data_7WMV # _model_server_result.job_id VOxbOpoM05D6P0sl23qEyg _model_server_result.datetime_utc '2024-11-26 21:59:36' _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 7wmv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 7WMV # _exptl.entry_id 7WMV _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 601.797 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[2-(dimethylamino)ethyl]-2-methyl-2-[4-[4-[[2-methyl-5-[(2S,3R,4R,5S,6R)-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]phenyl]methyl]phenyl]butanoylamino]propanamide _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_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 ? _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 C _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 disulf ? disulf1 A SG CYS 255 A CYS 255 1_555 A SG CYS 511 A CYS 511 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 345 A CYS 345 1_555 A SG CYS 351 A CYS 351 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf3 A SG CYS 517 A CYS 517 1_555 A SG CYS 522 A CYS 522 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? # _chem_comp.formula 'C32 H47 N3 O6 S' _chem_comp.formula_weight 601.797 _chem_comp.id 1YI _chem_comp.mon_nstd_flag . _chem_comp.name N-[2-(dimethylamino)ethyl]-2-methyl-2-[4-[4-[[2-methyl-5-[(2S,3R,4R,5S,6R)-6-methylsulfanyl-3,4,5-tris(oxidanyl)oxan-2-yl]phenyl]methyl]phenyl]butanoylamino]propanamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms LX2761 # 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 C22 C24 1YI sing 1 n n C22 C19 1YI sing 2 n n C28 C24 1YI doub 3 n y C28 C33 1YI sing 4 n y C24 C27 1YI sing 5 n y C25 C20 1YI sing 6 n n C33 C29 1YI doub 7 n y C19 C20 1YI doub 8 n y C19 C17 1YI sing 9 n y O3 C11 1YI sing 10 n n C20 C21 1YI sing 11 n y C17 C16 1YI doub 12 n y C27 C32 1YI doub 13 n y C29 C32 1YI sing 14 n y C29 C30 1YI sing 15 n n C21 C18 1YI doub 16 n y C16 C18 1YI sing 17 n y C16 C12 1YI sing 18 n n C30 C31 1YI sing 19 n n C11 C12 1YI sing 20 n n C11 C13 1YI sing 21 n n C31 C34 1YI sing 22 n n O6 C35 1YI doub 23 n n O4 C13 1YI sing 24 n n C12 O2 1YI sing 25 n n C13 C14 1YI sing 26 n n C38 C26 1YI sing 27 n n C34 C35 1YI sing 28 n n C35 N8 1YI sing 29 n n O2 C15 1YI sing 30 n n N8 C26 1YI sing 31 n n C14 C15 1YI sing 32 n n C14 O5 1YI sing 33 n n C26 C37 1YI sing 34 n n C26 C36 1YI sing 35 n n C15 S1 1YI sing 36 n n N9 C36 1YI sing 37 n n C36 O7 1YI doub 38 n n S1 C23 1YI sing 39 n n C13 H1 1YI sing 40 n n C15 H2 1YI sing 41 n n C17 H3 1YI sing 42 n n C21 H4 1YI sing 43 n n C22 H5 1YI sing 44 n n C22 H6 1YI sing 45 n n C28 H7 1YI sing 46 n n C11 H8 1YI sing 47 n n C12 H9 1YI sing 48 n n C14 H10 1YI sing 49 n n C18 H11 1YI sing 50 n n C23 H12 1YI sing 51 n n C23 H13 1YI sing 52 n n C23 H14 1YI sing 53 n n C25 H15 1YI sing 54 n n C25 H16 1YI sing 55 n n C25 H17 1YI sing 56 n n C27 H18 1YI sing 57 n n C30 H19 1YI sing 58 n n C30 H20 1YI sing 59 n n C31 H21 1YI sing 60 n n C31 H22 1YI sing 61 n n C32 H23 1YI sing 62 n n C33 H24 1YI sing 63 n n C34 H25 1YI sing 64 n n C34 H26 1YI sing 65 n n C37 H27 1YI sing 66 n n C37 H28 1YI sing 67 n n C37 H29 1YI sing 68 n n C38 H30 1YI sing 69 n n C38 H31 1YI sing 70 n n C38 H32 1YI sing 71 n n N8 H33 1YI sing 72 n n N9 H34 1YI sing 73 n n O3 H36 1YI sing 74 n n O4 H37 1YI sing 75 n n O5 H38 1YI sing 76 n n N9 C39 1YI sing 77 n n C39 C40 1YI sing 78 n n C40 N41 1YI sing 79 n n N41 C42 1YI sing 80 n n N41 C43 1YI sing 81 n n C39 H35 1YI sing 82 n n C39 H39 1YI sing 83 n n C40 H40 1YI sing 84 n n C40 H41 1YI sing 85 n n C42 H42 1YI sing 86 n n C42 H43 1YI sing 87 n n C42 H44 1YI sing 88 n n C43 H45 1YI sing 89 n n C43 H46 1YI sing 90 n n C43 H47 1YI sing 91 n n # _atom_sites.entry_id 7WMV _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id 1YI _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 701 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id 1YI _pdbx_nonpoly_scheme.auth_mon_id LIG _pdbx_nonpoly_scheme.pdb_ins_code . # 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 C13 1YI . . . C 3 106.585 114.218 112.698 1 74.13 ? C13 1YI 701 A 1 HETATM 2 C C15 1YI . . . C 3 106.05 112.633 114.547 1 102.13 ? C15 1YI 701 A 1 HETATM 3 C C17 1YI . . . C 3 104.024 111.14 110.766 1 89.07 ? C17 1YI 701 A 1 HETATM 4 C C20 1YI . . . C 3 103.626 108.779 110.527 1 83 ? C20 1YI 701 A 1 HETATM 5 C C21 1YI . . . C 3 104.626 108.507 111.437 1 84.86 ? C21 1YI 701 A 1 HETATM 6 C C22 1YI . . . C 3 102.234 110.466 109.205 1 85.32 ? C22 1YI 701 A 1 HETATM 7 C C24 1YI . . . C 3 100.911 110.073 109.846 1 66.83 ? C24 1YI 701 A 1 HETATM 8 C C26 1YI . . . C 3 92.545 108.407 114.139 1 95.68 ? C26 1YI 701 A 1 HETATM 9 C C28 1YI . . . C 3 100.141 109.053 109.319 1 63.43 ? C28 1YI 701 A 1 HETATM 10 C C11 1YI . . . C 3 105.694 113.343 111.806 1 75.91 ? C11 1YI 701 A 1 HETATM 11 C C12 1YI . . . C 3 105.84 111.929 112.354 1 91.76 ? C12 1YI 701 A 1 HETATM 12 C C14 1YI . . . C 3 105.99 114.087 114.099 1 85.43 ? C14 1YI 701 A 1 HETATM 13 C C16 1YI . . . C 3 105.029 110.853 111.663 1 99.03 ? C16 1YI 701 A 1 HETATM 14 C C18 1YI . . . C 3 105.319 109.548 112.006 1 100.47 ? C18 1YI 701 A 1 HETATM 15 C C19 1YI . . . C 3 103.333 110.096 110.188 1 81.96 ? C19 1YI 701 A 1 HETATM 16 C C23 1YI . . . C 3 104.801 110.649 116.2 1 88.38 ? C23 1YI 701 A 1 HETATM 17 C C25 1YI . . . C 3 102.892 107.59 109.921 1 99.79 ? C25 1YI 701 A 1 HETATM 18 C C27 1YI . . . C 3 100.517 110.745 110.979 1 88.8 ? C27 1YI 701 A 1 HETATM 19 C C29 1YI . . . C 3 98.556 109.383 111.08 1 77.66 ? C29 1YI 701 A 1 HETATM 20 C C30 1YI . . . C 3 97.245 109.006 111.756 1 83.68 ? C30 1YI 701 A 1 HETATM 21 C C31 1YI . . . C 3 97.108 107.503 111.935 1 85.27 ? C31 1YI 701 A 1 HETATM 22 C C32 1YI . . . C 3 99.328 110.41 111.602 1 90.75 ? C32 1YI 701 A 1 HETATM 23 C C33 1YI . . . C 3 98.954 108.713 109.937 1 76.18 ? C33 1YI 701 A 1 HETATM 24 C C34 1YI . . . C 3 96.107 107.127 113.039 1 98.03 ? C34 1YI 701 A 1 HETATM 25 C C35 1YI . . . C 3 94.78 107.913 113.042 1 92.89 ? C35 1YI 701 A 1 HETATM 26 C C36 1YI . . . C 3 91.696 107.883 115.298 1 113.05 ? C36 1YI 701 A 1 HETATM 27 C C37 1YI . . . C 3 92.889 109.868 114.425 1 87.9 ? C37 1YI 701 A 1 HETATM 28 C C38 1YI . . . C 3 91.711 108.277 112.861 1 77.85 ? C38 1YI 701 A 1 HETATM 29 N N8 1YI . . . C 3 93.804 107.673 114.094 1 93.06 ? N8 1YI 701 A 1 HETATM 30 N N9 1YI . . . C 3 90.968 106.633 115.149 1 106 ? N9 1YI 701 A 1 HETATM 31 O O2 1YI . . . C 3 105.306 111.885 113.648 1 99.43 ? O2 1YI 701 A 1 HETATM 32 O O3 1YI . . . C 3 106.05 113.444 110.457 1 80.66 ? O3 1YI 701 A 1 HETATM 33 O O4 1YI . . . C 3 106.56 115.552 112.284 1 86.11 ? O4 1YI 701 A 1 HETATM 34 O O5 1YI . . . C 3 106.634 114.878 115.05 1 99.48 ? O5 1YI 701 A 1 HETATM 35 O O6 1YI . . . C 3 94.512 108.703 112.208 1 84.41 ? O6 1YI 701 A 1 HETATM 36 O O7 1YI . . . C 3 91.625 108.487 116.316 1 101.67 ? O7 1YI 701 A 1 HETATM 37 S S1 1YI . . . C 3 105.267 112.404 116.16 1 121.62 ? S1 1YI 701 A 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 37 #