data_7OPI # _model_server_result.job_id -tqBN4ehNqRIl22qlyFtgQ _model_server_result.datetime_utc '2025-01-18 06:41:51' _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 7opi # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1401}' # _entry.id 7OPI # _exptl.entry_id 7OPI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 459.575 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'Spliceostatin E (form I)' _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 7OPI _cell.length_a 104.535 _cell.length_b 108.28 _cell.length_c 253.202 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7OPI _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 5 _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 D SG CYS 21 D CYS 11 1_555 G ZN ZN . D ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc2 D SG CYS 33 D CYS 23 1_555 F ZN ZN . D ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc3 D SG CYS 36 D CYS 26 1_555 F ZN ZN . D ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc4 D SG CYS 40 D CYS 30 1_555 H ZN ZN . D ZN 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc5 D SG CYS 43 D CYS 33 1_555 H ZN ZN . D ZN 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc6 D SG CYS 56 D CYS 46 1_555 G ZN ZN . D ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc7 D SG CYS 59 D CYS 49 1_555 G ZN ZN . D ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc8 D SG CYS 68 D CYS 58 1_555 F ZN ZN . D ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.333 ? metalc ? metalc9 D SG CYS 71 D CYS 61 1_555 F ZN ZN . D ZN 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc10 D SG CYS 82 D CYS 72 1_555 H ZN ZN . D ZN 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc11 D SG CYS 85 D CYS 75 1_555 H ZN ZN . D ZN 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc12 D SG CYS 95 D CYS 85 1_555 G ZN ZN . D ZN 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.349 ? # _chem_comp.formula 'C26 H37 N O6' _chem_comp.formula_weight 459.575 _chem_comp.id 07I _chem_comp.mon_nstd_flag . _chem_comp.name 'Spliceostatin E (form I)' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms '[(Z,2S)-5-[[(2R,3R,5S,6S)-2,5-dimethyl-6-[(2E,4E)-3-methyl-5-[(2S)-4-methyl-6-oxidanylidene-2,3-dihydropyran-2-yl]penta-2,4-dienyl]oxan-3-yl]amino]-5-oxidanylidene-pent-3-en-2-yl] ethanoate;[(Z,2S)-5-[[(2R,3R,5S,6S)-2,5-dimethyl-6-[(2E,4E)-3-methyl-5-[(2S)-4-methyl-6-oxo-2,3-dihydropyran-2-yl]penta-2,4-dienyl]oxan-3-yl]amino]-5-oxopent-3-en-2-yl] acetate;90123658' # 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 C17 C14 07I sing 1 n n C14 C15 07I doub 2 n n C14 C13 07I sing 3 n n C15 C16 07I sing 4 n n C13 C12 07I sing 5 n n C16 O1 07I doub 6 n n C16 O2 07I sing 7 n n O2 C12 07I sing 8 n n C12 C11 07I sing 9 n n C11 C10 07I doub 10 e n C9 C8 07I sing 11 n n C10 C8 07I sing 12 n n C8 C7 07I doub 13 e n C7 C6 07I sing 14 n n C6 C5 07I sing 15 n n C C1 07I sing 16 n n C1 C5 07I sing 17 n n C1 C2 07I sing 18 n n C5 O 07I sing 19 n n O C4 07I sing 20 n n C2 C3 07I sing 21 n n C4 C3 07I sing 22 n n C4 C18 07I sing 23 n n C3 N 07I sing 24 n n O5 C24 07I doub 25 n n N C19 07I sing 26 n n O3 C19 07I doub 27 n n C25 C24 07I sing 28 n n C19 C20 07I sing 29 n n C24 O4 07I sing 30 n n C20 C21 07I doub 31 z n O4 C22 07I sing 32 n n C22 C21 07I sing 33 n n C22 C23 07I sing 34 n n C1 H1 07I sing 35 n n C5 H5 07I sing 36 n n C6 H6 07I sing 37 n n C6 H7 07I sing 38 n n C7 H8 07I sing 39 n n C9 H9 07I sing 40 n n C9 H10 07I sing 41 n n C9 H11 07I sing 42 n n C10 H12 07I sing 43 n n N H13 07I sing 44 n n C H14 07I sing 45 n n C H15 07I sing 46 n n C H16 07I sing 47 n n C11 H17 07I sing 48 n n C12 H18 07I sing 49 n n C13 H19 07I sing 50 n n C13 H20 07I sing 51 n n C15 H21 07I sing 52 n n C17 H22 07I sing 53 n n C17 H23 07I sing 54 n n C17 H24 07I sing 55 n n C18 H25 07I sing 56 n n C18 H26 07I sing 57 n n C18 H27 07I sing 58 n n C20 H28 07I sing 59 n n C21 H29 07I sing 60 n n C22 H30 07I sing 61 n n C23 H31 07I sing 62 n n C23 H32 07I sing 63 n n C23 H33 07I sing 64 n n C25 H34 07I sing 65 n n C25 H35 07I sing 66 n n C25 H36 07I sing 67 n n C2 H2 07I sing 68 n n C2 H3 07I sing 69 n n C3 H4 07I sing 70 n n C4 H37 07I sing 71 n n # _atom_sites.entry_id 7OPI _atom_sites.fract_transf_matrix[1][1] 0.009566 _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] 0.009235 _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] 0.003949 _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 E 5 07I C 1 1401 1401 07I SSE . F 6 ZN D 1 101 1 ZN ZN . G 6 ZN D 1 102 2 ZN ZN . H 6 ZN D 1 103 3 ZN ZN . # 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 C1 07I . . . E 5 -16.542 42.954 -35.785 1 112.75 ? C1 07I 1401 C 1 HETATM 2 O O1 07I . . . E 5 -12.144 49.828 -41.483 0 133.4 ? O1 07I 1401 C 1 HETATM 3 C C2 07I . . . E 5 -16.826 42.114 -34.54 1 109.43 ? C2 07I 1401 C 1 HETATM 4 O O2 07I . . . E 5 -14.086 48.937 -41.005 0 132.43 ? O2 07I 1401 C 1 HETATM 5 C C3 07I . . . E 5 -17.119 42.92 -33.266 1 111.84 ? C3 07I 1401 C 1 HETATM 6 C C5 07I . . . E 5 -17.453 44.174 -35.755 1 123.08 ? C5 07I 1401 C 1 HETATM 7 C C6 07I . . . E 5 -17.7 44.805 -37.126 0 124.93 ? C6 07I 1401 C 1 HETATM 8 C C7 07I . . . E 5 -16.825 45.978 -37.46 0 127.57 ? C7 07I 1401 C 1 HETATM 9 C C8 07I . . . E 5 -16.828 46.401 -38.726 0 129.83 ? C8 07I 1401 C 1 HETATM 10 C C9 07I . . . E 5 -17.625 45.706 -39.794 0 128.87 ? C9 07I 1401 C 1 HETATM 11 C C10 07I . . . E 5 -16.103 47.598 -39.111 0 131.56 ? C10 07I 1401 C 1 HETATM 12 N N 07I . . . E 5 -16.121 42.638 -32.24 1 116.75 ? N 07I 1401 C 1 HETATM 13 C C 07I . . . E 5 -15.064 43.321 -35.88 1 108.95 ? C 07I 1401 C 1 HETATM 14 O O 07I . . . E 5 -17.074 45.047 -34.684 1 124.6 ? O 07I 1401 C 1 HETATM 15 C C11 07I . . . E 5 -16.188 48.024 -40.358 0 131.64 ? C11 07I 1401 C 1 HETATM 16 C C12 07I . . . E 5 -15.519 49.242 -40.913 0 132.28 ? C12 07I 1401 C 1 HETATM 17 C C13 07I . . . E 5 -16.119 49.452 -42.305 0 132.34 ? C13 07I 1401 C 1 HETATM 18 C C14 07I . . . E 5 -15.218 50.268 -43.183 0 133.41 ? C14 07I 1401 C 1 HETATM 19 C C15 07I . . . E 5 -13.92 50.383 -42.902 0 133.8 ? C15 07I 1401 C 1 HETATM 20 C C16 07I . . . E 5 -13.309 49.722 -41.782 0 133.09 ? C16 07I 1401 C 1 HETATM 21 C C17 07I . . . E 5 -15.856 50.95 -44.36 0 134.98 ? C17 07I 1401 C 1 HETATM 22 C C18 07I . . . E 5 -16.622 45.255 -32.365 1 110.99 ? C18 07I 1401 C 1 HETATM 23 C C19 07I . . . E 5 -15.993 41.431 -31.664 1 115.4 ? C19 07I 1401 C 1 HETATM 24 C C20 07I . . . E 5 -14.804 41.281 -30.794 1 110.17 ? C20 07I 1401 C 1 HETATM 25 C C21 07I . . . E 5 -14.419 40.197 -30.139 1 113.49 ? C21 07I 1401 C 1 HETATM 26 C C22 07I . . . E 5 -15.087 38.856 -30.194 1 116.94 ? C22 07I 1401 C 1 HETATM 27 C C23 07I . . . E 5 -15.737 38.44 -28.894 1 101.58 ? C23 07I 1401 C 1 HETATM 28 C C24 07I . . . E 5 -13.624 37.749 -31.769 1 108.53 ? C24 07I 1401 C 1 HETATM 29 C C25 07I . . . E 5 -12.634 36.643 -31.914 1 97.94 ? C25 07I 1401 C 1 HETATM 30 C C4 07I . . . E 5 -17.34 44.43 -33.407 1 116.62 ? C4 07I 1401 C 1 HETATM 31 O O3 07I . . . E 5 -16.825 40.529 -31.841 1 116.72 ? O3 07I 1401 C 1 HETATM 32 O O4 07I . . . E 5 -14.047 37.857 -30.491 1 125.79 ? O4 07I 1401 C 1 HETATM 33 O O5 07I . . . E 5 -14.013 38.458 -32.65 0 108.56 ? O5 07I 1401 C 1 # _model_server_stats.io_time_ms 109 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 14 _model_server_stats.element_count 33 #