data_1XUJ # _model_server_result.job_id 5sjjpL_HOPOUQQK_IFfjwQ _model_server_result.datetime_utc '2024-11-08 15:40:29' _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 1xuj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":246}' # _entry.id 1XUJ # _exptl.entry_id 1XUJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 415.787 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'BIS(5-AMIDINO-BENZIMIDAZOLYL)METHANONE ZINC' _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 120 _cell.entry_id 1XUJ _cell.length_a 55.06 _cell.length_b 55.06 _cell.length_c 109.85 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XUJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 4 _struct_asym.id D _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 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.005 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? metalc ? metalc1 D ZN BOZ . A BOZ 246 1_555 A NE2 HIS 40 A HIS 57 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.158 ? metalc ? metalc2 D ZN BOZ . A BOZ 246 1_555 A OG SER 177 A SER 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.891 ? metalc ? metalc3 B CA CA . A CA 247 1_555 A OE1 GLU 52 A GLU 70 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc4 B CA CA . A CA 247 1_555 A O ASN 54 A ASN 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc5 B CA CA . A CA 247 1_555 A O VAL 57 A VAL 75 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc6 B CA CA . A CA 247 1_555 A OE2 GLU 62 A GLU 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.431 ? metalc ? metalc7 B CA CA . A CA 247 1_555 E O HOH . A HOH 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc8 B CA CA . A CA 247 1_555 E O HOH . A HOH 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? # _chem_comp.formula 'C17 H18 N8 O Zn 2' _chem_comp.formula_weight 415.787 _chem_comp.id BOZ _chem_comp.mon_nstd_flag . _chem_comp.name 'BIS(5-AMIDINO-BENZIMIDAZOLYL)METHANONE ZINC' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 1XUJ _atom_sites.fract_transf_matrix[1][1] 0.018162 _atom_sites.fract_transf_matrix[1][2] 0.010486 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020972 _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] 0.009103 _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 CA A 1 247 247 CA CA . C 3 SO4 A 1 368 368 SO4 SO4 . D 4 BOZ A 1 246 246 BOZ BOZ . E 5 HOH A 1 248 248 HOH HOH . E 5 HOH A 2 249 249 HOH HOH . E 5 HOH A 3 250 250 HOH HOH . E 5 HOH A 4 251 251 HOH HOH . E 5 HOH A 5 252 252 HOH HOH . E 5 HOH A 6 253 253 HOH HOH . E 5 HOH A 7 254 254 HOH HOH . E 5 HOH A 8 255 255 HOH HOH . E 5 HOH A 9 256 256 HOH HOH . E 5 HOH A 10 257 257 HOH HOH . E 5 HOH A 11 258 258 HOH HOH . E 5 HOH A 12 259 259 HOH HOH . E 5 HOH A 13 260 260 HOH HOH . E 5 HOH A 14 261 261 HOH HOH . E 5 HOH A 15 262 262 HOH HOH . E 5 HOH A 16 263 263 HOH HOH . E 5 HOH A 17 264 264 HOH HOH . E 5 HOH A 18 265 265 HOH HOH . E 5 HOH A 19 266 266 HOH HOH . E 5 HOH A 20 267 267 HOH HOH . E 5 HOH A 21 268 268 HOH HOH . E 5 HOH A 22 269 269 HOH HOH . E 5 HOH A 23 270 270 HOH HOH . E 5 HOH A 24 271 271 HOH HOH . E 5 HOH A 25 272 272 HOH HOH . E 5 HOH A 26 273 273 HOH HOH . E 5 HOH A 27 274 274 HOH HOH . E 5 HOH A 28 275 275 HOH HOH . E 5 HOH A 29 276 276 HOH HOH . E 5 HOH A 30 277 277 HOH HOH . E 5 HOH A 31 278 278 HOH HOH . E 5 HOH A 32 279 279 HOH HOH . E 5 HOH A 33 280 280 HOH HOH . E 5 HOH A 34 281 281 HOH HOH . E 5 HOH A 35 282 282 HOH HOH . E 5 HOH A 36 283 283 HOH HOH . E 5 HOH A 37 284 284 HOH HOH . E 5 HOH A 38 285 285 HOH HOH . E 5 HOH A 39 286 286 HOH HOH . E 5 HOH A 40 287 287 HOH HOH . E 5 HOH A 41 288 288 HOH HOH . E 5 HOH A 42 289 289 HOH HOH . E 5 HOH A 43 290 290 HOH HOH . E 5 HOH A 44 291 291 HOH HOH . E 5 HOH A 45 292 292 HOH HOH . E 5 HOH A 46 293 293 HOH HOH . E 5 HOH A 47 294 294 HOH HOH . E 5 HOH A 48 295 295 HOH HOH . E 5 HOH A 49 297 297 HOH HOH . E 5 HOH A 50 298 298 HOH HOH . E 5 HOH A 51 299 299 HOH HOH . E 5 HOH A 52 300 300 HOH HOH . E 5 HOH A 53 301 301 HOH HOH . E 5 HOH A 54 302 302 HOH HOH . E 5 HOH A 55 303 303 HOH HOH . E 5 HOH A 56 304 304 HOH HOH . E 5 HOH A 57 305 305 HOH HOH . E 5 HOH A 58 306 306 HOH HOH . E 5 HOH A 59 307 307 HOH HOH . E 5 HOH A 60 308 308 HOH HOH . E 5 HOH A 61 309 309 HOH HOH . E 5 HOH A 62 310 310 HOH HOH . E 5 HOH A 63 311 311 HOH HOH . E 5 HOH A 64 312 312 HOH HOH . E 5 HOH A 65 313 313 HOH HOH . E 5 HOH A 66 314 314 HOH HOH . E 5 HOH A 67 316 316 HOH HOH . E 5 HOH A 68 318 318 HOH HOH . E 5 HOH A 69 319 319 HOH HOH . E 5 HOH A 70 320 320 HOH HOH . E 5 HOH A 71 321 321 HOH HOH . E 5 HOH A 72 322 322 HOH HOH . E 5 HOH A 73 323 323 HOH HOH . E 5 HOH A 74 324 324 HOH HOH . E 5 HOH A 75 325 325 HOH HOH . E 5 HOH A 76 327 327 HOH HOH . E 5 HOH A 77 328 328 HOH HOH . E 5 HOH A 78 330 330 HOH HOH . E 5 HOH A 79 331 331 HOH HOH . E 5 HOH A 80 332 332 HOH HOH . E 5 HOH A 81 333 333 HOH HOH . E 5 HOH A 82 335 335 HOH HOH . E 5 HOH A 83 336 336 HOH HOH . E 5 HOH A 84 337 337 HOH HOH . E 5 HOH A 85 338 338 HOH HOH . E 5 HOH A 86 339 339 HOH HOH . E 5 HOH A 87 340 340 HOH HOH . E 5 HOH A 88 341 341 HOH HOH . E 5 HOH A 89 342 342 HOH HOH . E 5 HOH A 90 343 343 HOH HOH . E 5 HOH A 91 344 344 HOH HOH . E 5 HOH A 92 345 345 HOH HOH . E 5 HOH A 93 346 346 HOH HOH . E 5 HOH A 94 347 347 HOH HOH . E 5 HOH A 95 348 348 HOH HOH . E 5 HOH A 96 349 349 HOH HOH . E 5 HOH A 97 350 350 HOH HOH . E 5 HOH A 98 351 351 HOH HOH . E 5 HOH A 99 352 352 HOH HOH . E 5 HOH A 100 353 353 HOH HOH . E 5 HOH A 101 354 354 HOH HOH . E 5 HOH A 102 355 355 HOH HOH . E 5 HOH A 103 356 356 HOH HOH . E 5 HOH A 104 357 357 HOH HOH . E 5 HOH A 105 358 358 HOH HOH . E 5 HOH A 106 361 361 HOH HOH . E 5 HOH A 107 362 362 HOH HOH . E 5 HOH A 108 363 363 HOH HOH . E 5 HOH A 109 364 364 HOH HOH . E 5 HOH A 110 365 365 HOH HOH . E 5 HOH A 111 369 369 HOH HOH . E 5 HOH A 112 370 370 HOH HOH . E 5 HOH A 113 371 371 HOH HOH . E 5 HOH A 114 372 372 HOH HOH . E 5 HOH A 115 373 373 HOH HOH . E 5 HOH A 116 374 374 HOH HOH . E 5 HOH A 117 376 376 HOH HOH . E 5 HOH A 118 377 377 HOH HOH . E 5 HOH A 119 378 378 HOH HOH . E 5 HOH A 120 379 379 HOH HOH . E 5 HOH A 121 380 380 HOH HOH . E 5 HOH A 122 381 381 HOH HOH . E 5 HOH A 123 382 382 HOH HOH . E 5 HOH A 124 383 383 HOH HOH . E 5 HOH A 125 385 385 HOH HOH . E 5 HOH A 126 386 386 HOH HOH . E 5 HOH A 127 388 388 HOH HOH . E 5 HOH A 128 389 389 HOH HOH . E 5 HOH A 129 390 390 HOH HOH . E 5 HOH A 130 392 392 HOH HOH . E 5 HOH A 131 393 393 HOH HOH . E 5 HOH A 132 394 394 HOH HOH . E 5 HOH A 133 395 395 HOH HOH . E 5 HOH A 134 396 396 HOH HOH . E 5 HOH A 135 397 397 HOH HOH . E 5 HOH A 136 400 400 HOH HOH . E 5 HOH A 137 401 401 HOH HOH . E 5 HOH A 138 403 403 HOH HOH . E 5 HOH A 139 404 404 HOH HOH . E 5 HOH A 140 405 405 HOH HOH . E 5 HOH A 141 406 406 HOH HOH . E 5 HOH A 142 407 407 HOH HOH . E 5 HOH A 143 408 408 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 BOZ . . . D 4 45.338 19.667 52.874 1 11.58 ? C1 BOZ 246 A 1 HETATM 2 C C2 BOZ . . . D 4 44.787 19.23 51.616 1 10.78 ? C2 BOZ 246 A 1 HETATM 3 C C3 BOZ . . . D 4 44.339 20.123 50.603 1 9.58 ? C3 BOZ 246 A 1 HETATM 4 C C4 BOZ . . . D 4 44.45 21.503 50.898 1 14.18 ? C4 BOZ 246 A 1 HETATM 5 C C5 BOZ . . . D 4 44.966 21.962 52.089 1 14.04 ? C5 BOZ 246 A 1 HETATM 6 C C6 BOZ . . . D 4 45.416 21.076 53.081 1 11.94 ? C6 BOZ 246 A 1 HETATM 7 C C7 BOZ . . . D 4 45.697 18.749 53.897 1 8.55 ? C7 BOZ 246 A 1 HETATM 8 N N1 BOZ . . . D 4 46.516 19.096 54.891 1 6.93 ? N1 BOZ 246 A 1 HETATM 9 N N2 BOZ . . . D 4 45.206 17.512 53.921 1 6.64 ? N2 BOZ 246 A 1 HETATM 10 N N3 BOZ . . . D 4 44.102 22.537 50.122 1 11.97 ? N3 BOZ 246 A 1 HETATM 11 N N4 BOZ . . . D 4 44.963 23.297 52.085 1 14.71 ? N4 BOZ 246 A 1 HETATM 12 C C8 BOZ . . . D 4 44.427 23.572 50.879 1 15.56 ? C8 BOZ 246 A 1 HETATM 13 C C1' BOZ . . . D 4 43.376 27.438 45.144 1 20.35 ? C1' BOZ 246 A 1 HETATM 14 C C2' BOZ . . . D 4 43.166 26.072 44.799 1 17.26 ? C2' BOZ 246 A 1 HETATM 15 C C3' BOZ . . . D 4 43.267 25.027 45.752 1 15.15 ? C3' BOZ 246 A 1 HETATM 16 C C4' BOZ . . . D 4 43.591 25.361 47.058 1 16.06 ? C4' BOZ 246 A 1 HETATM 17 C C5' BOZ . . . D 4 43.805 26.646 47.44 1 17.71 ? C5' BOZ 246 A 1 HETATM 18 C C6' BOZ . . . D 4 43.696 27.694 46.511 1 19.87 ? C6' BOZ 246 A 1 HETATM 19 C C7' BOZ . . . D 4 43.345 28.46 44.148 1 24.37 ? C7' BOZ 246 A 1 HETATM 20 N N1' BOZ . . . D 4 44.062 29.592 44.245 1 28.03 ? N1' BOZ 246 A 1 HETATM 21 N N2' BOZ . . . D 4 42.602 28.371 43.036 1 26.78 ? N2' BOZ 246 A 1 HETATM 22 N N3' BOZ . . . D 4 43.732 24.532 48.102 1 15.91 ? N3' BOZ 246 A 1 HETATM 23 N N4' BOZ . . . D 4 44.093 26.642 48.745 1 18.4 ? N4' BOZ 246 A 1 HETATM 24 C C8' BOZ . . . D 4 44.026 25.356 49.095 1 17.41 ? C8' BOZ 246 A 1 HETATM 25 C C9 BOZ . . . D 4 44.243 24.924 50.446 1 17.5 ? C9 BOZ 246 A 1 HETATM 26 O O9 BOZ . . . D 4 44.426 25.802 51.311 1 17.21 ? O9 BOZ 246 A 1 HETATM 27 ZN ZN BOZ . . . D 4 43.314 22.673 48.263 1 8.5 ? ZN BOZ 246 A 1 HETATM 28 H HN11 BOZ . . . D 4 46.663 18.564 55.724 1 0 ? HN11 BOZ 246 A 1 HETATM 29 H HN12 BOZ . . . D 4 46.882 20.038 54.907 1 0 ? HN12 BOZ 246 A 1 HETATM 30 H HN21 BOZ . . . D 4 45.38 16.92 54.708 1 0 ? HN21 BOZ 246 A 1 HETATM 31 H HN22 BOZ . . . D 4 44.449 17.275 53.297 1 0 ? HN22 BOZ 246 A 1 HETATM 32 H HN4 BOZ . . . D 4 45.642 23.876 52.506 1 0 ? HN4 BOZ 246 A 1 HETATM 33 H "H1'1" BOZ . . . D 4 44.002 30.332 43.511 1 0 ? "H1'1" BOZ 246 A 1 HETATM 34 H "H1'2" BOZ . . . D 4 44.728 29.775 44.955 1 0 ? "H1'2" BOZ 246 A 1 HETATM 35 H "H2'1" BOZ . . . D 4 42.599 29.188 42.419 1 0 ? "H2'1" BOZ 246 A 1 HETATM 36 H "H2'2" BOZ . . . D 4 41.99 27.607 42.845 1 0 ? "H2'2" BOZ 246 A 1 HETATM 37 H HN4' BOZ . . . D 4 44.412 27.35 49.34 1 0 ? HN4' BOZ 246 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 37 #