data_7LM4 # _model_server_result.job_id YWtqEdt1WFYJiRUb98pMtQ _model_server_result.datetime_utc '2025-02-18 09:12:53' _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 7lm4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 7LM4 # _exptl.entry_id 7LM4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 395.409 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-hydroxy-N-[2-(4-hydroxy-3-methoxyphenyl)ethyl]-2-(2-methylphenyl)-6-oxo-1,6-dihydropyrimidine-4-carboxamide _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 7LM4 _cell.length_a 89.216 _cell.length_b 89.216 _cell.length_c 131.779 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7LM4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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,H,I _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 3 _struct_asym.id D _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 A NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.231 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc5 A OE2 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? metalc ? metalc7 B MN MN . A MN 201 1_555 D O13 Y5V . A Y5V 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc8 B MN MN . A MN 201 1_555 D O15 Y5V . A Y5V 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc9 C MN MN . A MN 202 1_555 D O13 Y5V . A Y5V 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.114 ? metalc ? metalc10 C MN MN . A MN 202 1_555 D O10 Y5V . A Y5V 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.432 ? metalc ? metalc11 C MN MN . A MN 202 1_555 I O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc12 C MN MN . A MN 202 1_555 I O HOH . A HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.281 ? # _chem_comp.formula 'C21 H21 N3 O5' _chem_comp.formula_weight 395.409 _chem_comp.id Y5V _chem_comp.mon_nstd_flag . _chem_comp.name 5-hydroxy-N-[2-(4-hydroxy-3-methoxyphenyl)ethyl]-2-(2-methylphenyl)-6-oxo-1,6-dihydropyrimidine-4-carboxamide _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 O15 C14 Y5V doub 489 n n O13 C12 Y5V sing 490 n n C14 C12 Y5V sing 491 n n C14 N16 Y5V sing 492 n n C12 C11 Y5V doub 493 n n N16 C17 Y5V sing 494 n n O10 C09 Y5V doub 495 n n C11 C09 Y5V sing 496 n n C11 N18 Y5V sing 497 n n C17 N18 Y5V doub 498 n n C17 C19 Y5V sing 499 n n C09 N08 Y5V sing 500 n n C20 C19 Y5V doub 501 n y C20 C21 Y5V sing 502 n y C19 C24 Y5V sing 503 n y C21 C22 Y5V doub 504 n y C24 C25 Y5V sing 505 n n C24 C23 Y5V doub 506 n y N08 C07 Y5V sing 507 n n C22 C23 Y5V sing 508 n y C07 C06 Y5V sing 509 n n C06 C05 Y5V sing 510 n n C04 C05 Y5V doub 511 n y C04 C03 Y5V sing 512 n y C05 C26 Y5V sing 513 n y C01 O02 Y5V sing 514 n n O02 C03 Y5V sing 515 n n C03 C28 Y5V doub 516 n y C26 C27 Y5V doub 517 n y C28 C27 Y5V sing 518 n y C28 O29 Y5V sing 519 n n C21 H1 Y5V sing 520 n n C20 H2 Y5V sing 521 n n C22 H3 Y5V sing 522 n n C23 H4 Y5V sing 523 n n C01 H5 Y5V sing 524 n n C01 H6 Y5V sing 525 n n C01 H7 Y5V sing 526 n n C04 H8 Y5V sing 527 n n C06 H9 Y5V sing 528 n n C06 H10 Y5V sing 529 n n C07 H11 Y5V sing 530 n n C07 H12 Y5V sing 531 n n C25 H13 Y5V sing 532 n n C25 H14 Y5V sing 533 n n C25 H15 Y5V sing 534 n n C26 H16 Y5V sing 535 n n C27 H17 Y5V sing 536 n n N08 H18 Y5V sing 537 n n N16 H19 Y5V sing 538 n n O13 H20 Y5V sing 539 n n O29 H21 Y5V sing 540 n n # _atom_sites.entry_id 7LM4 _atom_sites.fract_transf_matrix[1][1] 0.011209 _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] 0.011209 _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] 0.007588 _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 MN A 1 201 201 MN MN . C 2 MN A 1 202 202 MN MN . D 3 Y5V A 1 203 301 Y5V 503 . E 4 QQ4 A 1 204 401 QQ4 PVP . F 5 SO4 A 1 205 1 SO4 SO4 . G 5 SO4 A 1 206 2 SO4 SO4 . H 5 SO4 A 1 207 3 SO4 SO4 . I 6 HOH A 1 301 7 HOH HOH . I 6 HOH A 2 302 3 HOH HOH . I 6 HOH A 3 303 4 HOH HOH . I 6 HOH A 4 304 19 HOH HOH . I 6 HOH A 5 305 38 HOH HOH . I 6 HOH A 6 306 9 HOH HOH . I 6 HOH A 7 307 26 HOH HOH . I 6 HOH A 8 308 12 HOH HOH . I 6 HOH A 9 309 6 HOH HOH . I 6 HOH A 10 310 16 HOH HOH . I 6 HOH A 11 311 1 HOH HOH . I 6 HOH A 12 312 27 HOH HOH . I 6 HOH A 13 313 10 HOH HOH . I 6 HOH A 14 314 18 HOH HOH . I 6 HOH A 15 315 8 HOH HOH . I 6 HOH A 16 316 39 HOH HOH . I 6 HOH A 17 317 15 HOH HOH . I 6 HOH A 18 318 37 HOH HOH . I 6 HOH A 19 319 17 HOH HOH . I 6 HOH A 20 320 28 HOH HOH . I 6 HOH A 21 321 14 HOH HOH . I 6 HOH A 22 322 11 HOH HOH . I 6 HOH A 23 323 20 HOH HOH . I 6 HOH A 24 324 33 HOH HOH . I 6 HOH A 25 325 24 HOH HOH . I 6 HOH A 26 326 34 HOH HOH . I 6 HOH A 27 327 25 HOH HOH . I 6 HOH A 28 328 23 HOH HOH . I 6 HOH A 29 329 2 HOH HOH . I 6 HOH A 30 330 32 HOH HOH . I 6 HOH A 31 331 31 HOH HOH . I 6 HOH A 32 332 36 HOH HOH . I 6 HOH A 33 333 30 HOH HOH . I 6 HOH A 34 334 21 HOH HOH . I 6 HOH A 35 335 40 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 C21 Y5V . . . D 3 -11.703 -35.834 -14.249 1 104.94 ? C21 Y5V 203 A 1 HETATM 2 C C20 Y5V . . . D 3 -12.293 -36.859 -14.971 1 90.67 ? C20 Y5V 203 A 1 HETATM 3 C C19 Y5V . . . D 3 -13.668 -37.02 -14.942 1 78.14 ? C19 Y5V 203 A 1 HETATM 4 C C17 Y5V . . . D 3 -14.33 -38.145 -15.733 1 66.11 ? C17 Y5V 203 A 1 HETATM 5 C C14 Y5V . . . D 3 -15.566 -38.927 -17.813 1 59.16 ? C14 Y5V 203 A 1 HETATM 6 C C12 Y5V . . . D 3 -15.615 -40.31 -17.258 1 47.98 ? C12 Y5V 203 A 1 HETATM 7 C C22 Y5V . . . D 3 -12.489 -34.971 -13.499 1 93.99 ? C22 Y5V 203 A 1 HETATM 8 C C23 Y5V . . . D 3 -13.864 -35.134 -13.47 1 84.83 ? C23 Y5V 203 A 1 HETATM 9 C C11 Y5V . . . D 3 -15.006 -40.588 -15.927 1 66.06 ? C11 Y5V 203 A 1 HETATM 10 C C01 Y5V . . . D 3 -9.774 -41.037 -11.737 1 85.44 ? C01 Y5V 203 A 1 HETATM 11 C C03 Y5V . . . D 3 -12.084 -40.756 -11.401 1 102.83 ? C03 Y5V 203 A 1 HETATM 12 C C04 Y5V . . . D 3 -12.502 -41.886 -12.088 1 103.51 ? C04 Y5V 203 A 1 HETATM 13 C C05 Y5V . . . D 3 -13.713 -42.482 -11.769 1 111.08 ? C05 Y5V 203 A 1 HETATM 14 C C06 Y5V . . . D 3 -14.177 -43.732 -12.519 1 108.71 ? C06 Y5V 203 A 1 HETATM 15 C C07 Y5V . . . D 3 -15.416 -43.487 -13.375 1 103.14 ? C07 Y5V 203 A 1 HETATM 16 C C09 Y5V . . . D 3 -15.044 -41.988 -15.335 1 68.32 ? C09 Y5V 203 A 1 HETATM 17 C C24 Y5V . . . D 3 -14.453 -36.158 -14.192 1 82.44 ? C24 Y5V 203 A 1 HETATM 18 C C25 Y5V . . . D 3 -15.968 -36.341 -14.164 1 77.13 ? C25 Y5V 203 A 1 HETATM 19 C C26 Y5V . . . D 3 -14.508 -41.946 -10.768 1 106.38 ? C26 Y5V 203 A 1 HETATM 20 C C27 Y5V . . . D 3 -14.092 -40.814 -10.085 1 96.92 ? C27 Y5V 203 A 1 HETATM 21 C C28 Y5V . . . D 3 -12.881 -40.219 -10.401 1 108.08 ? C28 Y5V 203 A 1 HETATM 22 N N08 Y5V . . . D 3 -15.381 -42.155 -13.938 1 98.55 ? N08 Y5V 203 A 1 HETATM 23 N N16 Y5V . . . D 3 -14.933 -37.861 -17.06 1 55.85 ? N16 Y5V 203 A 1 HETATM 24 N N18 Y5V . . . D 3 -14.376 -39.519 -15.175 1 67.74 ? N18 Y5V 203 A 1 HETATM 25 O O02 Y5V . . . D 3 -10.861 -40.153 -11.723 1 87.33 ? O02 Y5V 203 A 1 HETATM 26 O O10 Y5V . . . D 3 -14.797 -42.932 -16.005 1 74.58 ? O10 Y5V 203 A 1 HETATM 27 O O13 Y5V . . . D 3 -16.226 -41.342 -17.985 1 66.67 ? O13 Y5V 203 A 1 HETATM 28 O O15 Y5V . . . D 3 -16.042 -38.692 -18.868 1 53.92 ? O15 Y5V 203 A 1 HETATM 29 O O29 Y5V . . . D 3 -12.462 -39.077 -9.71 1 107.23 ? O29 Y5V 203 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 350 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #