino-5-(pyrimidin-2-yl)pyridin-3-yl]phenyl}-5,5-dimethyl-4-phenyl-1,3-oxazolidin-2-one _entity.pdbx_number_of_molecules 2 _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 4N4T _cell.length_a 41.944 _cell.length_b 77.879 _cell.length_c 147.647 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4N4T _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N 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 A SG CYS 131 A CYS 1234 1_555 C ZN ZN . A ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc2 A ND1 HIS 134 A HIS 1237 1_555 C ZN ZN . A ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? metalc ? metalc3 A SG CYS 139 A CYS 1242 1_555 C ZN ZN . A ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? metalc ? metalc4 A SG CYS 142 A CYS 1245 1_555 C ZN ZN . A ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc5 B SG CYS 131 B CYS 1234 1_555 E ZN ZN . B ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc6 B ND1 HIS 134 B HIS 1237 1_555 E ZN ZN . B ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc7 B SG CYS 139 B CYS 1242 1_555 E ZN ZN . B ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.444 ? metalc ? metalc8 B SG CYS 142 B CYS 1245 1_555 E ZN ZN . B ZN 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.323 ? # _chem_comp.formula 'C26 H23 N5 O2' _chem_comp.formula_weight 437.493 _chem_comp.id 2GV _chem_comp.mon_nstd_flag . _chem_comp.name (4S)-3-{4-[6-amino-5-(pyrimidin-2-yl)pyridin-3-yl]phenyl}-5,5-dimethyl-4-phenyl-1,3-oxazolidin-2-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 C14 C15 2GV doub 1 n y C14 C13 2GV sing 2 n y C15 C16 2GV sing 3 n y C2 C3 2GV doub 4 n y C2 N1 2GV sing 5 n y C3 C4 2GV sing 6 n y N1 C6 2GV doub 7 n y C4 N5 2GV doub 8 n y C13 C12 2GV doub 9 n y C16 C17 2GV doub 10 n y C6 N5 2GV sing 11 n y C6 C24 2GV sing 12 n n C24 C23 2GV doub 13 n y C24 C25 2GV sing 14 n y C12 C17 2GV sing 15 n y C23 C1 2GV sing 16 n y C17 C7 2GV sing 17 n n N4 C25 2GV sing 18 n n C25 N3 2GV doub 19 n y C21 C5 2GV doub 20 n y C21 C20 2GV sing 21 n y C1 C5 2GV sing 22 n n C1 C26 2GV doub 23 n y C5 C22 2GV sing 24 n y C20 C19 2GV doub 25 n y C22 C18 2GV doub 26 n y C19 C18 2GV sing 27 n y C19 N2 2GV sing 28 n n N2 C7 2GV sing 29 n n N2 C11 2GV sing 30 n n N3 C26 2GV sing 31 n y C7 C8 2GV sing 32 n n O2 C11 2GV doub 33 n n C11 O1 2GV sing 34 n n C9 C8 2GV sing 35 n n O1 C8 2GV sing 36 n n C8 C10 2GV sing 37 n n C12 H1 2GV sing 38 n n C13 H2 2GV sing 39 n n C14 H3 2GV sing 40 n n C15 H4 2GV sing 41 n n C16 H5 2GV sing 42 n n C7 H6 2GV sing 43 n n C9 H7 2GV sing 44 n n C9 H8 2GV sing 45 n n C9 H9 2GV sing 46 n n C10 H10 2GV sing 47 n n C10 H11 2GV sing 48 n n C10 H12 2GV sing 49 n n C18 H13 2GV sing 50 n n C20 H14 2GV sing 51 n n C21 H15 2GV sing 52 n n C22 H16 2GV sing 53 n n C23 H17 2GV sing 54 n n C26 H18 2GV sing 55 n n C2 H19 2GV sing 56 n n C3 H20 2GV sing 57 n n C4 H21 2GV sing 58 n n N4 H22 2GV sing 59 n n N4 H23 2GV sing 60 n n # _atom_sites.entry_id 4N4T _atom_sites.fract_transf_matrix[1][1] 0.023841 _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] 0.01284 _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] 0.006773 _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 ZN A 1 1401 1 ZN ZN . D 3 2GV A 1 1402 1 2GV 2GV . E 2 ZN B 1 1401 1 ZN ZN . F 3 2GV B 1 1402 1 2GV 2GV . G 4 HOH A 1 1501 3 HOH HOH . G 4 HOH A 2 1502 12 HOH HOH . G 4 HOH A 3 1503 33 HOH HOH . G 4 HOH A 4 1504 42 HOH HOH . G 4 HOH A 5 1505 44 HOH HOH . G 4 HOH A 6 1506 46 HOH HOH . G 4 HOH A 7 1507 58 HOH HOH . G 4 HOH A 8 1508 63 HOH HOH . G 4 HOH A 9 1509 65 HOH HOH . G 4 HOH A 10 1510 67 HOH HOH . G 4 HOH A 11 1511 89 HOH HOH . G 4 HOH A 12 1512 98 HOH HOH . G 4 HOH A 13 1513 102 HOH HOH . G 4 HOH A 14 1514 105 HOH HOH . G 4 HOH A 15 1515 108 HOH HOH . G 4 HOH A 16 1516 110 HOH HOH . G 4 HOH A 17 1517 114 HOH HOH . G 4 HOH A 18 1518 124 HOH HOH . G 4 HOH A 19 1519 129 HOH HOH . G 4 HOH A 20 1520 131 HOH HOH . G 4 HOH A 21 1521 134 HOH HOH . G 4 HOH A 22 1522 136 HOH HOH . G 4 HOH A 23 1523 143 HOH HOH . G 4 HOH A 24 1524 144 HOH HOH . G 4 HOH A 25 1525 145 HOH HOH . G 4 HOH A 26 1526 148 HOH HOH . G 4 HOH A 27 1527 149 HOH HOH . G 4 HOH A 28 1528 151 HOH HOH . G 4 HOH A 29 1529 155 HOH HOH . G 4 HOH A 30 1530 159 HOH HOH . G 4 HOH A 31 1531 164 HOH HOH . G 4 HOH A 32 1532 167 HOH HOH . G 4 HOH A 33 1533 168 HOH HOH . G 4 HOH A 34 1534 170 HOH HOH . G 4 HOH A 35 1535 173 HOH HOH . G 4 HOH A 36 1536 175 HOH HOH . G 4 HOH A 37 1537 176 HOH HOH . G 4 HOH A 38 1538 177 HOH HOH . G 4 HOH A 39 1539 197 HOH HOH . G 4 HOH A 40 1540 200 HOH HOH . G 4 HOH A 41 1541 201 HOH HOH . G 4 HOH A 42 1542 204 HOH HOH . G 4 HOH A 43 1543 205 HOH HOH . G 4 HOH A 44 1544 207 HOH HOH . G 4 HOH A 45 1545 208 HOH HOH . G 4 HOH A 46 1546 209 HOH HOH . G 4 HOH A 47 1547 212 HOH HOH . G 4 HOH A 48 1548 213 HOH HOH . G 4 HOH A 49 1549 219 HOH HOH . G 4 HOH A 50 1550 222 HOH HOH . G 4 HOH A 51 1551 242 HOH HOH . G 4 HOH A 52 1552 248 HOH HOH . G 4 HOH A 53 1553 253 HOH HOH . G 4 HOH A 54 1554 255 HOH HOH . G 4 HOH A 55 1555 258 HOH HOH . G 4 HOH A 56 1556 276 HOH HOH . G 4 HOH A 57 1557 279 HOH HOH . G 4 HOH A 58 1558 286 HOH HOH . G 4 HOH A 59 1559 288 HOH HOH . G 4 HOH A 60 1560 298 HOH HOH . G 4 HOH A 61 1561 299 HOH HOH . G 4 HOH A 62 1562 302 HOH HOH . G 4 HOH A 63 1563 308 HOH HOH . G 4 HOH A 64 1564 311 HOH HOH . G 4 HOH A 65 1565 312 HOH HOH . G 4 HOH A 66 1566 329 HOH HOH . G 4 HOH A 67 1567 330 HOH HOH . G 4 HOH A 68 1568 347 HOH HOH . G 4 HOH A 69 1569 372 HOH HOH . G 4 HOH A 70 1570 381 HOH HOH . G 4 HOH A 71 1571 382 HOH HOH . G 4 HOH A 72 1572 385 HOH HOH . G 4 HOH A 73 1573 400 HOH HOH . G 4 HOH A 74 1574 407 HOH HOH . H 4 HOH B 1 1501 11 HOH HOH . H 4 HOH B 2 1502 14 HOH HOH . H 4 HOH B 3 1503 15 HOH HOH . H 4 HOH B 4 1504 18 HOH HOH . H 4 HOH B 5 1505 19 HOH HOH . H 4 HOH B 6 1506 24 HOH HOH . H 4 HOH B 7 1507 25 HOH HOH . H 4 HOH B 8 1508 35 HOH HOH . H 4 HOH B 9 1509 37 HOH HOH . H 4 HOH B 10 1510 41 HOH HOH . H 4 HOH B 11 1511 43 HOH HOH . H 4 HOH B 12 1512 45 HOH HOH . H 4 HOH B 13 1513 47 HOH HOH . H 4 HOH B 14 1514 69 HOH HOH . H 4 HOH B 15 1515 71 HOH HOH . H 4 HOH B 16 1516 78 HOH HOH . H 4 HOH B 17 1517 85 HOH HOH . H 4 HOH B 18 1518 86 HOH HOH . H 4 HOH B 19 1519 88 HOH HOH . H 4 HOH B 20 1520 90 HOH HOH . H 4 HOH B 21 1521 91 HOH HOH . H 4 HOH B 22 1522 92 HOH HOH . H 4 HOH B 23 1523 93 HOH HOH . H 4 HOH B 24 1524 94 HOH HOH . H 4 HOH B 25 1525 109 HOH HOH . H 4 HOH B 26 1526 111 HOH HOH . H 4 HOH B 27 1527 116 HOH HOH . H 4 HOH B 28 1528 117 HOH HOH . H 4 HOH B 29 1529 118 HOH HOH . H 4 HOH B 30 1530 119 HOH HOH . H 4 HOH B 31 1531 121 HOH HOH . H 4 HOH B 32 1532 123 HOH HOH . H 4 HOH B 33 1533 132 HOH HOH . H 4 HOH B 34 1534 133 HOH HOH . H 4 HOH B 35 1535 141 HOH HOH . H 4 HOH B 36 1536 150 HOH HOH . H 4 HOH B 37 1537 157 HOH HOH . H 4 HOH B 38 1538 169 HOH HOH . H 4 HOH B 39 1539 171 HOH HOH . H 4 HOH B 40 1540 180 HOH HOH . H 4 HOH B 41 1541 185 HOH HOH . H 4 HOH B 42 1542 187 HOH HOH . H 4 HOH B 43 1543 188 HOH HOH . H 4 HOH B 44 1544 189 HOH HOH . H 4 HOH B 45 1545 194 HOH HOH . H 4 HOH B 46 1546 195 HOH HOH . H 4 HOH B 47 1547 198 HOH HOH . H 4 HOH B 48 1548 214 HOH HOH . H 4 HOH B 49 1549 218 HOH HOH . H 4 HOH B 50 1550 221 HOH HOH . H 4 HOH B 51 1551 224 HOH HOH . H 4 HOH B 52 1552 227 HOH HOH . H 4 HOH B 53 1553 232 HOH HOH . H 4 HOH B 54 1554 235 HOH HOH . H 4 HOH B 55 1555 240 HOH HOH . H 4 HOH B 56 1556 259 HOH HOH . H 4 HOH B 57 1557 260 HOH HOH . H 4 HOH B 58 1558 261 HOH HOH . H 4 HOH B 59 1559 270 HOH HOH . H 4 HOH B 60 1560 284 HOH HOH . H 4 HOH B 61 1561 287 HOH HOH . H 4 HOH B 62 1562 289 HOH HOH . H 4 HOH B 63 1563 297 HOH HOH . H 4 HOH B 64 1564 348 HOH HOH . H 4 HOH B 65 1565 365 HOH HOH . H 4 HOH B 66 1566 380 HOH HOH . H 4 HOH B 67 1567 447 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 C12 2GV . . . D 3 -7.295 46.632 28.424 1 57.99 ? C12 2GV 1402 A 1 HETATM 2 C C13 2GV . . . D 3 -7.484 47.232 29.722 1 57.45 ? C13 2GV 1402 A 1 HETATM 3 C C14 2GV . . . D 3 -6.619 46.799 30.823 1 57.26 ? C14 2GV 1402 A 1 HETATM 4 C C15 2GV . . . D 3 -5.565 45.791 30.686 1 57.36 ? C15 2GV 1402 A 1 HETATM 5 C C16 2GV . . . D 3 -5.384 45.201 29.39 1 57.99 ? C16 2GV 1402 A 1 HETATM 6 C C17 2GV . . . D 3 -6.256 45.63 28.273 1 58.85 ? C17 2GV 1402 A 1 HETATM 7 C C7 2GV . . . D 3 -6.172 45.068 26.914 1 60.46 ? C7 2GV 1402 A 1 HETATM 8 C C8 2GV . . . D 3 -4.991 45.546 26.154 1 62.15 ? C8 2GV 1402 A 1 HETATM 9 C C9 2GV . . . D 3 -4.293 46.849 26.412 1 63.17 ? C9 2GV 1402 A 1 HETATM 10 C C10 2GV . . . D 3 -5.28 45.435 24.697 1 63.28 ? C10 2GV 1402 A 1 HETATM 11 O O1 2GV . . . D 3 -3.998 44.389 26.62 1 67.6 ? O1 2GV 1402 A 1 HETATM 12 C C11 2GV . . . D 3 -4.688 43.196 26.896 1 61.48 ? C11 2GV 1402 A 1 HETATM 13 O O2 2GV . . . D 3 -4.001 42.194 27.007 1 62.52 ? O2 2GV 1402 A 1 HETATM 14 N N2 2GV . . . D 3 -6.019 43.577 26.971 1 58.84 ? N2 2GV 1402 A 1 HETATM 15 C C18 2GV . . . D 3 -8.345 43.095 26.728 1 52.26 ? C18 2GV 1402 A 1 HETATM 16 C C19 2GV . . . D 3 -6.99 42.703 27.071 1 54.76 ? C19 2GV 1402 A 1 HETATM 17 C C20 2GV . . . D 3 -6.587 41.387 27.528 1 52.26 ? C20 2GV 1402 A 1 HETATM 18 C C21 2GV . . . D 3 -7.543 40.398 27.655 1 49.59 ? C21 2GV 1402 A 1 HETATM 19 C C5 2GV . . . D 3 -8.929 40.731 27.316 1 47.52 ? C5 2GV 1402 A 1 HETATM 20 C C22 2GV . . . D 3 -9.327 42.075 26.859 1 49.62 ? C22 2GV 1402 A 1 HETATM 21 C C1 2GV . . . D 3 -9.853 39.609 27.428 1 44.44 ? C1 2GV 1402 A 1 HETATM 22 C C23 2GV . . . D 3 -11.032 39.772 28.21 1 42.38 ? C23 2GV 1402 A 1 HETATM 23 C C24 2GV . . . D 3 -11.961 38.72 28.419 1 40.9 ? C24 2GV 1402 A 1 HETATM 24 C C25 2GV . . . D 3 -11.598 37.456 27.778 1 40.96 ? C25 2GV 1402 A 1 HETATM 25 N N3 2GV . . . D 3 -10.459 37.311 27.012 1 41.54 ? N3 2GV 1402 A 1 HETATM 26 C C26 2GV . . . D 3 -9.563 38.314 26.789 1 42.82 ? C26 2GV 1402 A 1 HETATM 27 N N1 2GV . . . D 3 -13.421 40.32 29.814 1 39.52 ? N1 2GV 1402 A 1 HETATM 28 C C2 2GV . . . D 3 -14.624 40.611 30.424 1 39.38 ? C2 2GV 1402 A 1 HETATM 29 C C3 2GV . . . D 3 -15.728 39.659 30.416 1 39.41 ? C3 2GV 1402 A 1 HETATM 30 C C4 2GV . . . D 3 -15.483 38.397 29.725 1 39.51 ? C4 2GV 1402 A 1 HETATM 31 N N5 2GV . . . D 3 -14.265 38.139 29.121 1 39.53 ? N5 2GV 1402 A 1 HETATM 32 C C6 2GV . . . D 3 -13.195 39.069 29.134 1 39.9 ? C6 2GV 1402 A 1 HETATM 33 N N4 2GV . . . D 3 -12.259 36.312 27.889 1 40.62 ? N4 2GV 1402 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 33 #