data_5VJG
#
_model_server_result.job_id            O4QYW5oMWNNJJXZ8_As8mg 
_model_server_result.datetime_utc      '2024-11-28 12:31:53' 
_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          5vjg 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":403}' 
#
_entry.id    5VJG 
#
_exptl.entry_id    5VJG 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              156.184 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            "2,2'-bipyridine" 
_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            5VJG 
_cell.length_a            55.45 
_cell.length_b            73.7 
_cell.length_c            181.14 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5VJG 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        20 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 2 2 21' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_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,E 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1,2 
#
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' 3_555 -x,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 90.57 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      3 
_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
metalc ? metalc1 A SG CYS 46 A CYS 46 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? 
metalc ? metalc2 A NE2 HIS 67 A HIS 67 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.286 ? 
metalc ? metalc3 A SG CYS 97 A CYS 97 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? 
metalc ? metalc4 A SG CYS 100 A CYS 100 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? 
metalc ? metalc5 A SG CYS 103 A CYS 103 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? 
metalc ? metalc6 A SG CYS 111 A CYS 111 1_555 C ZN ZN . A ZN 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? 
metalc ? metalc7 A SG CYS 174 A CYS 174 1_555 B ZN ZN . A ZN 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.187 ? 
metalc ? metalc8 B ZN ZN . A ZN 401 1_555 D N1 0BP . A 0BP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.476 ? 
metalc ? metalc9 B ZN ZN . A ZN 401 1_555 D N8 0BP . A 0BP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? 
#
_chem_comp.formula           'C10 H8 N2' 
_chem_comp.formula_weight    156.184 
_chem_comp.id                0BP 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              "2,2'-bipyridine" 
_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
C6 C5 0BP doub 1 n y 
C6 N1 0BP sing 2 n y 
C5 C4 0BP sing 3 n y 
N1 C2 0BP doub 4 n y 
N8 C9 0BP doub 5 n y 
N8 C7 0BP sing 6 n y 
C2 C7 0BP sing 7 n n 
C2 C3 0BP sing 8 n y 
C4 C3 0BP doub 9 n y 
C9 C10 0BP sing 10 n y 
C7 C12 0BP doub 11 n y 
C10 C11 0BP doub 12 n y 
C12 C11 0BP sing 13 n y 
C3 H1 0BP sing 14 n n 
C4 H2 0BP sing 15 n n 
C12 H3 0BP sing 16 n n 
C11 H4 0BP sing 17 n n 
C10 H5 0BP sing 18 n n 
C9 H6 0BP sing 19 n n 
C5 H7 0BP sing 20 n n 
C6 H8 0BP sing 21 n n 
#
_atom_sites.entry_id                     5VJG 
_atom_sites.fract_transf_matrix[1][1]    0.018034 
_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]    0.013569 
_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]    0.005521 
_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 ZN A 1 401 375 ZN ZN . 
C 2 ZN A 1 402 376 ZN ZN . 
D 3 0BP A 1 403 377 0BP BPR . 
E 4 HOH A 1 501 407 HOH HOH . 
E 4 HOH A 2 502 447 HOH HOH . 
E 4 HOH A 3 503 429 HOH HOH . 
E 4 HOH A 4 504 408 HOH HOH . 
E 4 HOH A 5 505 404 HOH HOH . 
E 4 HOH A 6 506 425 HOH HOH . 
E 4 HOH A 7 507 452 HOH HOH . 
E 4 HOH A 8 508 477 HOH HOH . 
E 4 HOH A 9 509 433 HOH HOH . 
E 4 HOH A 10 510 438 HOH HOH . 
E 4 HOH A 11 511 481 HOH HOH . 
E 4 HOH A 12 512 401 HOH HOH . 
E 4 HOH A 13 513 402 HOH HOH . 
E 4 HOH A 14 514 421 HOH HOH . 
E 4 HOH A 15 515 491 HOH HOH . 
E 4 HOH A 16 516 471 HOH HOH . 
E 4 HOH A 17 517 463 HOH HOH . 
E 4 HOH A 18 518 444 HOH HOH . 
E 4 HOH A 19 519 417 HOH HOH . 
E 4 HOH A 20 520 462 HOH HOH . 
E 4 HOH A 21 521 456 HOH HOH . 
E 4 HOH A 22 522 445 HOH HOH . 
E 4 HOH A 23 523 416 HOH HOH . 
E 4 HOH A 24 524 484 HOH HOH . 
E 4 HOH A 25 525 473 HOH HOH . 
E 4 HOH A 26 526 413 HOH HOH . 
E 4 HOH A 27 527 414 HOH HOH . 
E 4 HOH A 28 528 403 HOH HOH . 
E 4 HOH A 29 529 430 HOH HOH . 
E 4 HOH A 30 530 419 HOH HOH . 
E 4 HOH A 31 531 426 HOH HOH . 
E 4 HOH A 32 532 468 HOH HOH . 
E 4 HOH A 33 533 431 HOH HOH . 
E 4 HOH A 34 534 410 HOH HOH . 
E 4 HOH A 35 535 427 HOH HOH . 
E 4 HOH A 36 536 474 HOH HOH . 
E 4 HOH A 37 537 493 HOH HOH . 
E 4 HOH A 38 538 428 HOH HOH . 
E 4 HOH A 39 539 476 HOH HOH . 
E 4 HOH A 40 540 459 HOH HOH . 
E 4 HOH A 41 541 418 HOH HOH . 
E 4 HOH A 42 542 423 HOH HOH . 
E 4 HOH A 43 543 467 HOH HOH . 
E 4 HOH A 44 544 495 HOH HOH . 
E 4 HOH A 45 545 439 HOH HOH . 
E 4 HOH A 46 546 442 HOH HOH . 
E 4 HOH A 47 547 411 HOH HOH . 
E 4 HOH A 48 548 450 HOH HOH . 
E 4 HOH A 49 549 412 HOH HOH . 
E 4 HOH A 50 550 489 HOH HOH . 
E 4 HOH A 51 551 458 HOH HOH . 
E 4 HOH A 52 552 486 HOH HOH . 
E 4 HOH A 53 553 446 HOH HOH . 
E 4 HOH A 54 554 453 HOH HOH . 
E 4 HOH A 55 555 415 HOH HOH . 
E 4 HOH A 56 556 492 HOH HOH . 
E 4 HOH A 57 557 455 HOH HOH . 
E 4 HOH A 58 558 443 HOH HOH . 
E 4 HOH A 59 559 487 HOH HOH . 
E 4 HOH A 60 560 457 HOH HOH . 
E 4 HOH A 61 561 432 HOH HOH . 
E 4 HOH A 62 562 424 HOH HOH . 
E 4 HOH A 63 563 405 HOH HOH . 
E 4 HOH A 64 564 496 HOH HOH . 
E 4 HOH A 65 565 406 HOH HOH . 
E 4 HOH A 66 566 440 HOH HOH . 
E 4 HOH A 67 567 466 HOH HOH . 
E 4 HOH A 68 568 465 HOH HOH . 
E 4 HOH A 69 569 409 HOH HOH . 
E 4 HOH A 70 570 472 HOH HOH . 
E 4 HOH A 71 571 441 HOH HOH . 
E 4 HOH A 72 572 464 HOH HOH . 
E 4 HOH A 73 573 494 HOH HOH . 
E 4 HOH A 74 574 422 HOH HOH . 
E 4 HOH A 75 575 460 HOH HOH . 
E 4 HOH A 76 576 420 HOH HOH . 
E 4 HOH A 77 577 479 HOH HOH . 
E 4 HOH A 78 578 488 HOH HOH . 
E 4 HOH A 79 579 435 HOH HOH . 
E 4 HOH A 80 580 480 HOH HOH . 
E 4 HOH A 81 581 478 HOH HOH . 
E 4 HOH A 82 582 437 HOH HOH . 
E 4 HOH A 83 583 454 HOH HOH . 
E 4 HOH A 84 584 448 HOH HOH . 
E 4 HOH A 85 585 490 HOH HOH . 
E 4 HOH A 86 586 449 HOH HOH . 
E 4 HOH A 87 587 485 HOH HOH . 
E 4 HOH A 88 588 482 HOH HOH . 
E 4 HOH A 89 589 436 HOH HOH . 
E 4 HOH A 90 590 469 HOH HOH . 
E 4 HOH A 91 591 451 HOH HOH . 
E 4 HOH A 92 592 470 HOH HOH . 
E 4 HOH A 93 593 434 HOH HOH . 
E 4 HOH A 94 594 483 HOH HOH . 
E 4 HOH A 95 595 475 HOH HOH . 
E 4 HOH A 96 596 461 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 N1 0BP . . . D 3 2.447 12.188 24.515 1 46.99 ? N1 0BP 403 A 1 
HETATM 2 C C2 0BP . . . D 3 2.485 11.936 25.86 1 54.21 ? C2 0BP 403 A 1 
HETATM 3 C C3 0BP . . . D 3 1.323 11.495 26.549 1 48.07 ? C3 0BP 403 A 1 
HETATM 4 C C4 0BP . . . D 3 0.125 11.353 25.862 1 45.98 ? C4 0BP 403 A 1 
HETATM 5 C C12 0BP . . . D 3 4.067 11.781 27.87 1 50.2 ? C12 0BP 403 A 1 
HETATM 6 C C11 0BP . . . D 3 5.367 11.934 28.367 1 47.42 ? C11 0BP 403 A 1 
HETATM 7 C C10 0BP . . . D 3 6.386 12.325 27.511 1 48.45 ? C10 0BP 403 A 1 
HETATM 8 C C9 0BP . . . D 3 6.127 12.606 26.163 1 47.14 ? C9 0BP 403 A 1 
HETATM 9 N N8 0BP . . . D 3 4.85 12.469 25.697 1 48.61 ? N8 0BP 403 A 1 
HETATM 10 C C7 0BP . . . D 3 3.824 12.078 26.512 1 52.88 ? C7 0BP 403 A 1 
HETATM 11 C C5 0BP . . . D 3 0.065 11.643 24.508 1 45.64 ? C5 0BP 403 A 1 
HETATM 12 C C6 0BP . . . D 3 1.222 12.074 23.845 1 51.4 ? C6 0BP 403 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           11 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           290 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           12 
#