data_5W92 # _model_server_result.job_id JpZoBMERUNk54AlXb-9djg _model_server_result.datetime_utc '2024-11-13 20:57:59' _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 5w92 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":204}' # _entry.id 5W92 # _exptl.entry_id 5W92 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 541.682 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1-[(3R,5S,7R)-1,5,7,9-tetrakis(2-oxopyrrolidin-1-yl)nonan-3-yl]-1,3-dihydro-2H-pyrrol-2-one _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 5W92 _cell.length_a 90.448 _cell.length_b 90.448 _cell.length_c 134.167 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5W92 _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 4 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 PISA tetrameric 4 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,B,C,D,E,F 1 1 A,B,C,D,E,F 2 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_885 -x+3,-y+3,z -1 0 0 0 -1 0 0 0 1 271.344 271.344 0 3 'crystal symmetry operation' 3_855 -y+3,x,z 0 -1 0 1 0 0 0 0 1 271.344 0 0 4 'crystal symmetry operation' 4_585 y,-x+3,z 0 1 0 -1 0 0 0 0 1 0 271.344 0 # _struct_asym.details ? _struct_asym.entity_id 4 _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 NE2 HIS 61 A HIS 41 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc2 A OE1 GLU 81 A GLU 80 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.159 ? metalc ? metalc3 A OD2 ASP 109 A ASP 108 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc4 A OD1 ASP 109 A ASP 108 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.115 ? metalc ? metalc5 A OE1 GLU 120 A GLU 119 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc6 A O ILE 121 A ILE 120 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.278 ? metalc ? metalc7 B MN MN . A MN 201 1_555 D O6 KU0 . A KU0 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc8 B MN MN . A MN 201 1_555 D O5 KU0 . A KU0 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc9 C MN MN . A MN 202 1_555 D O2 KU0 . A KU0 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? metalc ? metalc10 C MN MN . A MN 202 1_555 D O5 KU0 . A KU0 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc11 C MN MN . A MN 202 1_555 F O HOH . A HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? metalc ? metalc12 C MN MN . A MN 202 1_555 F O HOH . A HOH 304 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? # _chem_comp.formula 'C29 H43 N5 O5' _chem_comp.formula_weight 541.682 _chem_comp.id 9HD _chem_comp.mon_nstd_flag . _chem_comp.name 1-[(3R,5S,7R)-1,5,7,9-tetrakis(2-oxopyrrolidin-1-yl)nonan-3-yl]-1,3-dihydro-2H-pyrrol-2-one _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'Polyvinylpyrrolidone K15' # 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 C69 C66 9HD sing 1 n n C69 N61 9HD sing 2 n n C66 C63 9HD sing 3 n n C58 N61 9HD sing 4 n n C58 C55 9HD sing 5 n n N61 C62 9HD sing 6 n n C63 C62 9HD sing 7 n n C55 C41 9HD sing 8 n n C62 O72 9HD doub 9 n n C21 C18 9HD sing 10 n n C21 N24 9HD sing 11 n n C18 C13 9HD sing 12 n n O77 C76 9HD doub 13 n n C41 N43 9HD sing 14 n n C41 C38 9HD sing 15 n n N24 C25 9HD sing 16 n n N24 C32 9HD sing 17 n n O37 C25 9HD doub 18 n n O54 C44 9HD doub 19 n n C25 C26 9HD sing 20 n n C35 C38 9HD sing 21 n n C35 C15 9HD sing 22 n n C35 N78 9HD sing 23 n n C32 C29 9HD sing 24 n n N43 C44 9HD sing 25 n n N43 C51 9HD sing 26 n n C76 N78 9HD sing 27 n n C76 C73 9HD sing 28 n n C44 C45 9HD sing 29 n n O12 C08 9HD doub 30 n n C13 C15 9HD sing 31 n n C13 N07 9HD sing 32 n n N78 C79 9HD sing 33 n n C51 C48 9HD sing 34 n n C26 C29 9HD sing 35 n n C45 C48 9HD sing 36 n n C08 N07 9HD sing 37 n n C08 C09 9HD sing 38 n n C73 C82 9HD sing 39 n n N07 C04 9HD sing 40 n n C79 C82 9HD sing 41 n n C09 C01 9HD sing 42 n n C04 C01 9HD doub 43 n n C01 H1 9HD sing 44 n n C04 H2 9HD sing 45 n n C09 H3 9HD sing 46 n n C09 H4 9HD sing 47 n n C13 H5 9HD sing 48 n n C15 H6 9HD sing 49 n n C15 H7 9HD sing 50 n n C18 H8 9HD sing 51 n n C18 H9 9HD sing 52 n n C21 H10 9HD sing 53 n n C21 H11 9HD sing 54 n n C26 H12 9HD sing 55 n n C26 H13 9HD sing 56 n n C29 H14 9HD sing 57 n n C29 H15 9HD sing 58 n n C32 H16 9HD sing 59 n n C32 H17 9HD sing 60 n n C35 H18 9HD sing 61 n n C38 H19 9HD sing 62 n n C38 H20 9HD sing 63 n n C41 H21 9HD sing 64 n n C45 H22 9HD sing 65 n n C45 H23 9HD sing 66 n n C48 H24 9HD sing 67 n n C48 H25 9HD sing 68 n n C51 H26 9HD sing 69 n n C51 H27 9HD sing 70 n n C55 H28 9HD sing 71 n n C55 H29 9HD sing 72 n n C58 H30 9HD sing 73 n n C58 H31 9HD sing 74 n n C63 H32 9HD sing 75 n n C63 H33 9HD sing 76 n n C66 H34 9HD sing 77 n n C66 H35 9HD sing 78 n n C69 H36 9HD sing 79 n n C69 H37 9HD sing 80 n n C73 H38 9HD sing 81 n n C73 H39 9HD sing 82 n n C79 H40 9HD sing 83 n n C79 H41 9HD sing 84 n n C82 H42 9HD sing 85 n n C82 H43 9HD sing 86 n n # _atom_sites.entry_id 5W92 _atom_sites.fract_transf_matrix[1][1] 0.011056 _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] 0.011056 _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] 0.007453 _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 1 MN MN . C 2 MN A 1 202 2 MN MN . D 3 KU0 A 1 203 1 KU0 KU0 . E 4 9HD A 1 204 1 9HD 9HD . F 5 HOH A 1 301 18 HOH HOH . F 5 HOH A 2 302 1 HOH HOH . F 5 HOH A 3 303 4 HOH HOH . F 5 HOH A 4 304 2 HOH HOH . F 5 HOH A 5 305 16 HOH HOH . F 5 HOH A 6 306 7 HOH HOH . F 5 HOH A 7 307 13 HOH HOH . F 5 HOH A 8 308 14 HOH HOH . F 5 HOH A 9 309 3 HOH HOH . F 5 HOH A 10 310 9 HOH HOH . F 5 HOH A 11 311 11 HOH HOH . F 5 HOH A 12 312 15 HOH HOH . F 5 HOH A 13 313 8 HOH HOH . F 5 HOH A 14 314 17 HOH HOH . F 5 HOH A 15 315 6 HOH HOH . F 5 HOH A 16 316 12 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 9HD . . . E 4 129.286 122.987 417.293 1 123.78 ? C01 9HD 204 A 1 HETATM 2 C C04 9HD . . . E 4 130.805 122.979 417.418 1 123.46 ? C04 9HD 204 A 1 HETATM 3 N N07 9HD . . . E 4 131.251 122.53 416.103 1 121.94 ? N07 9HD 204 A 1 HETATM 4 C C08 9HD . . . E 4 130.261 121.923 415.415 1 123.01 ? C08 9HD 204 A 1 HETATM 5 C C09 9HD . . . E 4 129.008 121.93 416.26 1 123.43 ? C09 9HD 204 A 1 HETATM 6 O O12 9HD . . . E 4 130.379 121.441 414.291 1 124.62 ? O12 9HD 204 A 1 HETATM 7 C C13 9HD . . . E 4 132.651 122.749 415.671 1 121.32 ? C13 9HD 204 A 1 HETATM 8 C C15 9HD . . . E 4 133.28 121.565 414.91 1 122.08 ? C15 9HD 204 A 1 HETATM 9 C C18 9HD . . . E 4 132.805 124.124 414.988 1 122.71 ? C18 9HD 204 A 1 HETATM 10 C C21 9HD . . . E 4 132.069 124.277 413.663 1 122.93 ? C21 9HD 204 A 1 HETATM 11 N N24 9HD . . . E 4 130.722 124.825 413.79 1 124.84 ? N24 9HD 204 A 1 HETATM 12 C C25 9HD . . . E 4 130.406 125.9 414.531 1 127.37 ? C25 9HD 204 A 1 HETATM 13 C C26 9HD . . . E 4 128.899 126.043 414.518 1 126.58 ? C26 9HD 204 A 1 HETATM 14 C C29 9HD . . . E 4 128.416 124.742 413.929 1 124.61 ? C29 9HD 204 A 1 HETATM 15 C C32 9HD . . . E 4 129.587 124.273 413.077 1 123.7 ? C32 9HD 204 A 1 HETATM 16 C C35 9HD . . . E 4 134.807 121.33 414.99 1 124.48 ? C35 9HD 204 A 1 HETATM 17 O O37 9HD . . . E 4 131.208 126.649 415.086 1 128.9 ? O37 9HD 204 A 1 HETATM 18 C C38 9HD . . . E 4 135.413 120.642 413.744 1 124.87 ? C38 9HD 204 A 1 HETATM 19 C C41 9HD . . . E 4 136.888 120.181 413.618 1 125.78 ? C41 9HD 204 A 1 HETATM 20 N N43 9HD . . . E 4 137.128 118.761 413.966 1 122.44 ? N43 9HD 204 A 1 HETATM 21 C C44 9HD . . . E 4 137.742 118.281 415.063 1 119.14 ? C44 9HD 204 A 1 HETATM 22 C C45 9HD . . . E 4 137.983 116.805 414.871 1 118.32 ? C45 9HD 204 A 1 HETATM 23 C C48 9HD . . . E 4 136.938 116.426 413.868 1 119.94 ? C48 9HD 204 A 1 HETATM 24 C C51 9HD . . . E 4 136.74 117.698 413.047 1 121.77 ? C51 9HD 204 A 1 HETATM 25 O O54 9HD . . . E 4 138.086 118.957 416.029 1 118.26 ? O54 9HD 204 A 1 HETATM 26 C C55 9HD . . . E 4 137.967 121.15 414.146 1 130.25 ? C55 9HD 204 A 1 HETATM 27 C C58 9HD . . . E 4 138.844 121.747 413.057 1 132.05 ? C58 9HD 204 A 1 HETATM 28 N N61 9HD . . . E 4 139.695 120.758 412.409 1 135.03 ? N61 9HD 204 A 1 HETATM 29 C C62 9HD . . . E 4 139.361 120.122 411.289 1 137.47 ? C62 9HD 204 A 1 HETATM 30 C C63 9HD . . . E 4 140.53 119.254 410.886 1 137.9 ? C63 9HD 204 A 1 HETATM 31 C C66 9HD . . . E 4 141.305 119.103 412.169 1 137.49 ? C66 9HD 204 A 1 HETATM 32 C C69 9HD . . . E 4 141.003 120.39 412.923 1 136.43 ? C69 9HD 204 A 1 HETATM 33 O O72 9HD . . . E 4 138.295 120.257 410.693 1 138.27 ? O72 9HD 204 A 1 HETATM 34 C C73 9HD . . . E 4 136.727 124.519 415.597 1 132.39 ? C73 9HD 204 A 1 HETATM 35 C C76 9HD . . . E 4 135.954 123.565 414.716 1 130.83 ? C76 9HD 204 A 1 HETATM 36 O O77 9HD . . . E 4 135.698 123.707 413.522 1 129.18 ? O77 9HD 204 A 1 HETATM 37 N N78 9HD . . . E 4 135.558 122.514 415.463 1 128.58 ? N78 9HD 204 A 1 HETATM 38 C C79 9HD . . . E 4 135.955 122.654 416.86 1 129.15 ? C79 9HD 204 A 1 HETATM 39 C C82 9HD . . . E 4 137.078 123.681 416.796 1 132.07 ? C82 9HD 204 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 225 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 39 #