data_3QCM # _model_server_result.job_id o4elzf1VuxlWmAIqpiZoAQ _model_server_result.datetime_utc '2025-08-01 10:57:41' _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 3qcm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":2001}' # _entry.id 3QCM # _exptl.entry_id 3QCM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 542.477 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-[(3,4-dichlorobenzyl)sulfanyl]-4-{[3-({N-[2-(methylamino)ethyl]glycyl}amino)phenyl]ethynyl}benzoic acid' _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 98.3 _cell.angle_gamma 90 _cell.entry_id 3QCM _cell.length_a 59.6 _cell.length_b 74.6 _cell.length_c 81.9 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QCM _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_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,C,D,G 1 1 B,E,F,H 2 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 ? 2 C N N ? 2 E N N # _chem_comp.formula 'C27 H25 Cl2 N3 O3 S' _chem_comp.formula_weight 542.477 _chem_comp.id NXW _chem_comp.mon_nstd_flag . _chem_comp.name '2-[(3,4-dichlorobenzyl)sulfanyl]-4-{[3-({N-[2-(methylamino)ethyl]glycyl}amino)phenyl]ethynyl}benzoic acid' _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 C2 C1 NXW trip 262 n n C1 C13 NXW sing 263 n n C14 C2 NXW sing 264 n n C4 C3 NXW doub 265 n y C8 C3 NXW sing 266 n y C3 H3 NXW sing 267 n n C13 C4 NXW sing 268 n y C4 H4 NXW sing 269 n n C6 C5 NXW doub 270 n y C5 C14 NXW sing 271 n y C5 H5 NXW sing 272 n n C6 C15 NXW sing 273 n y C6 H6 NXW sing 274 n n C16 C7 NXW doub 275 n y C7 C9 NXW sing 276 n y C7 H7 NXW sing 277 n n C17 C8 NXW doub 278 n y C8 H8 NXW sing 279 n n C9 C19 NXW doub 280 n y C9 H9 NXW sing 281 n n C10 C13 NXW doub 282 n y C10 C17 NXW sing 283 n y C10 H10 NXW sing 284 n n C18 C11 NXW sing 285 n y C14 C11 NXW doub 286 n y C11 H11 NXW sing 287 n n C16 C12 NXW sing 288 n y C12 C20 NXW doub 289 n y C12 H12 NXW sing 290 n n C21 C15 NXW sing 291 n n C15 C18 NXW doub 292 n y C24 C16 NXW sing 293 n n N28 C17 NXW sing 294 n n C18 S34 NXW sing 295 n n C20 C19 NXW sing 296 n y C19 CL35 NXW sing 297 n n C20 CL36 NXW sing 298 n n O31 C21 NXW doub 299 n n O33 C21 NXW sing 300 n n O32 C22 NXW doub 301 n n C25 C22 NXW sing 302 n n C22 N28 NXW sing 303 n n N29 C23 NXW sing 304 n n C23 H23 NXW sing 305 n n C23 H23A NXW sing 306 n n C23 H23B NXW sing 307 n n S34 C24 NXW sing 308 n n C24 H24 NXW sing 309 n n C24 H24A NXW sing 310 n n N30 C25 NXW sing 311 n n C25 H25 NXW sing 312 n n C25 H25A NXW sing 313 n n N29 C26 NXW sing 314 n n C26 C27 NXW sing 315 n n C26 H26 NXW sing 316 n n C26 H26A NXW sing 317 n n C27 N30 NXW sing 318 n n C27 H27 NXW sing 319 n n C27 H27A NXW sing 320 n n N28 HN28 NXW sing 321 n n N29 HN29 NXW sing 322 n n N30 HN30 NXW sing 323 n n O33 HO33 NXW sing 324 n n # _atom_sites.entry_id 3QCM _atom_sites.fract_transf_matrix[1][1] 0.016779 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002448 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013405 _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] 0.012339 _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 NXW A 1 2001 2001 NXW NXW . D 3 MES A 1 2051 2051 MES MES . E 2 NXW B 1 2001 2001 NXW NXW . F 3 MES B 1 2051 2051 MES MES . G 4 HOH A 1 2101 2101 HOH HOH . G 4 HOH A 2 2102 2102 HOH HOH . G 4 HOH A 3 2103 2103 HOH HOH . G 4 HOH A 4 2104 2104 HOH HOH . G 4 HOH A 5 2105 2105 HOH HOH . G 4 HOH A 6 2106 2106 HOH HOH . G 4 HOH A 7 2107 2107 HOH HOH . G 4 HOH A 8 2108 2108 HOH HOH . G 4 HOH A 9 2109 2109 HOH HOH . G 4 HOH A 10 2110 2110 HOH HOH . G 4 HOH A 11 2111 2111 HOH HOH . G 4 HOH A 12 2112 2112 HOH HOH . G 4 HOH A 13 2113 2113 HOH HOH . G 4 HOH A 14 2114 2114 HOH HOH . G 4 HOH A 15 2115 2115 HOH HOH . G 4 HOH A 16 2116 2116 HOH HOH . G 4 HOH A 17 2117 2117 HOH HOH . G 4 HOH A 18 2118 2118 HOH HOH . G 4 HOH A 19 2119 2119 HOH HOH . G 4 HOH A 20 2120 2120 HOH HOH . G 4 HOH A 21 2121 2121 HOH HOH . G 4 HOH A 22 2122 2122 HOH HOH . G 4 HOH A 23 2123 2123 HOH HOH . G 4 HOH A 24 2124 2124 HOH HOH . G 4 HOH A 25 2125 2125 HOH HOH . G 4 HOH A 26 2126 2126 HOH HOH . G 4 HOH A 27 2127 2127 HOH HOH . G 4 HOH A 28 2128 2128 HOH HOH . G 4 HOH A 29 2129 2129 HOH HOH . G 4 HOH A 30 2130 2130 HOH HOH . G 4 HOH A 31 2131 2131 HOH HOH . G 4 HOH A 32 2132 2132 HOH HOH . G 4 HOH A 33 2133 2133 HOH HOH . G 4 HOH A 34 2134 2134 HOH HOH . G 4 HOH A 35 2135 2135 HOH HOH . G 4 HOH A 36 2136 2136 HOH HOH . G 4 HOH A 37 2137 2137 HOH HOH . G 4 HOH A 38 2138 2138 HOH HOH . G 4 HOH A 39 2139 2139 HOH HOH . G 4 HOH A 40 2140 2140 HOH HOH . G 4 HOH A 41 2141 2141 HOH HOH . G 4 HOH A 42 2142 2142 HOH HOH . G 4 HOH A 43 2143 2143 HOH HOH . G 4 HOH A 44 2144 2144 HOH HOH . G 4 HOH A 45 2145 2145 HOH HOH . G 4 HOH A 46 2146 2146 HOH HOH . G 4 HOH A 47 2147 2147 HOH HOH . G 4 HOH A 48 2148 2148 HOH HOH . G 4 HOH A 49 2149 2149 HOH HOH . G 4 HOH A 50 2150 2150 HOH HOH . G 4 HOH A 51 2151 2151 HOH HOH . G 4 HOH A 52 2152 2152 HOH HOH . G 4 HOH A 53 2153 2153 HOH HOH . G 4 HOH A 54 2154 2154 HOH HOH . G 4 HOH A 55 2155 2155 HOH HOH . G 4 HOH A 56 2156 2156 HOH HOH . G 4 HOH A 57 2157 2157 HOH HOH . G 4 HOH A 58 2158 2158 HOH HOH . G 4 HOH A 59 2159 2159 HOH HOH . G 4 HOH A 60 2160 2160 HOH HOH . G 4 HOH A 61 2161 2161 HOH HOH . G 4 HOH A 62 2162 2162 HOH HOH . G 4 HOH A 63 2163 2163 HOH HOH . G 4 HOH A 64 2164 2164 HOH HOH . H 4 HOH B 1 2101 2101 HOH HOH . H 4 HOH B 2 2102 2102 HOH HOH . H 4 HOH B 3 2103 2103 HOH HOH . H 4 HOH B 4 2104 2104 HOH HOH . H 4 HOH B 5 2105 2105 HOH HOH . H 4 HOH B 6 2106 2106 HOH HOH . H 4 HOH B 7 2107 2107 HOH HOH . H 4 HOH B 8 2108 2108 HOH HOH . H 4 HOH B 9 2109 2109 HOH HOH . H 4 HOH B 10 2110 2110 HOH HOH . H 4 HOH B 11 2111 2111 HOH HOH . H 4 HOH B 12 2112 2112 HOH HOH . H 4 HOH B 13 2113 2113 HOH HOH . H 4 HOH B 14 2114 2114 HOH HOH . H 4 HOH B 15 2115 2115 HOH HOH . H 4 HOH B 16 2116 2116 HOH HOH . H 4 HOH B 17 2117 2117 HOH HOH . H 4 HOH B 18 2118 2118 HOH HOH . H 4 HOH B 19 2119 2119 HOH HOH . H 4 HOH B 20 2120 2120 HOH HOH . H 4 HOH B 21 2121 2121 HOH HOH . H 4 HOH B 22 2122 2122 HOH HOH . H 4 HOH B 23 2123 2123 HOH HOH . H 4 HOH B 24 2124 2124 HOH HOH . H 4 HOH B 25 2125 2125 HOH HOH . H 4 HOH B 26 2126 2126 HOH HOH . H 4 HOH B 27 2127 2127 HOH HOH . H 4 HOH B 28 2128 2128 HOH HOH . H 4 HOH B 29 2129 2129 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 C1 NXW . . . C 2 23.656 26.308 24.57 1 52.67 ? C1 NXW 2001 A 1 HETATM 2 C C2 NXW . . . C 2 23.161 26.431 25.663 1 47.03 ? C2 NXW 2001 A 1 HETATM 3 C C3 NXW . . . C 2 26.156 25.998 21.832 1 59.2 ? C3 NXW 2001 A 1 HETATM 4 C C4 NXW . . . C 2 25.611 26.109 23.11 1 57.23 ? C4 NXW 2001 A 1 HETATM 5 C C5 NXW . . . C 2 21.276 27.112 27.036 1 46.82 ? C5 NXW 2001 A 1 HETATM 6 C C6 NXW . . . C 2 20.644 27.211 28.272 1 48.45 ? C6 NXW 2001 A 1 HETATM 7 C C7 NXW . . . C 2 26.232 26.827 32.591 1 48.14 ? C7 NXW 2001 A 1 HETATM 8 C C8 NXW . . . C 2 25.32 25.947 20.711 1 60.98 ? C8 NXW 2001 A 1 HETATM 9 C C9 NXW . . . C 2 26.975 26.579 33.76 1 47.47 ? C9 NXW 2001 A 1 HETATM 10 C C10 NXW . . . C 2 23.382 26.114 22.144 1 58.65 ? C10 NXW 2001 A 1 HETATM 11 C C11 NXW . . . C 2 23.185 26.033 28.073 1 45.88 ? C11 NXW 2001 A 1 HETATM 12 C C12 NXW . . . C 2 26.206 24.467 32.068 1 47.8 ? C12 NXW 2001 A 1 HETATM 13 C C13 NXW . . . C 2 24.223 26.167 23.262 1 55.96 ? C13 NXW 2001 A 1 HETATM 14 C C14 NXW . . . C 2 22.543 26.531 26.939 1 45.97 ? C14 NXW 2001 A 1 HETATM 15 C C15 NXW . . . C 2 21.281 26.704 29.407 1 51.12 ? C15 NXW 2001 A 1 HETATM 16 C C16 NXW . . . C 2 25.864 25.768 31.764 1 46.73 ? C16 NXW 2001 A 1 HETATM 17 C C17 NXW . . . C 2 23.926 26.006 20.86 1 62.66 ? C17 NXW 2001 A 1 HETATM 18 C C18 NXW . . . C 2 22.557 26.132 29.322 1 48.84 ? C18 NXW 2001 A 1 HETATM 19 C C19 NXW . . . C 2 27.33 25.264 34.073 1 47.47 ? C19 NXW 2001 A 1 HETATM 20 C C20 NXW . . . C 2 26.94 24.227 33.23 1 49.39 ? C20 NXW 2001 A 1 HETATM 21 C C21 NXW . . . C 2 20.616 26.828 30.685 1 54.51 ? C21 NXW 2001 A 1 HETATM 22 C C22 NXW . . . C 2 21.702 25.983 19.631 1 73.4 ? C22 NXW 2001 A 1 HETATM 23 C C23 NXW . . . C 2 16.795 23.427 16.995 1 88.62 ? C23 NXW 2001 A 1 HETATM 24 C C24 NXW . . . C 2 25.072 26.017 30.527 1 46.57 ? C24 NXW 2001 A 1 HETATM 25 C C25 NXW . . . C 2 21.256 25.895 18.181 1 77.34 ? C25 NXW 2001 A 1 HETATM 26 C C26 NXW . . . C 2 18.632 24.32 18.302 1 86.45 ? C26 NXW 2001 A 1 HETATM 27 C C27 NXW . . . C 2 18.997 25.496 17.396 1 83.98 ? C27 NXW 2001 A 1 HETATM 28 N N28 NXW . . . C 2 23.102 25.944 19.731 1 66.91 ? N28 NXW 2001 A 1 HETATM 29 N N29 NXW . . . C 2 17.22 24.004 18.275 1 88.7 ? N29 NXW 2001 A 1 HETATM 30 N N30 NXW . . . C 2 19.931 26.45 18.001 1 80.62 ? N30 NXW 2001 A 1 HETATM 31 O O31 NXW . . . C 2 20.918 27.687 31.51 1 59.42 ? O31 NXW 2001 A 1 HETATM 32 O O32 NXW . . . C 2 20.903 26.075 20.552 1 75.97 ? O32 NXW 2001 A 1 HETATM 33 O O33 NXW . . . C 2 19.655 25.903 30.908 1 54.82 ? O33 NXW 2001 A 1 HETATM 34 S S34 NXW . . . C 2 23.377 25.48 30.791 1 45.51 ? S34 NXW 2001 A 1 HETATM 35 CL CL35 NXW . . . C 2 28.254 24.926 35.497 1 44.97 ? CL35 NXW 2001 A 1 HETATM 36 CL CL36 NXW . . . C 2 27.381 22.616 33.595 1 49.93 ? CL36 NXW 2001 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 36 #