data_5S8I # _model_server_result.job_id yXCY9CrtfTK-IHERmz3gZQ _model_server_result.datetime_utc '2025-08-24 06:38:59' _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 5s8i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1501}' # _entry.id 5S8I # _exptl.entry_id 5S8I _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 199.227 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-methyl-2,3-dihydrothieno[3,4-b][1,4]dioxine-5-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 100.44 _cell.angle_gamma 90 _cell.entry_id 5S8I _cell.length_a 83.073 _cell.length_b 27.433 _cell.length_c 56.717 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5S8I _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 # _chem_comp.formula 'C8 H9 N O3 S' _chem_comp.formula_weight 199.227 _chem_comp.id 2LY _chem_comp.mon_nstd_flag . _chem_comp.name N-methyl-2,3-dihydrothieno[3,4-b][1,4]dioxine-5-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 C10 O09 2LY sing 1 n n C10 C11 2LY sing 2 n n O09 C06 2LY sing 3 n n C06 C05 2LY sing 4 n y C06 C07 2LY doub 5 n y O12 C05 2LY sing 6 n n O12 C11 2LY sing 7 n n C05 C04 2LY doub 8 n y C07 S08 2LY sing 9 n y N02 C01 2LY sing 10 n n N02 C03 2LY sing 11 n n C04 S08 2LY sing 12 n y C04 C03 2LY sing 13 n n C03 O13 2LY doub 14 n n C01 H1 2LY sing 15 n n C01 H2 2LY sing 16 n n C01 H3 2LY sing 17 n n N02 H4 2LY sing 18 n n C07 H5 2LY sing 19 n n C10 H6 2LY sing 20 n n C10 H7 2LY sing 21 n n C11 H8 2LY sing 22 n n C11 H9 2LY sing 23 n n # _atom_sites.entry_id 5S8I _atom_sites.fract_transf_matrix[1][1] 0.012038 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002217 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.036452 _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] 0.017928 _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 2LY A 1 1501 1 2LY LIG . C 3 HOH A 1 1601 102 HOH HOH . C 3 HOH A 2 1602 47 HOH HOH . C 3 HOH A 3 1603 26 HOH HOH . C 3 HOH A 4 1604 21 HOH HOH . C 3 HOH A 5 1605 58 HOH HOH . C 3 HOH A 6 1606 48 HOH HOH . C 3 HOH A 7 1607 66 HOH HOH . C 3 HOH A 8 1608 28 HOH HOH . C 3 HOH A 9 1609 25 HOH HOH . C 3 HOH A 10 1610 15 HOH HOH . C 3 HOH A 11 1611 18 HOH HOH . C 3 HOH A 12 1612 50 HOH HOH . C 3 HOH A 13 1613 35 HOH HOH . C 3 HOH A 14 1614 34 HOH HOH . C 3 HOH A 15 1615 77 HOH HOH . C 3 HOH A 16 1616 8 HOH HOH . C 3 HOH A 17 1617 20 HOH HOH . C 3 HOH A 18 1618 33 HOH HOH . C 3 HOH A 19 1619 2 HOH HOH . C 3 HOH A 20 1620 104 HOH HOH . C 3 HOH A 21 1621 29 HOH HOH . C 3 HOH A 22 1622 3 HOH HOH . C 3 HOH A 23 1623 6 HOH HOH . C 3 HOH A 24 1624 5 HOH HOH . C 3 HOH A 25 1625 51 HOH HOH . C 3 HOH A 26 1626 101 HOH HOH . C 3 HOH A 27 1627 4 HOH HOH . C 3 HOH A 28 1628 7 HOH HOH . C 3 HOH A 29 1629 105 HOH HOH . C 3 HOH A 30 1630 73 HOH HOH . C 3 HOH A 31 1631 79 HOH HOH . C 3 HOH A 32 1632 103 HOH HOH . C 3 HOH A 33 1633 82 HOH HOH . C 3 HOH A 34 1634 71 HOH HOH . C 3 HOH A 35 1635 76 HOH HOH . C 3 HOH A 36 1636 72 HOH HOH . C 3 HOH A 37 1637 91 HOH HOH . C 3 HOH A 38 1638 83 HOH HOH . C 3 HOH A 39 1639 22 HOH HOH . C 3 HOH A 40 1640 11 HOH HOH . C 3 HOH A 41 1641 100 HOH HOH . C 3 HOH A 42 1642 81 HOH HOH . C 3 HOH A 43 1643 98 HOH HOH . C 3 HOH A 44 1644 44 HOH HOH . C 3 HOH A 45 1645 87 HOH HOH . C 3 HOH A 46 1646 13 HOH HOH . C 3 HOH A 47 1647 41 HOH HOH . C 3 HOH A 48 1648 24 HOH HOH . C 3 HOH A 49 1649 65 HOH HOH . C 3 HOH A 50 1650 69 HOH HOH . C 3 HOH A 51 1651 31 HOH HOH . C 3 HOH A 52 1652 68 HOH HOH . C 3 HOH A 53 1653 45 HOH HOH . C 3 HOH A 54 1654 90 HOH HOH . C 3 HOH A 55 1655 42 HOH HOH . C 3 HOH A 56 1656 9 HOH HOH . C 3 HOH A 57 1657 78 HOH HOH . C 3 HOH A 58 1658 74 HOH HOH . C 3 HOH A 59 1659 93 HOH HOH . C 3 HOH A 60 1660 38 HOH HOH . C 3 HOH A 61 1661 1 HOH HOH . C 3 HOH A 62 1662 53 HOH HOH . C 3 HOH A 63 1663 30 HOH HOH . C 3 HOH A 64 1664 108 HOH HOH . C 3 HOH A 65 1665 54 HOH HOH . C 3 HOH A 66 1666 109 HOH HOH . C 3 HOH A 67 1667 17 HOH HOH . C 3 HOH A 68 1668 64 HOH HOH . C 3 HOH A 69 1669 12 HOH HOH . C 3 HOH A 70 1670 43 HOH HOH . C 3 HOH A 71 1671 62 HOH HOH . C 3 HOH A 72 1672 16 HOH HOH . C 3 HOH A 73 1673 97 HOH HOH . C 3 HOH A 74 1674 10 HOH HOH . C 3 HOH A 75 1675 14 HOH HOH . C 3 HOH A 76 1676 106 HOH HOH . C 3 HOH A 77 1677 36 HOH HOH . C 3 HOH A 78 1678 39 HOH HOH . C 3 HOH A 79 1679 86 HOH HOH . C 3 HOH A 80 1680 85 HOH HOH . C 3 HOH A 81 1681 27 HOH HOH . C 3 HOH A 82 1682 46 HOH HOH . C 3 HOH A 83 1683 70 HOH HOH . C 3 HOH A 84 1684 60 HOH HOH . C 3 HOH A 85 1685 40 HOH HOH . C 3 HOH A 86 1686 32 HOH HOH . C 3 HOH A 87 1687 63 HOH HOH . C 3 HOH A 88 1688 99 HOH HOH . C 3 HOH A 89 1689 19 HOH HOH . C 3 HOH A 90 1690 23 HOH HOH . C 3 HOH A 91 1691 88 HOH HOH . C 3 HOH A 92 1692 80 HOH HOH . C 3 HOH A 93 1693 75 HOH HOH . C 3 HOH A 94 1694 57 HOH HOH . C 3 HOH A 95 1695 92 HOH HOH . C 3 HOH A 96 1696 52 HOH HOH . C 3 HOH A 97 1697 59 HOH HOH . C 3 HOH A 98 1698 49 HOH HOH . C 3 HOH A 99 1699 84 HOH HOH . C 3 HOH A 100 1700 61 HOH HOH . C 3 HOH A 101 1701 67 HOH HOH . C 3 HOH A 102 1702 37 HOH HOH . C 3 HOH A 103 1703 56 HOH HOH . C 3 HOH A 104 1704 95 HOH HOH . C 3 HOH A 105 1705 96 HOH HOH . C 3 HOH A 106 1706 89 HOH HOH . C 3 HOH A 107 1707 107 HOH HOH . C 3 HOH A 108 1708 94 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 C01 2LY . D . B 2 -24.023 15.158 30.468 1 28.73 ? C01 2LY 1501 A 1 HETATM 2 N N02 2LY . D . B 2 -23.373 14.31 29.472 1 26.94 ? N02 2LY 1501 A 1 HETATM 3 C C03 2LY . D . B 2 -24.007 13.604 28.528 1 23.79 ? C03 2LY 1501 A 1 HETATM 4 C C04 2LY . D . B 2 -23.124 13.096 27.463 1 21.3 ? C04 2LY 1501 A 1 HETATM 5 C C05 2LY . D . B 2 -21.709 13.285 27.251 1 21.47 ? C05 2LY 1501 A 1 HETATM 6 C C06 2LY . D . B 2 -21.254 12.666 26.041 1 21.16 ? C06 2LY 1501 A 1 HETATM 7 C C07 2LY . D . B 2 -22.247 11.982 25.389 1 23.99 ? C07 2LY 1501 A 1 HETATM 8 S S08 2LY . D . B 2 -23.796 12.181 26.165 1 22.29 ? S08 2LY 1501 A 1 HETATM 9 O O09 2LY . D . B 2 -19.952 12.784 25.59 1 24.7 ? O09 2LY 1501 A 1 HETATM 10 C C10 2LY . D . B 2 -19.262 13.877 26.252 1 26.63 ? C10 2LY 1501 A 1 HETATM 11 C C11 2LY . D . B 2 -19.48 13.869 27.726 1 25.22 ? C11 2LY 1501 A 1 HETATM 12 O O12 2LY . D . B 2 -20.877 14.018 28.089 1 23.5 ? O12 2LY 1501 A 1 HETATM 13 O O13 2LY . D . B 2 -25.237 13.428 28.47 1 24.67 ? O13 2LY 1501 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 13 #