data_9BOM # _model_server_result.job_id dXWaQxWpEx_2hKD7kdPqww _model_server_result.datetime_utc '2024-10-18 05:16:05' _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 9bom # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 9BOM # _exptl.entry_id 9BOM _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 120.152 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BENZAMIDINE _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 9BOM _cell.length_a 54.424 _cell.length_b 54.424 _cell.length_c 106.993 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9BOM _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 _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 2 _struct_asym.id B _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 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 25 A CYS 40 1_555 A SG CYS 41 A CYS 56 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf3 A SG CYS 116 A CYS 131 1_555 A SG CYS 183 A CYS 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf4 A SG CYS 148 A CYS 163 1_555 A SG CYS 162 A CYS 177 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf5 A SG CYS 173 A CYS 188 1_555 A SG CYS 197 A CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _chem_comp.formula 'C7 H8 N2' _chem_comp.formula_weight 120.152 _chem_comp.id BEN _chem_comp.mon_nstd_flag . _chem_comp.name BENZAMIDINE _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 BEN doub 70 n y C1 C6 BEN sing 71 n y C1 C BEN sing 72 n n C2 C3 BEN sing 73 n y C2 H2 BEN sing 74 n n C3 C4 BEN doub 75 n y C3 H3 BEN sing 76 n n C4 C5 BEN sing 77 n y C4 H4 BEN sing 78 n n C5 C6 BEN doub 79 n y C5 H5 BEN sing 80 n n C6 H6 BEN sing 81 n n C N1 BEN doub 82 e n C N2 BEN sing 83 n n N1 HN1 BEN sing 84 n n N2 HN21 BEN sing 85 n n N2 HN22 BEN sing 86 n n # _atom_sites.entry_id 9BOM _atom_sites.fract_transf_matrix[1][1] 0.018374 _atom_sites.fract_transf_matrix[1][2] 0.010608 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.021217 _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] 0.009346 _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 BEN A 1 301 301 BEN BEN . C 3 HOH A 1 401 523 HOH HOH . C 3 HOH A 2 402 155 HOH HOH . C 3 HOH A 3 403 450 HOH HOH . C 3 HOH A 4 404 255 HOH HOH . C 3 HOH A 5 405 131 HOH HOH . C 3 HOH A 6 406 232 HOH HOH . C 3 HOH A 7 407 633 HOH HOH . C 3 HOH A 8 408 152 HOH HOH . C 3 HOH A 9 409 205 HOH HOH . C 3 HOH A 10 410 80 HOH HOH . C 3 HOH A 11 411 25 HOH HOH . C 3 HOH A 12 412 3 HOH HOH . C 3 HOH A 13 413 72 HOH HOH . C 3 HOH A 14 414 29 HOH HOH . C 3 HOH A 15 415 67 HOH HOH . C 3 HOH A 16 416 66 HOH HOH . C 3 HOH A 17 417 96 HOH HOH . C 3 HOH A 18 418 88 HOH HOH . C 3 HOH A 19 419 105 HOH HOH . C 3 HOH A 20 420 41 HOH HOH . C 3 HOH A 21 421 273 HOH HOH . C 3 HOH A 22 422 168 HOH HOH . C 3 HOH A 23 423 64 HOH HOH . C 3 HOH A 24 424 102 HOH HOH . C 3 HOH A 25 425 71 HOH HOH . C 3 HOH A 26 426 151 HOH HOH . C 3 HOH A 27 427 52 HOH HOH . C 3 HOH A 28 428 19 HOH HOH . C 3 HOH A 29 429 132 HOH HOH . C 3 HOH A 30 430 97 HOH HOH . C 3 HOH A 31 431 79 HOH HOH . C 3 HOH A 32 432 70 HOH HOH . C 3 HOH A 33 433 104 HOH HOH . C 3 HOH A 34 434 127 HOH HOH . C 3 HOH A 35 435 459 HOH HOH . C 3 HOH A 36 436 532 HOH HOH . C 3 HOH A 37 437 137 HOH HOH . C 3 HOH A 38 438 51 HOH HOH . C 3 HOH A 39 439 153 HOH HOH . C 3 HOH A 40 440 82 HOH HOH . C 3 HOH A 41 441 13 HOH HOH . C 3 HOH A 42 442 188 HOH HOH . C 3 HOH A 43 443 115 HOH HOH . C 3 HOH A 44 444 116 HOH HOH . C 3 HOH A 45 445 109 HOH HOH . C 3 HOH A 46 446 55 HOH HOH . C 3 HOH A 47 447 24 HOH HOH . C 3 HOH A 48 448 85 HOH HOH . C 3 HOH A 49 449 11 HOH HOH . C 3 HOH A 50 450 81 HOH HOH . C 3 HOH A 51 451 20 HOH HOH . C 3 HOH A 52 452 113 HOH HOH . C 3 HOH A 53 453 122 HOH HOH . C 3 HOH A 54 454 28 HOH HOH . C 3 HOH A 55 455 139 HOH HOH . C 3 HOH A 56 456 9 HOH HOH . C 3 HOH A 57 457 278 HOH HOH . C 3 HOH A 58 458 314 HOH HOH . C 3 HOH A 59 459 120 HOH HOH . C 3 HOH A 60 460 149 HOH HOH . C 3 HOH A 61 461 74 HOH HOH . C 3 HOH A 62 462 36 HOH HOH . C 3 HOH A 63 463 8 HOH HOH . C 3 HOH A 64 464 210 HOH HOH . C 3 HOH A 65 465 17 HOH HOH . C 3 HOH A 66 466 418 HOH HOH . C 3 HOH A 67 467 7 HOH HOH . C 3 HOH A 68 468 61 HOH HOH . C 3 HOH A 69 469 176 HOH HOH . C 3 HOH A 70 470 39 HOH HOH . C 3 HOH A 71 471 2 HOH HOH . C 3 HOH A 72 472 316 HOH HOH . C 3 HOH A 73 473 130 HOH HOH . C 3 HOH A 74 474 133 HOH HOH . C 3 HOH A 75 475 91 HOH HOH . C 3 HOH A 76 476 6 HOH HOH . C 3 HOH A 77 477 135 HOH HOH . C 3 HOH A 78 478 58 HOH HOH . C 3 HOH A 79 479 53 HOH HOH . C 3 HOH A 80 480 5 HOH HOH . C 3 HOH A 81 481 31 HOH HOH . C 3 HOH A 82 482 413 HOH HOH . C 3 HOH A 83 483 15 HOH HOH . C 3 HOH A 84 484 106 HOH HOH . C 3 HOH A 85 485 22 HOH HOH . C 3 HOH A 86 486 65 HOH HOH . C 3 HOH A 87 487 26 HOH HOH . C 3 HOH A 88 488 128 HOH HOH . C 3 HOH A 89 489 98 HOH HOH . C 3 HOH A 90 490 35 HOH HOH . C 3 HOH A 91 491 10 HOH HOH . C 3 HOH A 92 492 265 HOH HOH . C 3 HOH A 93 493 40 HOH HOH . C 3 HOH A 94 494 68 HOH HOH . C 3 HOH A 95 495 181 HOH HOH . C 3 HOH A 96 496 197 HOH HOH . C 3 HOH A 97 497 146 HOH HOH . C 3 HOH A 98 498 90 HOH HOH . C 3 HOH A 99 499 48 HOH HOH . C 3 HOH A 100 500 93 HOH HOH . C 3 HOH A 101 501 56 HOH HOH . C 3 HOH A 102 502 12 HOH HOH . C 3 HOH A 103 503 99 HOH HOH . C 3 HOH A 104 504 84 HOH HOH . C 3 HOH A 105 505 100 HOH HOH . C 3 HOH A 106 506 121 HOH HOH . C 3 HOH A 107 507 18 HOH HOH . C 3 HOH A 108 508 626 HOH HOH . C 3 HOH A 109 509 37 HOH HOH . C 3 HOH A 110 510 23 HOH HOH . C 3 HOH A 111 511 27 HOH HOH . C 3 HOH A 112 512 613 HOH HOH . C 3 HOH A 113 513 111 HOH HOH . C 3 HOH A 114 514 347 HOH HOH . C 3 HOH A 115 515 448 HOH HOH . C 3 HOH A 116 516 16 HOH HOH . C 3 HOH A 117 517 252 HOH HOH . C 3 HOH A 118 518 21 HOH HOH . C 3 HOH A 119 519 167 HOH HOH . C 3 HOH A 120 520 14 HOH HOH . C 3 HOH A 121 521 34 HOH HOH . C 3 HOH A 122 522 183 HOH HOH . C 3 HOH A 123 523 378 HOH HOH . C 3 HOH A 124 524 38 HOH HOH . C 3 HOH A 125 525 101 HOH HOH . C 3 HOH A 126 526 49 HOH HOH . C 3 HOH A 127 527 398 HOH HOH . C 3 HOH A 128 528 69 HOH HOH . C 3 HOH A 129 529 186 HOH HOH . C 3 HOH A 130 530 42 HOH HOH . C 3 HOH A 131 531 46 HOH HOH . C 3 HOH A 132 532 45 HOH HOH . C 3 HOH A 133 533 175 HOH HOH . C 3 HOH A 134 534 362 HOH HOH . C 3 HOH A 135 535 246 HOH HOH . C 3 HOH A 136 536 4 HOH HOH . C 3 HOH A 137 537 112 HOH HOH . C 3 HOH A 138 538 59 HOH HOH . C 3 HOH A 139 539 463 HOH HOH . C 3 HOH A 140 540 63 HOH HOH . C 3 HOH A 141 541 119 HOH HOH . C 3 HOH A 142 542 47 HOH HOH . C 3 HOH A 143 543 141 HOH HOH . C 3 HOH A 144 544 148 HOH HOH . C 3 HOH A 145 545 129 HOH HOH . C 3 HOH A 146 546 75 HOH HOH . C 3 HOH A 147 547 44 HOH HOH . C 3 HOH A 148 548 204 HOH HOH . C 3 HOH A 149 549 87 HOH HOH . C 3 HOH A 150 550 172 HOH HOH . C 3 HOH A 151 551 289 HOH HOH . C 3 HOH A 152 552 118 HOH HOH . C 3 HOH A 153 553 220 HOH HOH . C 3 HOH A 154 554 158 HOH HOH . C 3 HOH A 155 555 636 HOH HOH . C 3 HOH A 156 556 177 HOH HOH . C 3 HOH A 157 557 640 HOH HOH . C 3 HOH A 158 558 164 HOH HOH . C 3 HOH A 159 559 57 HOH HOH . C 3 HOH A 160 560 89 HOH HOH . C 3 HOH A 161 561 43 HOH HOH . C 3 HOH A 162 562 92 HOH HOH . C 3 HOH A 163 563 110 HOH HOH . C 3 HOH A 164 564 95 HOH HOH . C 3 HOH A 165 565 639 HOH HOH . C 3 HOH A 166 566 124 HOH HOH . C 3 HOH A 167 567 154 HOH HOH . C 3 HOH A 168 568 50 HOH HOH . C 3 HOH A 169 569 358 HOH HOH . C 3 HOH A 170 570 193 HOH HOH . C 3 HOH A 171 571 173 HOH HOH . C 3 HOH A 172 572 138 HOH HOH . C 3 HOH A 173 573 644 HOH HOH . C 3 HOH A 174 574 322 HOH HOH . C 3 HOH A 175 575 332 HOH HOH . C 3 HOH A 176 576 337 HOH HOH . C 3 HOH A 177 577 117 HOH HOH . C 3 HOH A 178 578 171 HOH HOH . C 3 HOH A 179 579 643 HOH HOH . C 3 HOH A 180 580 297 HOH HOH . C 3 HOH A 181 581 203 HOH HOH . C 3 HOH A 182 582 33 HOH HOH . C 3 HOH A 183 583 78 HOH HOH . C 3 HOH A 184 584 60 HOH HOH . C 3 HOH A 185 585 336 HOH HOH . C 3 HOH A 186 586 62 HOH HOH . C 3 HOH A 187 587 166 HOH HOH . C 3 HOH A 188 588 251 HOH HOH . C 3 HOH A 189 589 162 HOH HOH . C 3 HOH A 190 590 442 HOH HOH . C 3 HOH A 191 591 163 HOH HOH . C 3 HOH A 192 592 239 HOH HOH . C 3 HOH A 193 593 688 HOH HOH . C 3 HOH A 194 594 380 HOH HOH . C 3 HOH A 195 595 267 HOH HOH . C 3 HOH A 196 596 161 HOH HOH . C 3 HOH A 197 597 126 HOH HOH . C 3 HOH A 198 598 497 HOH HOH . C 3 HOH A 199 599 123 HOH HOH . C 3 HOH A 200 600 618 HOH HOH . C 3 HOH A 201 601 114 HOH HOH . C 3 HOH A 202 602 94 HOH HOH . C 3 HOH A 203 603 493 HOH HOH . C 3 HOH A 204 604 247 HOH HOH . C 3 HOH A 205 605 281 HOH HOH . C 3 HOH A 206 606 624 HOH HOH . C 3 HOH A 207 607 76 HOH HOH . C 3 HOH A 208 608 160 HOH HOH . C 3 HOH A 209 609 143 HOH HOH . C 3 HOH A 210 610 310 HOH HOH . C 3 HOH A 211 611 32 HOH HOH . C 3 HOH A 212 612 201 HOH HOH . C 3 HOH A 213 613 83 HOH HOH . C 3 HOH A 214 614 302 HOH HOH . C 3 HOH A 215 615 687 HOH HOH . C 3 HOH A 216 616 165 HOH HOH . C 3 HOH A 217 617 224 HOH HOH . C 3 HOH A 218 618 404 HOH HOH . C 3 HOH A 219 619 169 HOH HOH . C 3 HOH A 220 620 452 HOH HOH . C 3 HOH A 221 621 292 HOH HOH . C 3 HOH A 222 622 147 HOH HOH . C 3 HOH A 223 623 635 HOH HOH . C 3 HOH A 224 624 195 HOH HOH . C 3 HOH A 225 625 233 HOH HOH . C 3 HOH A 226 626 480 HOH HOH . C 3 HOH A 227 627 140 HOH HOH . C 3 HOH A 228 628 192 HOH HOH . C 3 HOH A 229 629 287 HOH HOH . C 3 HOH A 230 630 191 HOH HOH . C 3 HOH A 231 631 194 HOH HOH . C 3 HOH A 232 632 202 HOH HOH . C 3 HOH A 233 633 387 HOH HOH . C 3 HOH A 234 634 218 HOH HOH . C 3 HOH A 235 635 501 HOH HOH . C 3 HOH A 236 636 334 HOH HOH . C 3 HOH A 237 637 359 HOH HOH . C 3 HOH A 238 638 136 HOH HOH . C 3 HOH A 239 639 174 HOH HOH . C 3 HOH A 240 640 512 HOH HOH . C 3 HOH A 241 641 343 HOH HOH . C 3 HOH A 242 642 241 HOH HOH . C 3 HOH A 243 643 86 HOH HOH . C 3 HOH A 244 644 341 HOH HOH . C 3 HOH A 245 645 180 HOH HOH . C 3 HOH A 246 646 144 HOH HOH . C 3 HOH A 247 647 107 HOH HOH . C 3 HOH A 248 648 208 HOH HOH . C 3 HOH A 249 649 134 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 BEN . . . B 2 21.499 1.9 1.336 1 17.02 ? C1 BEN 301 A 1 HETATM 2 C C2 BEN . . . B 2 22.691 2.538 0.991 1 21.79 ? C2 BEN 301 A 1 HETATM 3 C C3 BEN . . . B 2 23.703 2.676 1.931 1 22.42 ? C3 BEN 301 A 1 HETATM 4 C C4 BEN . . . B 2 23.528 2.186 3.22 1 20.79 ? C4 BEN 301 A 1 HETATM 5 C C5 BEN . . . B 2 22.341 1.559 3.573 1 17.59 ? C5 BEN 301 A 1 HETATM 6 C C6 BEN . . . B 2 21.333 1.418 2.636 1 18.58 ? C6 BEN 301 A 1 HETATM 7 C C BEN . . . B 2 20.398 1.737 0.351 1 16.56 ? C BEN 301 A 1 HETATM 8 N N1 BEN . . . B 2 19.525 0.81 0.374 1 16.75 ? N1 BEN 301 A 1 HETATM 9 N N2 BEN . . . B 2 20.36 2.683 -0.63 1 20.72 ? N2 BEN 301 A 1 HETATM 10 H H2 BEN . . . B 2 22.811 2.873 0.131 1 26.19 ? H2 BEN 301 A 1 HETATM 11 H H3 BEN . . . B 2 24.498 3.096 1.695 1 26.94 ? H3 BEN 301 A 1 HETATM 12 H H4 BEN . . . B 2 24.207 2.278 3.849 1 24.98 ? H4 BEN 301 A 1 HETATM 13 H H5 BEN . . . B 2 22.22 1.233 4.435 1 21.14 ? H5 BEN 301 A 1 HETATM 14 H H6 BEN . . . B 2 20.538 0.999 2.875 1 22.33 ? H6 BEN 301 A 1 HETATM 15 H HN1 BEN . . . B 2 19.644 0.251 1.05 1 20.13 ? HN1 BEN 301 A 1 HETATM 16 H HN21 BEN . . . B 2 19.724 2.651 -1.251 1 24.9 ? HN21 BEN 301 A 1 HETATM 17 H HN22 BEN . . . B 2 20.951 3.349 -0.671 1 24.9 ? HN22 BEN 301 A 1 # _model_server_stats.io_time_ms 99 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 17 #