data_7TY3 # _model_server_result.job_id D7zSjigal1jLlDKMdRUNRA _model_server_result.datetime_utc '2024-10-20 03:49:53' _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 7ty3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1804}' # _entry.id 7TY3 # _exptl.entry_id 7TY3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 7TY3 _cell.length_a 52.092 _cell.length_b 76.702 _cell.length_c 75.461 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7TY3 _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,D,E,F,G,H _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 E _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 SG CYS 66 A CYS 1499 1_555 B ZN ZN . A ZN 1801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc2 A SG CYS 68 A CYS 1501 1_555 B ZN ZN . A ZN 1801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc3 A SG CYS 83 A CYS 1516 1_555 B ZN ZN . A ZN 1801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc4 A SG CYS 83 A CYS 1516 1_555 C ZN ZN . A ZN 1802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc5 A SG CYS 87 A CYS 1520 1_555 B ZN ZN . A ZN 1801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc6 A SG CYS 96 A CYS 1529 1_555 C ZN ZN . A ZN 1802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc7 A SG CYS 100 A CYS 1533 1_555 C ZN ZN . A ZN 1802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.352 ? metalc ? metalc8 A SG CYS 106 A CYS 1539 1_555 C ZN ZN . A ZN 1802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc9 A SG CYS 198 A CYS 1631 1_555 D ZN ZN . A ZN 1803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.345 ? metalc ? metalc10 A SG CYS 245 A CYS 1678 1_555 D ZN ZN . A ZN 1803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc11 A SG CYS 247 A CYS 1680 1_555 D ZN ZN . A ZN 1803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc12 A SG CYS 252 A CYS 1685 1_555 D ZN ZN . A ZN 1803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? # _chem_comp.formula 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _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 N CA SAM sing 347 n n N HN1 SAM sing 348 n n N HN2 SAM sing 349 n n CA C SAM sing 350 n n CA CB SAM sing 351 n n CA HA SAM sing 352 n n C O SAM doub 353 n n C OXT SAM sing 354 n n CB CG SAM sing 355 n n CB HB1 SAM sing 356 n n CB HB2 SAM sing 357 n n CG SD SAM sing 358 n n CG HG1 SAM sing 359 n n CG HG2 SAM sing 360 n n SD CE SAM sing 361 n n SD C5' SAM sing 362 n n CE HE1 SAM sing 363 n n CE HE2 SAM sing 364 n n CE HE3 SAM sing 365 n n C5' C4' SAM sing 366 n n C5' "H5'1" SAM sing 367 n n C5' "H5'2" SAM sing 368 n n C4' O4' SAM sing 369 n n C4' C3' SAM sing 370 n n C4' H4' SAM sing 371 n n O4' C1' SAM sing 372 n n C3' O3' SAM sing 373 n n C3' C2' SAM sing 374 n n C3' H3' SAM sing 375 n n O3' HO3' SAM sing 376 n n C2' O2' SAM sing 377 n n C2' C1' SAM sing 378 n n C2' H2' SAM sing 379 n n O2' HO2' SAM sing 380 n n C1' N9 SAM sing 381 n n C1' H1' SAM sing 382 n n N9 C8 SAM sing 383 n y N9 C4 SAM sing 384 n y C8 N7 SAM doub 385 n y C8 H8 SAM sing 386 n n N7 C5 SAM sing 387 n y C5 C6 SAM sing 388 n y C5 C4 SAM doub 389 n y C6 N6 SAM sing 390 n n C6 N1 SAM doub 391 n y N6 HN61 SAM sing 392 n n N6 HN62 SAM sing 393 n n N1 C2 SAM sing 394 n y C2 N3 SAM doub 395 n y C2 H2 SAM sing 396 n n N3 C4 SAM sing 397 n y # _atom_sites.entry_id 7TY3 _atom_sites.fract_transf_matrix[1][1] 0.019197 _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] 0.013037 _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] 0.013252 _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 ZN A 1 1801 1 ZN ZN . C 2 ZN A 1 1802 2 ZN ZN . D 2 ZN A 1 1803 3 ZN ZN . E 3 SAM A 1 1804 1 SAM SAM . F 4 KRF A 1 1805 1 KRF LIG . G 5 EDO A 1 1806 1 EDO EDO . H 6 HOH A 1 1901 19 HOH HOH . H 6 HOH A 2 1902 24 HOH HOH . H 6 HOH A 3 1903 17 HOH HOH . H 6 HOH A 4 1904 18 HOH HOH . H 6 HOH A 5 1905 20 HOH HOH . H 6 HOH A 6 1906 3 HOH HOH . H 6 HOH A 7 1907 14 HOH HOH . H 6 HOH A 8 1908 25 HOH HOH . H 6 HOH A 9 1909 16 HOH HOH . H 6 HOH A 10 1910 12 HOH HOH . H 6 HOH A 11 1911 5 HOH HOH . H 6 HOH A 12 1912 1 HOH HOH . H 6 HOH A 13 1913 10 HOH HOH . H 6 HOH A 14 1914 4 HOH HOH . H 6 HOH A 15 1915 23 HOH HOH . H 6 HOH A 16 1916 2 HOH HOH . H 6 HOH A 17 1917 7 HOH HOH . H 6 HOH A 18 1918 13 HOH HOH . H 6 HOH A 19 1919 8 HOH HOH . H 6 HOH A 20 1920 11 HOH HOH . H 6 HOH A 21 1921 22 HOH HOH . H 6 HOH A 22 1922 6 HOH HOH . H 6 HOH A 23 1923 21 HOH HOH . H 6 HOH A 24 1924 15 HOH HOH . H 6 HOH A 25 1925 9 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 N SAM . . . E 3 -3.557 25.202 19.562 1 50.84 ? N SAM 1804 A 1 HETATM 2 C CA SAM . . . E 3 -4.298 24.395 18.56 1 49.64 ? CA SAM 1804 A 1 HETATM 3 C C SAM . . . E 3 -5.583 23.853 19.194 1 52.84 ? C SAM 1804 A 1 HETATM 4 O O SAM . . . E 3 -6.346 23.1 18.575 1 50.13 ? O SAM 1804 A 1 HETATM 5 O OXT SAM . . . E 3 -5.868 24.181 20.348 1 52.49 ? OXT SAM 1804 A 1 HETATM 6 C CB SAM . . . E 3 -3.433 23.237 18.069 1 50.53 ? CB SAM 1804 A 1 HETATM 7 C CG SAM . . . E 3 -2.503 23.619 16.938 1 53.81 ? CG SAM 1804 A 1 HETATM 8 S SD SAM . . . E 3 -3.456 23.804 15.409 1 56.36 ? SD SAM 1804 A 1 HETATM 9 C CE SAM . . . E 3 -2.644 22.618 14.354 1 58.85 ? CE SAM 1804 A 1 HETATM 10 C C5' SAM . . . E 3 -2.759 25.364 14.842 1 55.47 ? C5' SAM 1804 A 1 HETATM 11 C C4' SAM . . . E 3 -3.522 26.55 15.397 1 55.36 ? C4' SAM 1804 A 1 HETATM 12 O O4' SAM . . . E 3 -3.125 26.799 16.769 1 52.97 ? O4' SAM 1804 A 1 HETATM 13 C C3' SAM . . . E 3 -3.287 27.86 14.649 1 54.14 ? C3' SAM 1804 A 1 HETATM 14 O O3' SAM . . . E 3 -4.205 27.961 13.563 1 50.93 ? O3' SAM 1804 A 1 HETATM 15 C C2' SAM . . . E 3 -3.505 28.89 15.761 1 51.89 ? C2' SAM 1804 A 1 HETATM 16 O O2' SAM . . . E 3 -4.873 29.161 15.976 1 49.37 ? O2' SAM 1804 A 1 HETATM 17 C C1' SAM . . . E 3 -2.884 28.175 16.961 1 52.53 ? C1' SAM 1804 A 1 HETATM 18 N N9 SAM . . . E 3 -1.447 28.391 17.087 1 50.99 ? N9 SAM 1804 A 1 HETATM 19 C C8 SAM . . . E 3 -0.443 27.496 16.818 1 51.01 ? C8 SAM 1804 A 1 HETATM 20 N N7 SAM . . . E 3 0.757 27.983 17.007 1 51.59 ? N7 SAM 1804 A 1 HETATM 21 C C5 SAM . . . E 3 0.537 29.291 17.414 1 53.92 ? C5 SAM 1804 A 1 HETATM 22 C C6 SAM . . . E 3 1.414 30.339 17.762 1 53.13 ? C6 SAM 1804 A 1 HETATM 23 N N6 SAM . . . E 3 2.742 30.238 17.747 1 55.44 ? N6 SAM 1804 A 1 HETATM 24 N N1 SAM . . . E 3 0.864 31.523 18.108 1 54.07 ? N1 SAM 1804 A 1 HETATM 25 C C2 SAM . . . E 3 -0.471 31.633 18.107 1 55.33 ? C2 SAM 1804 A 1 HETATM 26 N N3 SAM . . . E 3 -1.391 30.719 17.811 1 55.01 ? N3 SAM 1804 A 1 HETATM 27 C C4 SAM . . . E 3 -0.819 29.554 17.465 1 53.32 ? C4 SAM 1804 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 27 #