data_3R73 # _model_server_result.job_id cap3ZBm_HSquFI0M4dRMOQ _model_server_result.datetime_utc '2025-07-07 22:37:31' _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 3r73 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":920}' # _entry.id 3R73 # _exptl.entry_id 3R73 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 344.368 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 4-[(3-aminopropyl)amino]-5-nitro-2-[(pyridin-3-ylmethyl)amino]benzamide _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 90 _cell.entry_id 3R73 _cell.length_a 53.53 _cell.length_b 71.61 _cell.length_c 72.66 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3R73 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C16 H20 N6 O3' _chem_comp.formula_weight 344.368 _chem_comp.id X87 _chem_comp.mon_nstd_flag . _chem_comp.name 4-[(3-aminopropyl)amino]-5-nitro-2-[(pyridin-3-ylmethyl)amino]benzamide _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 N01 C09 X87 sing 385 n n N01 C14 X87 sing 386 n n N01 HN01 X87 sing 387 n n N02 C13 X87 sing 388 n n N02 HN02 X87 sing 389 n n N02 HN0A X87 sing 390 n n N03 C16 X87 doub 391 n y N03 C17 X87 sing 392 n y N04 C11 X87 sing 393 n n N04 C20 X87 sing 394 n n N04 HN04 X87 sing 395 n n N05 C22 X87 sing 396 n n N05 HN05 X87 sing 397 n n N05 HN0B X87 sing 398 n n N06 C12 X87 sing 399 n n N06 O24 X87 doub 400 n n N06 O25 X87 sing 401 n n C07 C08 X87 doub 402 n y C07 C12 X87 sing 403 n y C07 H07 X87 sing 404 n n C08 C09 X87 sing 405 n y C08 C13 X87 sing 406 n n C09 C10 X87 doub 407 n y C10 C11 X87 sing 408 n y C10 H10 X87 sing 409 n n C11 C12 X87 doub 410 n y C13 O23 X87 doub 411 n n C14 C15 X87 sing 412 n n C14 H14 X87 sing 413 n n C14 H14A X87 sing 414 n n C15 C16 X87 sing 415 n y C15 C19 X87 doub 416 n y C16 H16 X87 sing 417 n n C17 C18 X87 doub 418 n y C17 H17 X87 sing 419 n n C18 C19 X87 sing 420 n y C18 H18 X87 sing 421 n n C19 H19 X87 sing 422 n n C20 C21 X87 sing 423 n n C20 H20 X87 sing 424 n n C20 H20A X87 sing 425 n n C21 C22 X87 sing 426 n n C21 H21 X87 sing 427 n n C21 H21A X87 sing 428 n n C22 H22 X87 sing 429 n n C22 H22A X87 sing 430 n n # _atom_sites.entry_id 3R73 _atom_sites.fract_transf_matrix[1][1] 0.018681 _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] 0.013965 _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] 0.013763 _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 EDO A 1 919 1 EDO EDO . C 3 X87 A 1 920 1 X87 X87 . D 4 HOH A 1 299 1 HOH HOH . D 4 HOH A 2 300 2 HOH HOH . D 4 HOH A 3 301 3 HOH HOH . D 4 HOH A 4 302 4 HOH HOH . D 4 HOH A 5 303 5 HOH HOH . D 4 HOH A 6 304 6 HOH HOH . D 4 HOH A 7 305 7 HOH HOH . D 4 HOH A 8 306 8 HOH HOH . D 4 HOH A 9 307 9 HOH HOH . D 4 HOH A 10 308 10 HOH HOH . D 4 HOH A 11 309 11 HOH HOH . D 4 HOH A 12 310 12 HOH HOH . D 4 HOH A 13 312 14 HOH HOH . D 4 HOH A 14 313 15 HOH HOH . D 4 HOH A 15 314 16 HOH HOH . D 4 HOH A 16 317 19 HOH HOH . D 4 HOH A 17 318 20 HOH HOH . D 4 HOH A 18 319 21 HOH HOH . D 4 HOH A 19 320 22 HOH HOH . D 4 HOH A 20 321 23 HOH HOH . D 4 HOH A 21 322 24 HOH HOH . D 4 HOH A 22 323 25 HOH HOH . D 4 HOH A 23 325 27 HOH HOH . D 4 HOH A 24 326 28 HOH HOH . D 4 HOH A 25 327 29 HOH HOH . D 4 HOH A 26 328 30 HOH HOH . D 4 HOH A 27 329 31 HOH HOH . D 4 HOH A 28 330 32 HOH HOH . D 4 HOH A 29 332 34 HOH HOH . D 4 HOH A 30 333 35 HOH HOH . D 4 HOH A 31 334 36 HOH HOH . D 4 HOH A 32 335 37 HOH HOH . D 4 HOH A 33 336 38 HOH HOH . D 4 HOH A 34 337 39 HOH HOH . D 4 HOH A 35 338 40 HOH HOH . D 4 HOH A 36 339 41 HOH HOH . D 4 HOH A 37 340 42 HOH HOH . D 4 HOH A 38 341 43 HOH HOH . D 4 HOH A 39 343 45 HOH HOH . D 4 HOH A 40 345 47 HOH HOH . D 4 HOH A 41 346 48 HOH HOH . D 4 HOH A 42 347 49 HOH HOH . D 4 HOH A 43 348 50 HOH HOH . D 4 HOH A 44 349 51 HOH HOH . D 4 HOH A 45 352 54 HOH HOH . D 4 HOH A 46 353 55 HOH HOH . D 4 HOH A 47 355 57 HOH HOH . D 4 HOH A 48 356 58 HOH HOH . D 4 HOH A 49 357 59 HOH HOH . D 4 HOH A 50 358 60 HOH HOH . D 4 HOH A 51 359 61 HOH HOH . D 4 HOH A 52 360 62 HOH HOH . D 4 HOH A 53 361 63 HOH HOH . D 4 HOH A 54 363 65 HOH HOH . D 4 HOH A 55 364 66 HOH HOH . D 4 HOH A 56 366 68 HOH HOH . D 4 HOH A 57 367 69 HOH HOH . D 4 HOH A 58 368 70 HOH HOH . D 4 HOH A 59 369 71 HOH HOH . D 4 HOH A 60 370 72 HOH HOH . D 4 HOH A 61 375 77 HOH HOH . D 4 HOH A 62 376 78 HOH HOH . D 4 HOH A 63 380 82 HOH HOH . D 4 HOH A 64 384 86 HOH HOH . D 4 HOH A 65 385 87 HOH HOH . D 4 HOH A 66 390 92 HOH HOH . D 4 HOH A 67 391 93 HOH HOH . D 4 HOH A 68 392 94 HOH HOH . D 4 HOH A 69 394 96 HOH HOH . D 4 HOH A 70 395 97 HOH HOH . D 4 HOH A 71 397 99 HOH HOH . D 4 HOH A 72 398 100 HOH HOH . D 4 HOH A 73 399 101 HOH HOH . D 4 HOH A 74 400 102 HOH HOH . D 4 HOH A 75 403 105 HOH HOH . D 4 HOH A 76 407 109 HOH HOH . D 4 HOH A 77 408 110 HOH HOH . D 4 HOH A 78 411 113 HOH HOH . D 4 HOH A 79 413 115 HOH HOH . D 4 HOH A 80 414 116 HOH HOH . D 4 HOH A 81 415 117 HOH HOH . D 4 HOH A 82 416 118 HOH HOH . D 4 HOH A 83 421 123 HOH HOH . D 4 HOH A 84 422 124 HOH HOH . D 4 HOH A 85 424 126 HOH HOH . D 4 HOH A 86 426 128 HOH HOH . D 4 HOH A 87 427 129 HOH HOH . D 4 HOH A 88 431 133 HOH HOH . D 4 HOH A 89 434 136 HOH HOH . D 4 HOH A 90 438 140 HOH HOH . D 4 HOH A 91 439 141 HOH HOH . D 4 HOH A 92 443 145 HOH HOH . D 4 HOH A 93 444 146 HOH HOH . D 4 HOH A 94 447 149 HOH HOH . D 4 HOH A 95 448 150 HOH HOH . D 4 HOH A 96 456 158 HOH HOH . D 4 HOH A 97 458 160 HOH HOH . D 4 HOH A 98 459 161 HOH HOH . D 4 HOH A 99 463 165 HOH HOH . D 4 HOH A 100 465 167 HOH HOH . D 4 HOH A 101 468 170 HOH HOH . D 4 HOH A 102 469 171 HOH HOH . D 4 HOH A 103 470 172 HOH HOH . D 4 HOH A 104 471 173 HOH HOH . D 4 HOH A 105 477 179 HOH HOH . D 4 HOH A 106 478 180 HOH HOH . D 4 HOH A 107 480 182 HOH HOH . D 4 HOH A 108 482 184 HOH HOH . D 4 HOH A 109 483 185 HOH HOH . D 4 HOH A 110 484 186 HOH HOH . D 4 HOH A 111 492 194 HOH HOH . D 4 HOH A 112 493 195 HOH HOH . D 4 HOH A 113 494 196 HOH HOH . D 4 HOH A 114 495 197 HOH HOH . D 4 HOH A 115 497 199 HOH HOH . D 4 HOH A 116 503 205 HOH HOH . D 4 HOH A 117 507 209 HOH HOH . D 4 HOH A 118 509 211 HOH HOH . D 4 HOH A 119 511 213 HOH HOH . D 4 HOH A 120 513 215 HOH HOH . D 4 HOH A 121 514 216 HOH HOH . D 4 HOH A 122 523 225 HOH HOH . D 4 HOH A 123 525 227 HOH HOH . D 4 HOH A 124 531 233 HOH HOH . D 4 HOH A 125 532 234 HOH HOH . D 4 HOH A 126 536 238 HOH HOH . D 4 HOH A 127 538 240 HOH HOH . D 4 HOH A 128 543 245 HOH HOH . D 4 HOH A 129 544 246 HOH HOH . D 4 HOH A 130 545 247 HOH HOH . D 4 HOH A 131 552 254 HOH HOH . D 4 HOH A 132 553 255 HOH HOH . D 4 HOH A 133 555 257 HOH HOH . D 4 HOH A 134 557 259 HOH HOH . D 4 HOH A 135 560 262 HOH HOH . D 4 HOH A 136 563 265 HOH HOH . D 4 HOH A 137 566 268 HOH HOH . D 4 HOH A 138 568 270 HOH HOH . D 4 HOH A 139 571 273 HOH HOH . D 4 HOH A 140 574 276 HOH HOH . D 4 HOH A 141 579 281 HOH HOH . D 4 HOH A 142 581 283 HOH HOH . D 4 HOH A 143 594 296 HOH HOH . D 4 HOH A 144 604 306 HOH HOH . D 4 HOH A 145 625 327 HOH HOH . D 4 HOH A 146 628 330 HOH HOH . D 4 HOH A 147 633 335 HOH HOH . D 4 HOH A 148 635 337 HOH HOH . D 4 HOH A 149 640 342 HOH HOH . D 4 HOH A 150 641 343 HOH HOH . D 4 HOH A 151 643 345 HOH HOH . D 4 HOH A 152 653 355 HOH HOH . D 4 HOH A 153 654 356 HOH HOH . D 4 HOH A 154 658 360 HOH HOH . D 4 HOH A 155 663 365 HOH HOH . D 4 HOH A 156 666 368 HOH HOH . D 4 HOH A 157 667 369 HOH HOH . D 4 HOH A 158 670 372 HOH HOH . D 4 HOH A 159 671 373 HOH HOH . D 4 HOH A 160 672 374 HOH HOH . D 4 HOH A 161 680 382 HOH HOH . D 4 HOH A 162 686 388 HOH HOH . D 4 HOH A 163 689 391 HOH HOH . D 4 HOH A 164 692 394 HOH HOH . D 4 HOH A 165 694 396 HOH HOH . D 4 HOH A 166 697 399 HOH HOH . D 4 HOH A 167 698 400 HOH HOH . D 4 HOH A 168 701 403 HOH HOH . D 4 HOH A 169 705 407 HOH HOH . D 4 HOH A 170 715 417 HOH HOH . D 4 HOH A 171 717 419 HOH HOH . D 4 HOH A 172 734 436 HOH HOH . D 4 HOH A 173 747 449 HOH HOH . D 4 HOH A 174 809 511 HOH HOH . D 4 HOH A 175 810 512 HOH HOH . D 4 HOH A 176 812 514 HOH HOH . D 4 HOH A 177 828 530 HOH HOH . D 4 HOH A 178 837 539 HOH HOH . D 4 HOH A 179 838 540 HOH HOH . D 4 HOH A 180 850 552 HOH HOH . D 4 HOH A 181 852 554 HOH HOH . D 4 HOH A 182 875 577 HOH HOH . D 4 HOH A 183 881 583 HOH HOH . D 4 HOH A 184 887 589 HOH HOH . D 4 HOH A 185 888 590 HOH HOH . D 4 HOH A 186 895 597 HOH HOH . D 4 HOH A 187 896 598 HOH HOH . D 4 HOH A 188 897 599 HOH HOH . D 4 HOH A 189 898 600 HOH HOH . D 4 HOH A 190 899 601 HOH HOH . D 4 HOH A 191 900 602 HOH HOH . D 4 HOH A 192 901 603 HOH HOH . D 4 HOH A 193 902 604 HOH HOH . D 4 HOH A 194 903 605 HOH HOH . D 4 HOH A 195 904 606 HOH HOH . D 4 HOH A 196 905 607 HOH HOH . D 4 HOH A 197 906 608 HOH HOH . D 4 HOH A 198 908 610 HOH HOH . D 4 HOH A 199 909 611 HOH HOH . D 4 HOH A 200 910 612 HOH HOH . D 4 HOH A 201 911 613 HOH HOH . D 4 HOH A 202 912 614 HOH HOH . D 4 HOH A 203 913 615 HOH HOH . D 4 HOH A 204 914 616 HOH HOH . D 4 HOH A 205 915 617 HOH HOH . D 4 HOH A 206 916 618 HOH HOH . D 4 HOH A 207 918 620 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 N N01 X87 . . . C 3 63.82 45.897 -12.328 1 22.85 ? N01 X87 920 A 1 HETATM 2 N N02 X87 . . . C 3 66.824 45.613 -15.117 1 18.47 ? N02 X87 920 A 1 HETATM 3 N N03 X87 . . . C 3 61.933 47.287 -8.12 1 29.64 ? N03 X87 920 A 1 HETATM 4 N N04 X87 . . . C 3 66.459 43.678 -9.075 1 34.09 ? N04 X87 920 A 1 HETATM 5 N N05 X87 . . . C 3 66.293 42.099 -4.943 1 41.24 ? N05 X87 920 A 1 HETATM 6 N N06 X87 . . . C 3 68.646 43.827 -10.767 1 34.45 ? N06 X87 920 A 1 HETATM 7 C C07 X87 . . . C 3 67.364 44.926 -12.4 1 28.16 ? C07 X87 920 A 1 HETATM 8 C C08 X87 . . . C 3 66.112 45.474 -12.833 1 23.8 ? C08 X87 920 A 1 HETATM 9 C C09 X87 . . . C 3 64.973 45.4 -11.955 1 25.1 ? C09 X87 920 A 1 HETATM 10 C C10 X87 . . . C 3 65.123 44.774 -10.669 1 28.55 ? C10 X87 920 A 1 HETATM 11 C C11 X87 . . . C 3 66.364 44.231 -10.242 1 31.01 ? C11 X87 920 A 1 HETATM 12 C C12 X87 . . . C 3 67.505 44.305 -11.115 1 31.83 ? C12 X87 920 A 1 HETATM 13 C C13 X87 . . . C 3 66.031 46.061 -14.092 1 22.73 ? C13 X87 920 A 1 HETATM 14 C C14 X87 . . . C 3 62.547 45.732 -11.562 1 25.37 ? C14 X87 920 A 1 HETATM 15 C C15 X87 . . . C 3 62.425 46.771 -10.465 1 26.59 ? C15 X87 920 A 1 HETATM 16 C C16 X87 . . . C 3 62.058 46.391 -9.159 1 28.53 ? C16 X87 920 A 1 HETATM 17 C C17 X87 . . . C 3 62.185 48.62 -8.388 1 29.69 ? C17 X87 920 A 1 HETATM 18 C C18 X87 . . . C 3 62.558 49.093 -9.659 1 26.66 ? C18 X87 920 A 1 HETATM 19 C C19 X87 . . . C 3 62.677 48.148 -10.709 1 26.59 ? C19 X87 920 A 1 HETATM 20 C C20 X87 . . . C 3 65.383 42.823 -8.513 1 35 ? C20 X87 920 A 1 HETATM 21 C C21 X87 . . . C 3 65.346 42.98 -6.997 1 38.92 ? C21 X87 920 A 1 HETATM 22 C C22 X87 . . . C 3 66.128 41.84 -6.351 1 39.37 ? C22 X87 920 A 1 HETATM 23 O O23 X87 . . . C 3 65.253 46.962 -14.312 1 18.09 ? O23 X87 920 A 1 HETATM 24 O O24 X87 . . . C 3 68.731 42.789 -9.957 1 37.64 ? O24 X87 920 A 1 HETATM 25 O O25 X87 . . . C 3 69.76 44.366 -11.223 1 35.91 ? O25 X87 920 A 1 # _model_server_stats.io_time_ms 64 _model_server_stats.parse_time_ms 18 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 25 #