data_1TV8 # _model_server_result.job_id yhCYeiHWaAfpEzscfJ01SA _model_server_result.datetime_utc '2024-11-22 18:27:55' _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 1tv8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":1501}' # _entry.id 1TV8 # _exptl.entry_id 1TV8 _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 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 1TV8 _cell.length_a 47.982 _cell.length_b 103.305 _cell.length_c 189.925 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1TV8 _symmetry.cell_setting orthorhombic _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,I,J,K,L,M _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 # 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 I 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 24 A CYS 24 1_555 E FE1 SF4 . A SF4 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc2 A SG CYS 28 A CYS 28 1_555 E FE3 SF4 . A SF4 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.197 ? metalc ? metalc3 A SG CYS 31 A CYS 31 1_555 E FE2 SF4 . A SF4 1401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? metalc ? metalc4 A SG CYS 261 A CYS 261 1_555 F FE1 SF4 . A SF4 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.274 ? metalc ? metalc5 A SG CYS 264 A CYS 264 1_555 F FE3 SF4 . A SF4 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc6 A SG CYS 278 A CYS 278 1_555 F FE2 SF4 . A SF4 1402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.214 ? metalc ? metalc7 E FE4 SF4 . A SF4 1401 1_555 D N SAM . A SAM 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc8 E FE4 SF4 . A SF4 1401 1_555 D O SAM . A SAM 1501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc9 F FE4 SF4 . A SF4 1402 1_555 G S4 DTU . A DTU 1502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc10 B SG CYS 24 B CYS 24 1_555 J FE1 SF4 . B SF4 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.237 ? metalc ? metalc11 B SG CYS 28 B CYS 28 1_555 J FE3 SF4 . B SF4 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.5 ? metalc ? metalc12 B SG CYS 31 B CYS 31 1_555 J FE2 SF4 . B SF4 2401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.53 ? metalc ? metalc13 B SG CYS 261 B CYS 261 1_555 K FE1 SF4 . B SF4 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? metalc ? metalc14 B SG CYS 264 B CYS 264 1_555 K FE3 SF4 . B SF4 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc15 B SG CYS 278 B CYS 278 1_555 K FE2 SF4 . B SF4 2402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.147 ? metalc ? metalc16 J FE4 SF4 . B SF4 2401 1_555 I N SAM . B SAM 2501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.241 ? metalc ? metalc17 J FE4 SF4 . B SF4 2401 1_555 I OXT SAM . B SAM 2501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? # _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 294 n n N HN1 SAM sing 295 n n N HN2 SAM sing 296 n n CA C SAM sing 297 n n CA CB SAM sing 298 n n CA HA SAM sing 299 n n C O SAM doub 300 n n C OXT SAM sing 301 n n CB CG SAM sing 302 n n CB HB1 SAM sing 303 n n CB HB2 SAM sing 304 n n CG SD SAM sing 305 n n CG HG1 SAM sing 306 n n CG HG2 SAM sing 307 n n SD CE SAM sing 308 n n SD C5' SAM sing 309 n n CE HE1 SAM sing 310 n n CE HE2 SAM sing 311 n n CE HE3 SAM sing 312 n n C5' C4' SAM sing 313 n n C5' "H5'1" SAM sing 314 n n C5' "H5'2" SAM sing 315 n n C4' O4' SAM sing 316 n n C4' C3' SAM sing 317 n n C4' H4' SAM sing 318 n n O4' C1' SAM sing 319 n n C3' O3' SAM sing 320 n n C3' C2' SAM sing 321 n n C3' H3' SAM sing 322 n n O3' HO3' SAM sing 323 n n C2' O2' SAM sing 324 n n C2' C1' SAM sing 325 n n C2' H2' SAM sing 326 n n O2' HO2' SAM sing 327 n n C1' N9 SAM sing 328 n n C1' H1' SAM sing 329 n n N9 C8 SAM sing 330 n y N9 C4 SAM sing 331 n y C8 N7 SAM doub 332 n y C8 H8 SAM sing 333 n n N7 C5 SAM sing 334 n y C5 C6 SAM sing 335 n y C5 C4 SAM doub 336 n y C6 N6 SAM sing 337 n n C6 N1 SAM doub 338 n y N6 HN61 SAM sing 339 n n N6 HN62 SAM sing 340 n n N1 C2 SAM sing 341 n y C2 N3 SAM doub 342 n y C2 H2 SAM sing 343 n n N3 C4 SAM sing 344 n y # _atom_sites.entry_id 1TV8 _atom_sites.fract_transf_matrix[1][1] 0.020841 _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] 0.00968 _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] 0.005265 _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 SO4 A 1 1403 1403 SO4 SO4 . D 3 SAM A 1 1501 1501 SAM SAM . E 4 SF4 A 1 1401 1401 SF4 FS4 . F 4 SF4 A 1 1402 1402 SF4 FS4 . G 5 DTU A 1 1502 1502 DTU DTT . H 2 SO4 B 1 2403 2403 SO4 SO4 . I 3 SAM B 1 2501 2501 SAM SAM . J 4 SF4 B 1 2401 2401 SF4 FS4 . K 4 SF4 B 1 2402 2402 SF4 FS4 . L 6 HOH A 1 1503 1 HOH HOH . L 6 HOH A 2 1504 3 HOH HOH . L 6 HOH A 3 1505 4 HOH HOH . L 6 HOH A 4 1506 5 HOH HOH . L 6 HOH A 5 1507 6 HOH HOH . L 6 HOH A 6 1508 7 HOH HOH . L 6 HOH A 7 1509 8 HOH HOH . L 6 HOH A 8 1510 10 HOH HOH . L 6 HOH A 9 1511 14 HOH HOH . L 6 HOH A 10 1512 15 HOH HOH . L 6 HOH A 11 1513 16 HOH HOH . L 6 HOH A 12 1514 18 HOH HOH . L 6 HOH A 13 1515 19 HOH HOH . L 6 HOH A 14 1516 20 HOH HOH . L 6 HOH A 15 1517 22 HOH HOH . L 6 HOH A 16 1518 23 HOH HOH . L 6 HOH A 17 1519 24 HOH HOH . L 6 HOH A 18 1520 25 HOH HOH . L 6 HOH A 19 1521 26 HOH HOH . L 6 HOH A 20 1522 27 HOH HOH . L 6 HOH A 21 1523 28 HOH HOH . L 6 HOH A 22 1524 29 HOH HOH . L 6 HOH A 23 1525 30 HOH HOH . L 6 HOH A 24 1526 31 HOH HOH . L 6 HOH A 25 1527 32 HOH HOH . L 6 HOH A 26 1528 33 HOH HOH . L 6 HOH A 27 1529 34 HOH HOH . L 6 HOH A 28 1530 35 HOH HOH . L 6 HOH A 29 1531 36 HOH HOH . L 6 HOH A 30 1532 37 HOH HOH . L 6 HOH A 31 1533 38 HOH HOH . L 6 HOH A 32 1534 39 HOH HOH . L 6 HOH A 33 1535 41 HOH HOH . L 6 HOH A 34 1536 42 HOH HOH . L 6 HOH A 35 1537 46 HOH HOH . L 6 HOH A 36 1538 47 HOH HOH . L 6 HOH A 37 1539 50 HOH HOH . L 6 HOH A 38 1540 51 HOH HOH . L 6 HOH A 39 1541 52 HOH HOH . L 6 HOH A 40 1542 53 HOH HOH . L 6 HOH A 41 1543 55 HOH HOH . L 6 HOH A 42 1544 56 HOH HOH . L 6 HOH A 43 1545 58 HOH HOH . L 6 HOH A 44 1546 59 HOH HOH . L 6 HOH A 45 1547 60 HOH HOH . L 6 HOH A 46 1548 61 HOH HOH . L 6 HOH A 47 1549 62 HOH HOH . L 6 HOH A 48 1550 63 HOH HOH . L 6 HOH A 49 1551 65 HOH HOH . L 6 HOH A 50 1552 66 HOH HOH . L 6 HOH A 51 1553 68 HOH HOH . L 6 HOH A 52 1554 69 HOH HOH . L 6 HOH A 53 1555 70 HOH HOH . L 6 HOH A 54 1556 71 HOH HOH . L 6 HOH A 55 1557 72 HOH HOH . L 6 HOH A 56 1558 73 HOH HOH . L 6 HOH A 57 1559 75 HOH HOH . L 6 HOH A 58 1560 78 HOH HOH . L 6 HOH A 59 1561 79 HOH HOH . L 6 HOH A 60 1562 80 HOH HOH . L 6 HOH A 61 1563 81 HOH HOH . L 6 HOH A 62 1564 85 HOH HOH . L 6 HOH A 63 1565 86 HOH HOH . L 6 HOH A 64 1566 87 HOH HOH . L 6 HOH A 65 1567 90 HOH HOH . L 6 HOH A 66 1568 91 HOH HOH . L 6 HOH A 67 1569 92 HOH HOH . L 6 HOH A 68 1570 93 HOH HOH . L 6 HOH A 69 1571 94 HOH HOH . L 6 HOH A 70 1572 96 HOH HOH . L 6 HOH A 71 1573 97 HOH HOH . L 6 HOH A 72 1574 100 HOH HOH . L 6 HOH A 73 1575 103 HOH HOH . L 6 HOH A 74 1576 104 HOH HOH . L 6 HOH A 75 1577 107 HOH HOH . L 6 HOH A 76 1578 108 HOH HOH . L 6 HOH A 77 1579 110 HOH HOH . L 6 HOH A 78 1580 111 HOH HOH . L 6 HOH A 79 1581 112 HOH HOH . L 6 HOH A 80 1582 114 HOH HOH . L 6 HOH A 81 1583 115 HOH HOH . L 6 HOH A 82 1584 117 HOH HOH . L 6 HOH A 83 1585 118 HOH HOH . L 6 HOH A 84 1586 120 HOH HOH . L 6 HOH A 85 1587 122 HOH HOH . L 6 HOH A 86 1588 124 HOH HOH . L 6 HOH A 87 1589 125 HOH HOH . L 6 HOH A 88 1590 126 HOH HOH . L 6 HOH A 89 1591 128 HOH HOH . L 6 HOH A 90 1592 130 HOH HOH . L 6 HOH A 91 1593 132 HOH HOH . L 6 HOH A 92 1594 133 HOH HOH . L 6 HOH A 93 1595 134 HOH HOH . L 6 HOH A 94 1596 135 HOH HOH . L 6 HOH A 95 1597 137 HOH HOH . L 6 HOH A 96 1598 138 HOH HOH . M 6 HOH B 1 2502 11 HOH HOH . M 6 HOH B 2 2503 12 HOH HOH . M 6 HOH B 3 2504 13 HOH HOH . M 6 HOH B 4 2505 17 HOH HOH . M 6 HOH B 5 2506 40 HOH HOH . M 6 HOH B 6 2507 44 HOH HOH . M 6 HOH B 7 2508 45 HOH HOH . M 6 HOH B 8 2509 48 HOH HOH . M 6 HOH B 9 2510 49 HOH HOH . M 6 HOH B 10 2511 57 HOH HOH . M 6 HOH B 11 2512 64 HOH HOH . M 6 HOH B 12 2513 67 HOH HOH . M 6 HOH B 13 2514 74 HOH HOH . M 6 HOH B 14 2515 82 HOH HOH . M 6 HOH B 15 2516 83 HOH HOH . M 6 HOH B 16 2517 88 HOH HOH . M 6 HOH B 17 2518 95 HOH HOH . M 6 HOH B 18 2519 101 HOH HOH . M 6 HOH B 19 2520 102 HOH HOH . M 6 HOH B 20 2521 105 HOH HOH . M 6 HOH B 21 2522 106 HOH HOH . M 6 HOH B 22 2523 109 HOH HOH . M 6 HOH B 23 2524 113 HOH HOH . M 6 HOH B 24 2525 116 HOH HOH . M 6 HOH B 25 2526 119 HOH HOH . M 6 HOH B 26 2527 121 HOH HOH . M 6 HOH B 27 2528 123 HOH HOH . M 6 HOH B 28 2529 127 HOH HOH . M 6 HOH B 29 2530 129 HOH HOH . M 6 HOH B 30 2531 131 HOH HOH . M 6 HOH B 31 2532 136 HOH HOH . M 6 HOH B 32 2533 139 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 . . . D 3 16.345 71.752 10.748 1 54.09 ? N SAM 1501 A 1 HETATM 2 C CA SAM . . . D 3 17.65 71.071 10.791 1 57.06 ? CA SAM 1501 A 1 HETATM 3 C C SAM . . . D 3 17.553 69.583 11.095 1 56.22 ? C SAM 1501 A 1 HETATM 4 O O SAM . . . D 3 16.453 69.182 11.495 1 54.3 ? O SAM 1501 A 1 HETATM 5 O OXT SAM . . . D 3 18.596 68.906 10.913 1 54.86 ? OXT SAM 1501 A 1 HETATM 6 C CB SAM . . . D 3 18.614 71.708 11.816 1 57.24 ? CB SAM 1501 A 1 HETATM 7 C CG SAM . . . D 3 17.949 72.246 13.069 1 62.39 ? CG SAM 1501 A 1 HETATM 8 S SD SAM . . . D 3 16.923 71.071 13.985 1 65.38 ? SD SAM 1501 A 1 HETATM 9 C CE SAM . . . D 3 16.364 72.162 15.323 1 69.87 ? CE SAM 1501 A 1 HETATM 10 C C5' SAM . . . D 3 18.293 70.288 14.895 1 73.35 ? C5' SAM 1501 A 1 HETATM 11 C C4' SAM . . . D 3 18.043 68.932 15.558 1 74.36 ? C4' SAM 1501 A 1 HETATM 12 O O4' SAM . . . D 3 17.25 68.985 16.731 1 74.5 ? O4' SAM 1501 A 1 HETATM 13 C C3' SAM . . . D 3 17.39 67.882 14.659 1 75.89 ? C3' SAM 1501 A 1 HETATM 14 O O3' SAM . . . D 3 18.383 66.992 14.17 1 75.65 ? O3' SAM 1501 A 1 HETATM 15 C C2' SAM . . . D 3 16.392 67.19 15.594 1 75.23 ? C2' SAM 1501 A 1 HETATM 16 O O2' SAM . . . D 3 16.335 65.796 15.395 1 72.32 ? O2' SAM 1501 A 1 HETATM 17 C C1' SAM . . . D 3 16.911 67.615 16.982 1 74.67 ? C1' SAM 1501 A 1 HETATM 18 N N9 SAM . . . D 3 15.926 67.347 18.058 1 73.57 ? N9 SAM 1501 A 1 HETATM 19 C C8 SAM . . . D 3 14.797 68.082 18.307 1 74.84 ? C8 SAM 1501 A 1 HETATM 20 N N7 SAM . . . D 3 14.128 67.528 19.351 1 75.34 ? N7 SAM 1501 A 1 HETATM 21 C C5 SAM . . . D 3 14.81 66.435 19.788 1 74.9 ? C5 SAM 1501 A 1 HETATM 22 C C6 SAM . . . D 3 14.569 65.501 20.83 1 74.27 ? C6 SAM 1501 A 1 HETATM 23 N N6 SAM . . . D 3 13.499 65.618 21.617 1 70.71 ? N6 SAM 1501 A 1 HETATM 24 N N1 SAM . . . D 3 15.47 64.464 21.039 1 71.24 ? N1 SAM 1501 A 1 HETATM 25 C C2 SAM . . . D 3 16.583 64.361 20.231 1 70.85 ? C2 SAM 1501 A 1 HETATM 26 N N3 SAM . . . D 3 16.808 65.277 19.219 1 70.49 ? N3 SAM 1501 A 1 HETATM 27 C C4 SAM . . . D 3 15.948 66.308 18.981 1 73.24 ? C4 SAM 1501 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #