data_1JBU
#
_model_server_result.job_id            r20-r94IRsD5gYGjq0MiXg 
_model_server_result.datetime_utc      '2024-11-22 07:27:48' 
_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          1jbu 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"E","auth_seq_id":300}' 
#
_entry.id    1JBU 
#
_exptl.entry_id    1JBU 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              120.152 
_entity.id                          5 
_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         90 
_cell.entry_id            1JBU 
_cell.length_a            67.44 
_cell.length_b            84.51 
_cell.length_c            84.84 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1JBU 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 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
PISA trimeric 3 author_and_software_defined_assembly 1 
PISA trimeric 3 software_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,C,D,E,F,G,H 1 1 
B,G 2 2 
A,C,D,E,F,H 2 1 
#
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_455 x-1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 -33.72 42.255 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 H CYS 22 1_555 A SG CYS 12 H CYS 27 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf2 A SG CYS 26 H CYS 42 1_555 A SG CYS 42 H CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? 
disulf ? disulf3 A SG CYS 110 H CYS 122 1_555 B SG CYS 46 L CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf4 A SG CYS 158 H CYS 168 1_555 A SG CYS 177 H CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf5 A SG CYS 188 H CYS 191 1_555 A SG CYS 216 H CYS 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? 
disulf ? disulf6 B SG CYS 2 L CYS 91 1_555 B SG CYS 13 L CYS 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? 
disulf ? disulf7 B SG CYS 9 L CYS 98 1_555 B SG CYS 23 L CYS 112 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? 
disulf ? disulf8 B SG CYS 25 L CYS 114 1_555 B SG CYS 38 L CYS 127 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
disulf ? disulf9 C SG CYS 7 X CYS 7 1_555 C SG CYS 13 X CYS 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? 
#
_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                     1JBU 
_atom_sites.fract_transf_matrix[1][1]    0.014828 
_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]    0.011833 
_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]    0.011787 
_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 4 SO4 H 1 308 308 SO4 SO4 . 
E 5 BEN H 1 300 300 BEN UNK . 
F 6 HOH H 1 401 401 HOH HOH . 
F 6 HOH H 2 402 402 HOH HOH . 
F 6 HOH H 3 403 403 HOH HOH . 
F 6 HOH H 4 405 405 HOH HOH . 
F 6 HOH H 5 406 406 HOH HOH . 
F 6 HOH H 6 407 407 HOH HOH . 
F 6 HOH H 7 409 409 HOH HOH . 
F 6 HOH H 8 410 410 HOH HOH . 
F 6 HOH H 9 411 411 HOH HOH . 
F 6 HOH H 10 412 412 HOH HOH . 
F 6 HOH H 11 415 415 HOH HOH . 
F 6 HOH H 12 416 416 HOH HOH . 
F 6 HOH H 13 417 417 HOH HOH . 
F 6 HOH H 14 420 420 HOH HOH . 
F 6 HOH H 15 421 421 HOH HOH . 
F 6 HOH H 16 423 423 HOH HOH . 
F 6 HOH H 17 424 424 HOH HOH . 
F 6 HOH H 18 428 428 HOH HOH . 
F 6 HOH H 19 430 430 HOH HOH . 
F 6 HOH H 20 431 431 HOH HOH . 
F 6 HOH H 21 432 432 HOH HOH . 
F 6 HOH H 22 433 433 HOH HOH . 
F 6 HOH H 23 434 434 HOH HOH . 
F 6 HOH H 24 435 435 HOH HOH . 
F 6 HOH H 25 438 438 HOH HOH . 
F 6 HOH H 26 441 441 HOH HOH . 
F 6 HOH H 27 442 442 HOH HOH . 
F 6 HOH H 28 444 444 HOH HOH . 
F 6 HOH H 29 445 445 HOH HOH . 
F 6 HOH H 30 446 446 HOH HOH . 
F 6 HOH H 31 448 448 HOH HOH . 
F 6 HOH H 32 449 449 HOH HOH . 
F 6 HOH H 33 450 450 HOH HOH . 
F 6 HOH H 34 454 454 HOH HOH . 
F 6 HOH H 35 456 456 HOH HOH . 
F 6 HOH H 36 457 457 HOH HOH . 
F 6 HOH H 37 459 459 HOH HOH . 
F 6 HOH H 38 461 461 HOH HOH . 
F 6 HOH H 39 463 463 HOH HOH . 
F 6 HOH H 40 467 467 HOH HOH . 
F 6 HOH H 41 469 469 HOH HOH . 
F 6 HOH H 42 472 472 HOH HOH . 
F 6 HOH H 43 473 473 HOH HOH . 
F 6 HOH H 44 474 474 HOH HOH . 
F 6 HOH H 45 475 475 HOH HOH . 
F 6 HOH H 46 476 476 HOH HOH . 
F 6 HOH H 47 477 477 HOH HOH . 
F 6 HOH H 48 478 478 HOH HOH . 
F 6 HOH H 49 479 479 HOH HOH . 
F 6 HOH H 50 480 480 HOH HOH . 
F 6 HOH H 51 482 482 HOH HOH . 
F 6 HOH H 52 483 483 HOH HOH . 
F 6 HOH H 53 484 484 HOH HOH . 
F 6 HOH H 54 485 485 HOH HOH . 
F 6 HOH H 55 486 486 HOH HOH . 
F 6 HOH H 56 487 487 HOH HOH . 
F 6 HOH H 57 488 488 HOH HOH . 
F 6 HOH H 58 490 490 HOH HOH . 
F 6 HOH H 59 491 491 HOH HOH . 
F 6 HOH H 60 493 493 HOH HOH . 
F 6 HOH H 61 494 494 HOH HOH . 
F 6 HOH H 62 495 495 HOH HOH . 
F 6 HOH H 63 496 496 HOH HOH . 
F 6 HOH H 64 497 497 HOH HOH . 
F 6 HOH H 65 498 498 HOH HOH . 
F 6 HOH H 66 499 499 HOH HOH . 
F 6 HOH H 67 500 500 HOH HOH . 
F 6 HOH H 68 502 502 HOH HOH . 
F 6 HOH H 69 503 503 HOH HOH . 
F 6 HOH H 70 504 504 HOH HOH . 
F 6 HOH H 71 505 505 HOH HOH . 
F 6 HOH H 72 507 507 HOH HOH . 
F 6 HOH H 73 508 508 HOH HOH . 
F 6 HOH H 74 509 509 HOH HOH . 
F 6 HOH H 75 512 512 HOH HOH . 
F 6 HOH H 76 516 516 HOH HOH . 
F 6 HOH H 77 519 519 HOH HOH . 
F 6 HOH H 78 520 520 HOH HOH . 
F 6 HOH H 79 521 521 HOH HOH . 
F 6 HOH H 80 522 522 HOH HOH . 
F 6 HOH H 81 523 523 HOH HOH . 
F 6 HOH H 82 524 524 HOH HOH . 
F 6 HOH H 83 526 526 HOH HOH . 
F 6 HOH H 84 527 527 HOH HOH . 
F 6 HOH H 85 530 530 HOH HOH . 
F 6 HOH H 86 531 531 HOH HOH . 
F 6 HOH H 87 532 532 HOH HOH . 
F 6 HOH H 88 533 533 HOH HOH . 
F 6 HOH H 89 534 534 HOH HOH . 
F 6 HOH H 90 535 535 HOH HOH . 
F 6 HOH H 91 536 536 HOH HOH . 
F 6 HOH H 92 539 539 HOH HOH . 
F 6 HOH H 93 540 540 HOH HOH . 
F 6 HOH H 94 543 543 HOH HOH . 
F 6 HOH H 95 544 544 HOH HOH . 
F 6 HOH H 96 545 545 HOH HOH . 
F 6 HOH H 97 546 546 HOH HOH . 
F 6 HOH H 98 548 548 HOH HOH . 
F 6 HOH H 99 549 549 HOH HOH . 
F 6 HOH H 100 550 550 HOH HOH . 
F 6 HOH H 101 551 551 HOH HOH . 
F 6 HOH H 102 552 552 HOH HOH . 
F 6 HOH H 103 553 553 HOH HOH . 
F 6 HOH H 104 554 554 HOH HOH . 
F 6 HOH H 105 556 556 HOH HOH . 
F 6 HOH H 106 557 557 HOH HOH . 
F 6 HOH H 107 558 558 HOH HOH . 
F 6 HOH H 108 560 560 HOH HOH . 
F 6 HOH H 109 561 561 HOH HOH . 
F 6 HOH H 110 562 562 HOH HOH . 
F 6 HOH H 111 563 563 HOH HOH . 
F 6 HOH H 112 565 565 HOH HOH . 
F 6 HOH H 113 566 566 HOH HOH . 
F 6 HOH H 114 567 567 HOH HOH . 
F 6 HOH H 115 568 568 HOH HOH . 
F 6 HOH H 116 569 569 HOH HOH . 
F 6 HOH H 117 571 571 HOH HOH . 
F 6 HOH H 118 572 572 HOH HOH . 
F 6 HOH H 119 573 573 HOH HOH . 
F 6 HOH H 120 574 574 HOH HOH . 
F 6 HOH H 121 577 577 HOH HOH . 
F 6 HOH H 122 585 585 HOH HOH . 
F 6 HOH H 123 586 586 HOH HOH . 
F 6 HOH H 124 587 587 HOH HOH . 
F 6 HOH H 125 588 588 HOH HOH . 
F 6 HOH H 126 589 589 HOH HOH . 
F 6 HOH H 127 590 590 HOH HOH . 
F 6 HOH H 128 591 591 HOH HOH . 
F 6 HOH H 129 592 592 HOH HOH . 
F 6 HOH H 130 593 593 HOH HOH . 
F 6 HOH H 131 594 594 HOH HOH . 
F 6 HOH H 132 595 595 HOH HOH . 
F 6 HOH H 133 600 600 HOH HOH . 
F 6 HOH H 134 601 601 HOH HOH . 
F 6 HOH H 135 602 602 HOH HOH . 
F 6 HOH H 136 603 603 HOH HOH . 
G 6 HOH L 1 408 408 HOH HOH . 
G 6 HOH L 2 413 413 HOH HOH . 
G 6 HOH L 3 414 414 HOH HOH . 
G 6 HOH L 4 422 422 HOH HOH . 
G 6 HOH L 5 425 425 HOH HOH . 
G 6 HOH L 6 426 426 HOH HOH . 
G 6 HOH L 7 427 427 HOH HOH . 
G 6 HOH L 8 436 436 HOH HOH . 
G 6 HOH L 9 437 437 HOH HOH . 
G 6 HOH L 10 440 440 HOH HOH . 
G 6 HOH L 11 443 443 HOH HOH . 
G 6 HOH L 12 447 447 HOH HOH . 
G 6 HOH L 13 451 451 HOH HOH . 
G 6 HOH L 14 452 452 HOH HOH . 
G 6 HOH L 15 453 453 HOH HOH . 
G 6 HOH L 16 460 460 HOH HOH . 
G 6 HOH L 17 462 462 HOH HOH . 
G 6 HOH L 18 466 466 HOH HOH . 
G 6 HOH L 19 468 468 HOH HOH . 
G 6 HOH L 20 481 481 HOH HOH . 
G 6 HOH L 21 489 489 HOH HOH . 
G 6 HOH L 22 506 506 HOH HOH . 
G 6 HOH L 23 510 510 HOH HOH . 
G 6 HOH L 24 513 513 HOH HOH . 
G 6 HOH L 25 514 514 HOH HOH . 
G 6 HOH L 26 517 517 HOH HOH . 
G 6 HOH L 27 518 518 HOH HOH . 
G 6 HOH L 28 525 525 HOH HOH . 
G 6 HOH L 29 537 537 HOH HOH . 
G 6 HOH L 30 538 538 HOH HOH . 
G 6 HOH L 31 541 541 HOH HOH . 
G 6 HOH L 32 542 542 HOH HOH . 
G 6 HOH L 33 555 555 HOH HOH . 
G 6 HOH L 34 559 559 HOH HOH . 
G 6 HOH L 35 570 570 HOH HOH . 
G 6 HOH L 36 575 575 HOH HOH . 
G 6 HOH L 37 576 576 HOH HOH . 
G 6 HOH L 38 579 579 HOH HOH . 
G 6 HOH L 39 580 580 HOH HOH . 
G 6 HOH L 40 581 581 HOH HOH . 
G 6 HOH L 41 597 597 HOH HOH . 
G 6 HOH L 42 598 598 HOH HOH . 
G 6 HOH L 43 599 599 HOH HOH . 
H 6 HOH X 1 404 404 HOH HOH . 
H 6 HOH X 2 429 429 HOH HOH . 
H 6 HOH X 3 439 439 HOH HOH . 
H 6 HOH X 4 458 458 HOH HOH . 
H 6 HOH X 5 464 464 HOH HOH . 
H 6 HOH X 6 465 465 HOH HOH . 
H 6 HOH X 7 470 470 HOH HOH . 
H 6 HOH X 8 471 471 HOH HOH . 
H 6 HOH X 9 492 492 HOH HOH . 
H 6 HOH X 10 501 501 HOH HOH . 
H 6 HOH X 11 511 511 HOH HOH . 
H 6 HOH X 12 515 515 HOH HOH . 
H 6 HOH X 13 528 528 HOH HOH . 
H 6 HOH X 14 529 529 HOH HOH . 
H 6 HOH X 15 578 578 HOH HOH . 
H 6 HOH X 16 582 582 HOH HOH . 
H 6 HOH X 17 583 583 HOH HOH . 
H 6 HOH X 18 584 584 HOH HOH . 
H 6 HOH X 19 596 596 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 . . . E 5 2.051 9.164 -7.222 1 78.66 ? C1 BEN 300 H 1 
HETATM 2 C C2 BEN . . . E 5 2.241 7.869 -6.854 1 78.17 ? C2 BEN 300 H 1 
HETATM 3 C C3 BEN . . . E 5 3.162 7.651 -5.793 1 76.98 ? C3 BEN 300 H 1 
HETATM 4 C C4 BEN . . . E 5 3.898 8.657 -5.088 1 75.94 ? C4 BEN 300 H 1 
HETATM 5 C C5 BEN . . . E 5 3.648 9.997 -5.529 1 75.74 ? C5 BEN 300 H 1 
HETATM 6 C C6 BEN . . . E 5 2.715 10.212 -6.603 1 76.77 ? C6 BEN 300 H 1 
HETATM 7 C C BEN . . . E 5 1.148 9.478 -8.272 1 80.22 ? C BEN 300 H 1 
HETATM 8 N N1 BEN . . . E 5 0.844 8.567 -9.203 1 80.24 ? N1 BEN 300 H 1 
HETATM 9 N N2 BEN . . . E 5 0.566 10.66 -8.385 1 80.24 ? N2 BEN 300 H 1 
#
_model_server_stats.io_time_ms              12 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           314 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           9 
#