data_1XUH # _model_server_result.job_id oowxPypSu5XsfxlSVKenjQ _model_server_result.datetime_utc '2024-12-01 18:12:51' _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 1xuh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":369}' # _entry.id 1XUH # _exptl.entry_id 1XUH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 346.346 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BIS(5-AMIDINO-2-BENZIMIDAZOLYL)METHANONE _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 1XUH _cell.length_a 54.99 _cell.length_b 54.99 _cell.length_c 109.63 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1XUH _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,F _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 disulf ? disulf1 A SG CYS 7 A CYS 22 1_555 A SG CYS 137 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf2 A SG CYS 25 A CYS 42 1_555 A SG CYS 41 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.995 ? disulf ? disulf3 A SG CYS 109 A CYS 128 1_555 A SG CYS 210 A CYS 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.999 ? disulf ? disulf4 A SG CYS 116 A CYS 136 1_555 A SG CYS 183 A CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 148 A CYS 168 1_555 A SG CYS 162 A CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? disulf ? disulf6 A SG CYS 173 A CYS 191 1_555 A SG CYS 197 A CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc1 A NE2 HIS 40 A HIS 57 1_555 B CO CO . A CO 246 1_555 ? ? ? A ? ? ? ? ? ? ? ? 2.455 ? metalc ? metalc2 A OE1 GLU 52 A GLU 70 1_555 C CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? metalc ? metalc3 A O ASN 54 A ASN 72 1_555 C CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc4 A O VAL 57 A VAL 75 1_555 C CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.212 ? metalc ? metalc5 A OE2 GLU 62 A GLU 80 1_555 C CA CA . A CA 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.541 ? metalc ? metalc6 A OG SER 177 A SER 195 1_555 B CO CO . A CO 246 1_555 ? ? ? A ? ? ? ? ? ? ? ? 1.869 ? metalc ? metalc7 B CO CO . A CO 246 1_555 E N3 BAO . A BAO 369 1_555 A ? ? ? ? ? ? ? ? ? ? ? 2.167 ? metalc ? metalc8 B CO CO . A CO 246 1_555 E N3' BAO . A BAO 369 1_555 A ? ? ? ? ? ? ? ? ? ? ? 1.822 ? metalc ? metalc9 C CA CA . A CA 247 1_555 F O HOH . A HOH 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.365 ? metalc ? metalc10 C CA CA . A CA 247 1_555 F O HOH . A HOH 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? # _chem_comp.formula 'C17 H14 N8 O' _chem_comp.formula_weight 346.346 _chem_comp.id BAO _chem_comp.mon_nstd_flag . _chem_comp.name BIS(5-AMIDINO-2-BENZIMIDAZOLYL)METHANONE _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 C1 C2 BAO sing 70 n y C1 C6 BAO doub 71 n y C1 C7 BAO sing 72 n n C2 C3 BAO doub 73 n y C2 H2 BAO sing 74 n n C3 C4 BAO sing 75 n y C3 H3 BAO sing 76 n n C4 C5 BAO doub 77 n y C4 N3 BAO sing 78 n y C5 C6 BAO sing 79 n y C5 N4 BAO sing 80 n y C6 H6 BAO sing 81 n n C7 N1 BAO doub 82 n n C7 N2 BAO sing 83 n n N1 HN1 BAO sing 84 n n N2 HN21 BAO sing 85 n n N2 HN22 BAO sing 86 n n N3 C8 BAO doub 87 n y N4 C8 BAO sing 88 n y N4 HN4 BAO sing 89 n n C8 C9 BAO sing 90 n n C1' C2' BAO sing 91 n y C1' C6' BAO doub 92 n y C1' C7' BAO sing 93 n n C2' C3' BAO doub 94 n y C2' H2' BAO sing 95 n n C3' C4' BAO sing 96 n y C3' H3' BAO sing 97 n n C4' C5' BAO doub 98 n y C4' N3' BAO sing 99 n y C5' C6' BAO sing 100 n y C5' N4' BAO sing 101 n y C6' H6' BAO sing 102 n n C7' N1' BAO doub 103 n n C7' N2' BAO sing 104 n n N1' H1' BAO sing 105 n n N2' "H2'1" BAO sing 106 n n N2' "H2'2" BAO sing 107 n n N3' C8' BAO doub 108 n y N4' C8' BAO sing 109 n y N4' HN4' BAO sing 110 n n C8' C9 BAO sing 111 n n C9 O9 BAO doub 112 n n # _atom_sites.entry_id 1XUH _atom_sites.fract_transf_matrix[1][1] 0.018185 _atom_sites.fract_transf_matrix[1][2] 0.010499 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020998 _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] 0.009122 _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 CO A 1 246 246 CO CO A C 3 CA A 1 247 247 CA CA . D 4 SO4 A 1 368 368 SO4 SO4 . E 5 BAO A 1 369 246 BAO BAO . F 6 HOH A 1 370 248 HOH HOH . F 6 HOH A 2 371 249 HOH HOH . F 6 HOH A 3 372 250 HOH HOH . F 6 HOH A 4 373 251 HOH HOH . F 6 HOH A 5 374 252 HOH HOH . F 6 HOH A 6 375 253 HOH HOH . F 6 HOH A 7 376 254 HOH HOH . F 6 HOH A 8 377 255 HOH HOH . F 6 HOH A 9 378 256 HOH HOH . F 6 HOH A 10 379 257 HOH HOH . F 6 HOH A 11 380 258 HOH HOH . F 6 HOH A 12 381 259 HOH HOH . F 6 HOH A 13 382 260 HOH HOH . F 6 HOH A 14 383 261 HOH HOH . F 6 HOH A 15 384 262 HOH HOH . F 6 HOH A 16 385 263 HOH HOH . F 6 HOH A 17 386 264 HOH HOH . F 6 HOH A 18 387 265 HOH HOH . F 6 HOH A 19 388 266 HOH HOH . F 6 HOH A 20 389 267 HOH HOH . F 6 HOH A 21 390 268 HOH HOH . F 6 HOH A 22 391 269 HOH HOH . F 6 HOH A 23 392 270 HOH HOH . F 6 HOH A 24 393 271 HOH HOH . F 6 HOH A 25 394 272 HOH HOH . F 6 HOH A 26 395 273 HOH HOH . F 6 HOH A 27 396 274 HOH HOH . F 6 HOH A 28 397 275 HOH HOH . F 6 HOH A 29 398 276 HOH HOH . F 6 HOH A 30 399 277 HOH HOH . F 6 HOH A 31 400 278 HOH HOH . F 6 HOH A 32 401 279 HOH HOH . F 6 HOH A 33 402 280 HOH HOH . F 6 HOH A 34 403 281 HOH HOH . F 6 HOH A 35 404 282 HOH HOH . F 6 HOH A 36 405 283 HOH HOH . F 6 HOH A 37 406 284 HOH HOH . F 6 HOH A 38 407 285 HOH HOH . F 6 HOH A 39 408 286 HOH HOH . F 6 HOH A 40 409 287 HOH HOH . F 6 HOH A 41 410 288 HOH HOH . F 6 HOH A 42 411 289 HOH HOH . F 6 HOH A 43 412 290 HOH HOH . F 6 HOH A 44 413 291 HOH HOH . F 6 HOH A 45 414 292 HOH HOH . F 6 HOH A 46 415 293 HOH HOH . F 6 HOH A 47 416 294 HOH HOH . F 6 HOH A 48 417 295 HOH HOH . F 6 HOH A 49 418 297 HOH HOH . F 6 HOH A 50 419 298 HOH HOH . F 6 HOH A 51 420 299 HOH HOH . F 6 HOH A 52 421 300 HOH HOH . F 6 HOH A 53 422 301 HOH HOH . F 6 HOH A 54 423 302 HOH HOH . F 6 HOH A 55 424 303 HOH HOH . F 6 HOH A 56 425 304 HOH HOH . F 6 HOH A 57 426 305 HOH HOH . F 6 HOH A 58 427 306 HOH HOH . F 6 HOH A 59 428 307 HOH HOH . F 6 HOH A 60 429 308 HOH HOH . F 6 HOH A 61 430 309 HOH HOH . F 6 HOH A 62 431 310 HOH HOH . F 6 HOH A 63 432 311 HOH HOH . F 6 HOH A 64 433 312 HOH HOH . F 6 HOH A 65 434 313 HOH HOH . F 6 HOH A 66 435 314 HOH HOH . F 6 HOH A 67 436 316 HOH HOH . F 6 HOH A 68 437 319 HOH HOH . F 6 HOH A 69 438 320 HOH HOH . F 6 HOH A 70 439 321 HOH HOH . F 6 HOH A 71 440 323 HOH HOH . F 6 HOH A 72 441 324 HOH HOH . F 6 HOH A 73 442 325 HOH HOH . F 6 HOH A 74 443 328 HOH HOH . F 6 HOH A 75 444 330 HOH HOH . F 6 HOH A 76 445 331 HOH HOH . F 6 HOH A 77 446 332 HOH HOH . F 6 HOH A 78 447 333 HOH HOH . F 6 HOH A 79 448 335 HOH HOH . F 6 HOH A 80 449 336 HOH HOH . F 6 HOH A 81 450 337 HOH HOH . F 6 HOH A 82 451 338 HOH HOH . F 6 HOH A 83 452 339 HOH HOH . F 6 HOH A 84 453 340 HOH HOH . F 6 HOH A 85 454 343 HOH HOH . F 6 HOH A 86 455 344 HOH HOH . F 6 HOH A 87 456 345 HOH HOH . F 6 HOH A 88 457 346 HOH HOH . F 6 HOH A 89 458 349 HOH HOH . F 6 HOH A 90 459 350 HOH HOH . F 6 HOH A 91 460 351 HOH HOH . F 6 HOH A 92 461 352 HOH HOH . F 6 HOH A 93 462 353 HOH HOH . F 6 HOH A 94 463 354 HOH HOH . F 6 HOH A 95 464 355 HOH HOH . F 6 HOH A 96 465 356 HOH HOH . F 6 HOH A 97 466 362 HOH HOH . F 6 HOH A 98 467 363 HOH HOH . F 6 HOH A 99 468 364 HOH HOH . F 6 HOH A 100 469 365 HOH HOH . F 6 HOH A 101 470 369 HOH HOH . F 6 HOH A 102 471 370 HOH HOH . F 6 HOH A 103 472 372 HOH HOH . F 6 HOH A 104 473 373 HOH HOH . F 6 HOH A 105 474 376 HOH HOH . F 6 HOH A 106 475 377 HOH HOH . F 6 HOH A 107 476 378 HOH HOH . F 6 HOH A 108 477 379 HOH HOH . F 6 HOH A 109 478 380 HOH HOH . F 6 HOH A 110 479 381 HOH HOH . F 6 HOH A 111 480 383 HOH HOH . F 6 HOH A 112 481 385 HOH HOH . F 6 HOH A 113 482 386 HOH HOH . F 6 HOH A 114 483 388 HOH HOH . F 6 HOH A 115 484 389 HOH HOH . F 6 HOH A 116 485 390 HOH HOH . F 6 HOH A 117 486 392 HOH HOH . F 6 HOH A 118 487 393 HOH HOH . F 6 HOH A 119 488 395 HOH HOH . F 6 HOH A 120 489 396 HOH HOH . F 6 HOH A 121 490 401 HOH HOH . F 6 HOH A 122 491 404 HOH HOH . F 6 HOH A 123 492 405 HOH HOH . F 6 HOH A 124 493 406 HOH HOH . F 6 HOH A 125 494 408 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 BAO . . . E 5 45.505 19.613 52.951 1 18.95 ? C1 BAO 369 A 1 HETATM 2 C C2 BAO . . . E 5 44.909 19.19 51.732 1 20.89 ? C2 BAO 369 A 1 HETATM 3 C C3 BAO . . . E 5 44.486 20.097 50.732 1 22.86 ? C3 BAO 369 A 1 HETATM 4 C C4 BAO . . . E 5 44.673 21.452 50.986 1 27.05 ? C4 BAO 369 A 1 HETATM 5 C C5 BAO . . . E 5 45.234 21.916 52.132 1 26.66 ? C5 BAO 369 A 1 HETATM 6 C C6 BAO . . . E 5 45.655 21.021 53.118 1 23.74 ? C6 BAO 369 A 1 HETATM 7 C C7 BAO . . . E 5 45.768 18.705 54.001 1 16.23 ? C7 BAO 369 A 1 HETATM 8 N N1 BAO . . . E 5 46.603 19.04 54.959 1 13.08 ? N1 BAO 369 A 1 HETATM 9 N N2 BAO . . . E 5 45.201 17.49 54.107 1 14.56 ? N2 BAO 369 A 1 HETATM 10 N N3 BAO . . . E 5 44.348 22.47 50.183 1 30.8 ? N3 BAO 369 A 1 HETATM 11 N N4 BAO . . . E 5 45.286 23.252 52.088 1 29.4 ? N4 BAO 369 A 1 HETATM 12 C C8 BAO . . . E 5 44.734 23.519 50.895 1 33.82 ? C8 BAO 369 A 1 HETATM 13 C C1' BAO . . . E 5 43.578 27.246 45.118 1 48.83 ? C1' BAO 369 A 1 HETATM 14 C C2' BAO . . . E 5 43.098 25.935 44.853 1 45.88 ? C2' BAO 369 A 1 HETATM 15 C C3' BAO . . . E 5 43.124 24.923 45.845 1 44.26 ? C3' BAO 369 A 1 HETATM 16 C C4' BAO . . . E 5 43.638 25.242 47.11 1 43.57 ? C4' BAO 369 A 1 HETATM 17 C C5' BAO . . . E 5 44.108 26.482 47.404 1 45.5 ? C5' BAO 369 A 1 HETATM 18 C C6' BAO . . . E 5 44.089 27.494 46.432 1 47.38 ? C6' BAO 369 A 1 HETATM 19 C C7' BAO . . . E 5 43.435 28.289 44.164 1 51.94 ? C7' BAO 369 A 1 HETATM 20 N N1' BAO . . . E 5 44.19 29.392 44.297 1 55.51 ? N1' BAO 369 A 1 HETATM 21 N N2' BAO . . . E 5 42.567 28.247 43.127 1 50.55 ? N2' BAO 369 A 1 HETATM 22 N N3' BAO . . . E 5 43.747 24.439 48.179 1 41.96 ? N3' BAO 369 A 1 HETATM 23 N N4' BAO . . . E 5 44.533 26.489 48.674 1 44.56 ? N4' BAO 369 A 1 HETATM 24 C C8' BAO . . . E 5 44.284 25.248 49.084 1 42.11 ? C8' BAO 369 A 1 HETATM 25 C C9 BAO . . . E 5 44.546 24.856 50.432 1 39.51 ? C9 BAO 369 A 1 HETATM 26 O O9 BAO . . . E 5 44.437 25.741 51.3 1 38.29 ? O9 BAO 369 A 1 HETATM 27 H HN1 BAO . . . E 5 46.705 18.512 55.808 1 0 ? HN1 BAO 369 A 1 HETATM 28 H HN21 BAO . . . E 5 45.365 16.911 54.907 1 0 ? HN21 BAO 369 A 1 HETATM 29 H HN22 BAO . . . E 5 44.482 17.226 53.451 1 0 ? HN22 BAO 369 A 1 HETATM 30 H HN4 BAO . . . E 5 45.91 23.867 52.549 1 0 ? HN4 BAO 369 A 1 HETATM 31 H H1' BAO . . . E 5 44.127 30.186 43.634 1 0 ? H1' BAO 369 A 1 HETATM 32 H "H2'1" BAO . . . E 5 42.522 29.095 42.557 1 0 ? "H2'1" BAO 369 A 1 HETATM 33 H "H2'2" BAO . . . E 5 41.92 27.502 42.963 1 0 ? "H2'2" BAO 369 A 1 HETATM 34 H HN4' BAO . . . E 5 45.153 27.085 49.15 1 0 ? HN4' BAO 369 A 1 HETATM 35 H H12' BAO . . . E 5 44.892 29.533 44.983 1 0 ? H12' BAO 369 A 1 HETATM 36 H HN12 BAO . . . E 5 47.025 19.951 54.941 1 0 ? HN12 BAO 369 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 36 #