data_6VQN # _model_server_result.job_id WqHyOaiRBkE4xyIgowKBVA _model_server_result.datetime_utc '2025-03-06 01:07:35' _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 6vqn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 6VQN # _exptl.entry_id 6VQN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 568.666 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N,N'-(2,2'-dimethyl[1,1'-biphenyl]-3,3'-diyl)bis(5-{[(2-hydroxyethyl)amino]methyl}pyridine-2-carboxamide)" _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 90 _cell.angle_gamma 90 _cell.entry_id 6VQN _cell.length_a 99.003 _cell.length_b 172.173 _cell.length_c 80.585 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VQN _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_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,D,F,G 1 1 C,E,H 2 1,2 # 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' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 D N N ? 2 E N 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 24 A CYS 40 1_555 A SG CYS 98 A CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf2 B SG CYS 24 B CYS 40 1_555 B SG CYS 98 B CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? disulf ? disulf3 C SG CYS 24 C CYS 40 1_555 C SG CYS 98 C CYS 114 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? covale ? covale1 E C R81 . C R81 201 1_555 E C R81 . C R81 201 4_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 sing # _chem_comp.formula 'C32 H36 N6 O4' _chem_comp.formula_weight 568.666 _chem_comp.id R81 _chem_comp.mon_nstd_flag . _chem_comp.name "N,N'-(2,2'-dimethyl[1,1'-biphenyl]-3,3'-diyl)bis(5-{[(2-hydroxyethyl)amino]methyl}pyridine-2-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 O1 C15 R81 sing 277 n n C15 C14 R81 sing 278 n n C14 N2 R81 sing 279 n n N2 C13 R81 sing 280 n n C13 C11 R81 sing 281 n n C11 C10 R81 doub 282 n y C11 C12 R81 sing 283 n y C10 C9 R81 sing 284 n y C12 N1 R81 doub 285 n y C9 C8 R81 doub 286 n y N1 C8 R81 sing 287 n y C8 C7 R81 sing 288 n n C7 O R81 doub 289 n n C7 N R81 sing 290 n n C6 C5 R81 sing 291 n n N C4 R81 sing 292 n n C30 C31 R81 doub 293 n y C30 C29 R81 sing 294 n y C4 C5 R81 doub 295 n y C4 C3 R81 sing 296 n y C5 C R81 sing 297 n y C31 C16 R81 sing 298 n y C29 C19 R81 doub 299 n y C3 C2 R81 doub 300 n y C C16 R81 sing 301 n n C C1 R81 doub 302 n y C16 C17 R81 doub 303 n y C2 C1 R81 sing 304 n y C19 C17 R81 sing 305 n y C19 N3 R81 sing 306 n n C17 C18 R81 sing 307 n n N3 C20 R81 sing 308 n n O2 C20 R81 doub 309 n n C20 C21 R81 sing 310 n n C21 N4 R81 doub 311 n y C21 C22 R81 sing 312 n y N4 C25 R81 sing 313 n y C22 C23 R81 doub 314 n y C25 C24 R81 doub 315 n y C23 C24 R81 sing 316 n y C24 C26 R81 sing 317 n n C26 N5 R81 sing 318 n n N5 C27 R81 sing 319 n n C27 C28 R81 sing 320 n n C28 O3 R81 sing 321 n n C14 H1 R81 sing 322 n n C14 H2 R81 sing 323 n n C2 H3 R81 sing 324 n n C6 H4 R81 sing 325 n n C6 H5 R81 sing 326 n n C6 H6 R81 sing 327 n n N3 H7 R81 sing 328 n n C15 H8 R81 sing 329 n n C15 H9 R81 sing 330 n n C13 H10 R81 sing 331 n n C13 H11 R81 sing 332 n n C18 H12 R81 sing 333 n n C18 H13 R81 sing 334 n n C18 H14 R81 sing 335 n n C9 H15 R81 sing 336 n n C10 H16 R81 sing 337 n n N2 H17 R81 sing 338 n n O1 H19 R81 sing 339 n n C12 H20 R81 sing 340 n n N H21 R81 sing 341 n n C3 H22 R81 sing 342 n n C1 H23 R81 sing 343 n n C31 H24 R81 sing 344 n n C30 H25 R81 sing 345 n n C29 H26 R81 sing 346 n n C22 H27 R81 sing 347 n n C23 H28 R81 sing 348 n n C25 H29 R81 sing 349 n n C26 H30 R81 sing 350 n n C26 H31 R81 sing 351 n n N5 H32 R81 sing 352 n n C27 H34 R81 sing 353 n n C27 H35 R81 sing 354 n n C28 H36 R81 sing 355 n n C28 H37 R81 sing 356 n n O3 H38 R81 sing 357 n n # _atom_sites.entry_id 6VQN _atom_sites.fract_transf_matrix[1][1] 0.010101 _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] 0.005808 _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] 0.012409 _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 D 2 R81 B 1 201 1 R81 572 . E 2 R81 C 1 201 2 R81 572 . F 3 HOH A 1 201 41 HOH HOH . F 3 HOH A 2 202 105 HOH HOH . F 3 HOH A 3 203 9 HOH HOH . F 3 HOH A 4 204 26 HOH HOH . F 3 HOH A 5 205 54 HOH HOH . F 3 HOH A 6 206 47 HOH HOH . F 3 HOH A 7 207 125 HOH HOH . F 3 HOH A 8 208 34 HOH HOH . F 3 HOH A 9 209 38 HOH HOH . F 3 HOH A 10 210 81 HOH HOH . F 3 HOH A 11 211 4 HOH HOH . F 3 HOH A 12 212 51 HOH HOH . F 3 HOH A 13 213 118 HOH HOH . F 3 HOH A 14 214 59 HOH HOH . F 3 HOH A 15 215 42 HOH HOH . F 3 HOH A 16 216 75 HOH HOH . F 3 HOH A 17 217 2 HOH HOH . F 3 HOH A 18 218 77 HOH HOH . F 3 HOH A 19 219 128 HOH HOH . F 3 HOH A 20 220 133 HOH HOH . F 3 HOH A 21 221 48 HOH HOH . F 3 HOH A 22 222 115 HOH HOH . F 3 HOH A 23 223 53 HOH HOH . F 3 HOH A 24 224 67 HOH HOH . F 3 HOH A 25 225 20 HOH HOH . F 3 HOH A 26 226 65 HOH HOH . F 3 HOH A 27 227 73 HOH HOH . F 3 HOH A 28 228 96 HOH HOH . F 3 HOH A 29 229 13 HOH HOH . F 3 HOH A 30 230 120 HOH HOH . F 3 HOH A 31 231 39 HOH HOH . F 3 HOH A 32 232 104 HOH HOH . F 3 HOH A 33 233 111 HOH HOH . F 3 HOH A 34 234 117 HOH HOH . F 3 HOH A 35 235 130 HOH HOH . F 3 HOH A 36 236 50 HOH HOH . F 3 HOH A 37 237 138 HOH HOH . F 3 HOH A 38 238 5 HOH HOH . F 3 HOH A 39 239 74 HOH HOH . F 3 HOH A 40 240 14 HOH HOH . F 3 HOH A 41 241 106 HOH HOH . G 3 HOH B 1 301 66 HOH HOH . G 3 HOH B 2 302 62 HOH HOH . G 3 HOH B 3 303 89 HOH HOH . G 3 HOH B 4 304 35 HOH HOH . G 3 HOH B 5 305 137 HOH HOH . G 3 HOH B 6 306 29 HOH HOH . G 3 HOH B 7 307 90 HOH HOH . G 3 HOH B 8 308 17 HOH HOH . G 3 HOH B 9 309 134 HOH HOH . G 3 HOH B 10 310 116 HOH HOH . G 3 HOH B 11 311 11 HOH HOH . G 3 HOH B 12 312 32 HOH HOH . G 3 HOH B 13 313 37 HOH HOH . G 3 HOH B 14 314 18 HOH HOH . G 3 HOH B 15 315 15 HOH HOH . G 3 HOH B 16 316 22 HOH HOH . G 3 HOH B 17 317 12 HOH HOH . G 3 HOH B 18 318 33 HOH HOH . G 3 HOH B 19 319 119 HOH HOH . G 3 HOH B 20 320 121 HOH HOH . G 3 HOH B 21 321 10 HOH HOH . G 3 HOH B 22 322 103 HOH HOH . G 3 HOH B 23 323 25 HOH HOH . G 3 HOH B 24 324 40 HOH HOH . G 3 HOH B 25 325 100 HOH HOH . G 3 HOH B 26 326 70 HOH HOH . G 3 HOH B 27 327 6 HOH HOH . G 3 HOH B 28 328 76 HOH HOH . G 3 HOH B 29 329 44 HOH HOH . G 3 HOH B 30 330 7 HOH HOH . G 3 HOH B 31 331 95 HOH HOH . G 3 HOH B 32 332 85 HOH HOH . G 3 HOH B 33 333 58 HOH HOH . G 3 HOH B 34 334 71 HOH HOH . G 3 HOH B 35 335 124 HOH HOH . G 3 HOH B 36 336 24 HOH HOH . G 3 HOH B 37 337 110 HOH HOH . G 3 HOH B 38 338 80 HOH HOH . G 3 HOH B 39 339 139 HOH HOH . G 3 HOH B 40 340 72 HOH HOH . G 3 HOH B 41 341 46 HOH HOH . G 3 HOH B 42 342 45 HOH HOH . G 3 HOH B 43 343 123 HOH HOH . G 3 HOH B 44 344 27 HOH HOH . G 3 HOH B 45 345 107 HOH HOH . G 3 HOH B 46 346 84 HOH HOH . G 3 HOH B 47 347 63 HOH HOH . H 3 HOH C 1 301 56 HOH HOH . H 3 HOH C 2 302 43 HOH HOH . H 3 HOH C 3 303 126 HOH HOH . H 3 HOH C 4 304 61 HOH HOH . H 3 HOH C 5 305 23 HOH HOH . H 3 HOH C 6 306 88 HOH HOH . H 3 HOH C 7 307 99 HOH HOH . H 3 HOH C 8 308 93 HOH HOH . H 3 HOH C 9 309 52 HOH HOH . H 3 HOH C 10 310 49 HOH HOH . H 3 HOH C 11 311 98 HOH HOH . H 3 HOH C 12 312 28 HOH HOH . H 3 HOH C 13 313 132 HOH HOH . H 3 HOH C 14 314 8 HOH HOH . H 3 HOH C 15 315 21 HOH HOH . H 3 HOH C 16 316 30 HOH HOH . H 3 HOH C 17 317 86 HOH HOH . H 3 HOH C 18 318 91 HOH HOH . H 3 HOH C 19 319 83 HOH HOH . H 3 HOH C 20 320 36 HOH HOH . H 3 HOH C 21 321 129 HOH HOH . H 3 HOH C 22 322 97 HOH HOH . H 3 HOH C 23 323 60 HOH HOH . H 3 HOH C 24 324 57 HOH HOH . H 3 HOH C 25 325 3 HOH HOH . H 3 HOH C 26 326 78 HOH HOH . H 3 HOH C 27 327 114 HOH HOH . H 3 HOH C 28 328 112 HOH HOH . H 3 HOH C 29 329 94 HOH HOH . H 3 HOH C 30 330 127 HOH HOH . H 3 HOH C 31 331 64 HOH HOH . H 3 HOH C 32 332 16 HOH HOH . H 3 HOH C 33 333 131 HOH HOH . H 3 HOH C 34 334 108 HOH HOH . H 3 HOH C 35 335 79 HOH HOH . H 3 HOH C 36 336 122 HOH HOH . H 3 HOH C 37 337 19 HOH HOH . H 3 HOH C 38 338 68 HOH HOH . H 3 HOH C 39 339 101 HOH HOH . H 3 HOH C 40 340 31 HOH HOH . H 3 HOH C 41 341 92 HOH HOH . H 3 HOH C 42 342 135 HOH HOH . H 3 HOH C 43 343 1 HOH HOH . H 3 HOH C 44 344 136 HOH HOH . H 3 HOH C 45 345 55 HOH HOH . H 3 HOH C 46 346 69 HOH HOH . H 3 HOH C 47 347 113 HOH HOH . H 3 HOH C 48 348 87 HOH HOH . H 3 HOH C 49 349 82 HOH HOH . H 3 HOH C 50 350 102 HOH HOH . H 3 HOH C 51 351 109 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 C14 R81 . . . D 2 33.783 -44.272 -8.981 1 68.07 ? C14 R81 201 B 1 HETATM 2 C C7 R81 . . . D 2 30.688 -47.157 -2.652 1 39.88 ? C7 R81 201 B 1 HETATM 3 N N4 R81 . . . D 2 23.749 -40.904 3.642 1 49.94 ? N4 R81 201 B 1 HETATM 4 C C2 R81 . . . D 2 28.117 -47.853 0.742 1 34.83 ? C2 R81 201 B 1 HETATM 5 C C5 R81 . . . D 2 27.815 -45.79 -1.113 1 37.15 ? C5 R81 201 B 1 HETATM 6 C C6 R81 . . . D 2 27.695 -44.684 -2.169 1 37.96 ? C6 R81 201 B 1 HETATM 7 N N3 R81 . . . D 2 23.803 -42.686 1.705 1 41.12 ? N3 R81 201 B 1 HETATM 8 N N1 R81 . . . D 2 31.338 -45.368 -3.996 1 44.44 ? N1 R81 201 B 1 HETATM 9 C C19 R81 . . . D 2 24.041 -43.709 0.748 1 40.1 ? C19 R81 201 B 1 HETATM 10 C C15 R81 . . . D 2 33.082 -44.816 -10.229 1 76.84 ? C15 R81 201 B 1 HETATM 11 C C13 R81 . . . D 2 33.911 -44.705 -6.609 1 51.53 ? C13 R81 201 B 1 HETATM 12 C C11 R81 . . . D 2 33.097 -45.447 -5.575 1 49.36 ? C11 R81 201 B 1 HETATM 13 C C16 R81 . . . D 2 25.581 -45.288 -0.17 1 37.37 ? C16 R81 201 B 1 HETATM 14 C C18 R81 . . . D 2 26.32 -43.932 1.771 1 37.47 ? C18 R81 201 B 1 HETATM 15 O O R81 . . . D 2 30.752 -48.344 -2.442 1 35.65 ? O R81 201 B 1 HETATM 16 C C8 R81 . . . D 2 31.574 -46.622 -3.661 1 44.4 ? C8 R81 201 B 1 HETATM 17 C C9 R81 . . . D 2 32.562 -47.387 -4.274 1 47.4 ? C9 R81 201 B 1 HETATM 18 C C10 R81 . . . D 2 33.342 -46.781 -5.247 1 45.13 ? C10 R81 201 B 1 HETATM 19 N N2 R81 . . . D 2 33.568 -45.249 -7.908 1 57.96 ? N2 R81 201 B 1 HETATM 20 O O1 R81 . . . D 2 31.849 -44.101 -10.432 1 76.54 ? O1 R81 201 B 1 HETATM 21 C C12 R81 . . . D 2 32.085 -44.767 -4.928 1 45.79 ? C12 R81 201 B 1 HETATM 22 N N R81 . . . D 2 29.894 -46.276 -2.093 1 38.74 ? N R81 201 B 1 HETATM 23 C C4 R81 . . . D 2 28.93 -46.587 -1.117 1 34.84 ? C4 R81 201 B 1 HETATM 24 C C3 R81 . . . D 2 29.09 -47.601 -0.191 1 32.87 ? C3 R81 201 B 1 HETATM 25 C C1 R81 . . . D 2 26.975 -47.058 0.76 1 35.32 ? C1 R81 201 B 1 HETATM 26 C C R81 . . . D 2 26.836 -46.044 -0.186 1 36.58 ? C R81 201 B 1 HETATM 27 C C17 R81 . . . D 2 25.283 -44.323 0.754 1 36.59 ? C17 R81 201 B 1 HETATM 28 C C31 R81 . . . D 2 24.624 -45.693 -1.096 1 40.42 ? C31 R81 201 B 1 HETATM 29 C C30 R81 . . . D 2 23.373 -45.06 -1.126 1 42.98 ? C30 R81 201 B 1 HETATM 30 C C29 R81 . . . D 2 23.076 -44.082 -0.208 1 38.34 ? C29 R81 201 B 1 HETATM 31 C C20 R81 . . . D 2 22.609 -42.438 2.233 1 42.39 ? C20 R81 201 B 1 HETATM 32 O O2 R81 . . . D 2 21.572 -43.035 1.995 1 40.61 ? O2 R81 201 B 1 HETATM 33 C C21 R81 . . . D 2 22.565 -41.394 3.242 1 45.29 ? C21 R81 201 B 1 HETATM 34 C C22 R81 . . . D 2 21.365 -40.992 3.814 1 47.45 ? C22 R81 201 B 1 HETATM 35 C C23 R81 . . . D 2 21.409 -39.996 4.781 1 48.58 ? C23 R81 201 B 1 HETATM 36 C C24 R81 . . . D 2 22.652 -39.488 5.165 1 52.28 ? C24 R81 201 B 1 HETATM 37 C C25 R81 . . . D 2 23.824 -39.963 4.591 1 50.87 ? C25 R81 201 B 1 HETATM 38 C C26 R81 . . . D 2 22.768 -38.432 6.216 1 52.35 ? C26 R81 201 B 1 HETATM 39 N N5 R81 . . . D 2 22.857 -39.091 7.516 1 56.31 ? N5 R81 201 B 1 HETATM 40 C C27 R81 . . . D 2 23.604 -38.347 8.56 1 59.8 ? C27 R81 201 B 1 HETATM 41 C C28 R81 . . . D 2 23.413 -39.073 9.902 1 65.2 ? C28 R81 201 B 1 HETATM 42 O O3 R81 . . . D 2 24.466 -40.031 10.121 1 64.51 ? O3 R81 201 B 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 42 #