data_1LDO
#
_model_server_result.job_id            ZnbJf4J_iMtRtrE8uUTKQg 
_model_server_result.datetime_utc      '2024-12-01 06:47:49' 
_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          1ldo 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":150}' 
#
_entry.id    1LDO 
#
_exptl.entry_id    1LDO 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              230.284 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            NORBIOTIN 
_entity.pdbx_number_of_molecules    2 
_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            1LDO 
_cell.length_a            71.103 
_cell.length_b            79.813 
_cell.length_c            43.14 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 1LDO 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        18 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 21 21 2' 
#
_pdbx_struct_assembly.method_details        PISA,PQS 
_pdbx_struct_assembly.oligomeric_details    tetrameric 
_pdbx_struct_assembly.oligomeric_count      4 
_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,F,G,H 
_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' 2_565 -x,-y+1,z -1 0 0 0 -1 0 0 0 1 0 79.813 0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 D N N 
? 3 F N 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 4 A CYS 4 1_555 A SG CYS 83 A CYS 83 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? 
disulf ? disulf2 B SG CYS 4 B CYS 204 1_555 B SG CYS 83 B CYS 283 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.142 ? 
covale ? covale1 A ND2 ASN 17 A ASN 17 1_555 C C1 NAG . A NAG 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.457 ? 
covale ? covale2 B ND2 ASN 17 B ASN 217 1_555 E C1 NAG . B NAG 352 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? 
#
_chem_comp.formula           'C9 H14 N2 O3 S' 
_chem_comp.formula_weight    230.284 
_chem_comp.id                SNR 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              NORBIOTIN 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     '4-(2-OXO-HEXAHYDRO-THIENO[3,4-D]IMIDAZOL-4-YL)-BUTYRIC ACID' 
#
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 N2 SNR sing 320 n n 
C1 N5 SNR sing 321 n n 
C1 O11 SNR doub 322 n n 
N2 C3 SNR sing 323 n n 
N2 HN2 SNR sing 324 n n 
C3 C4 SNR sing 325 n n 
C3 C8 SNR sing 326 n n 
C3 H3 SNR sing 327 n n 
C4 N5 SNR sing 328 n n 
C4 C6 SNR sing 329 n n 
C4 H4 SNR sing 330 n n 
N5 HN5 SNR sing 331 n n 
C6 S7 SNR sing 332 n n 
C6 C12 SNR sing 333 n n 
C6 H6 SNR sing 334 n n 
S7 C8 SNR sing 335 n n 
C8 H81 SNR sing 336 n n 
C8 H82 SNR sing 337 n n 
C12 C13 SNR sing 338 n n 
C12 H11 SNR sing 339 n n 
C12 H21 SNR sing 340 n n 
C13 C14 SNR sing 341 n n 
C13 H12 SNR sing 342 n n 
C13 H22 SNR sing 343 n n 
C14 C15 SNR sing 344 n n 
C14 H13 SNR sing 345 n n 
C14 H23 SNR sing 346 n n 
C15 O16 SNR sing 347 n n 
C15 O17 SNR doub 348 n n 
O16 H16 SNR sing 349 n n 
#
_atom_sites.entry_id                     1LDO 
_atom_sites.fract_transf_matrix[1][1]    0.014064 
_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]    0.012529 
_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]    0.02318 
_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
C 2 NAG A 1 151 401 NAG NAG . 
D 3 SNR A 1 150 150 SNR SNR . 
E 2 NAG B 1 352 402 NAG NAG . 
F 3 SNR B 1 350 350 SNR SNR . 
G 4 HOH A 1 402 402 HOH WAT . 
G 4 HOH A 2 404 404 HOH WAT . 
G 4 HOH A 3 405 405 HOH WAT . 
G 4 HOH A 4 409 409 HOH WAT . 
G 4 HOH A 5 410 410 HOH WAT . 
G 4 HOH A 6 411 411 HOH WAT . 
G 4 HOH A 7 414 414 HOH WAT . 
G 4 HOH A 8 416 416 HOH WAT . 
G 4 HOH A 9 417 417 HOH WAT . 
G 4 HOH A 10 420 420 HOH WAT . 
G 4 HOH A 11 424 424 HOH WAT . 
G 4 HOH A 12 425 425 HOH WAT . 
G 4 HOH A 13 426 426 HOH WAT . 
G 4 HOH A 14 430 430 HOH WAT . 
G 4 HOH A 15 434 434 HOH WAT . 
G 4 HOH A 16 435 435 HOH WAT . 
G 4 HOH A 17 436 436 HOH WAT . 
G 4 HOH A 18 437 437 HOH WAT . 
G 4 HOH A 19 438 438 HOH WAT . 
G 4 HOH A 20 440 440 HOH WAT . 
G 4 HOH A 21 441 441 HOH WAT . 
G 4 HOH A 22 442 442 HOH WAT . 
G 4 HOH A 23 445 445 HOH WAT . 
G 4 HOH A 24 446 446 HOH WAT . 
G 4 HOH A 25 447 447 HOH WAT . 
G 4 HOH A 26 457 457 HOH WAT . 
G 4 HOH A 27 459 459 HOH WAT . 
G 4 HOH A 28 462 462 HOH WAT . 
G 4 HOH A 29 464 464 HOH WAT . 
G 4 HOH A 30 465 465 HOH WAT . 
G 4 HOH A 31 466 466 HOH WAT . 
G 4 HOH A 32 467 467 HOH WAT . 
G 4 HOH A 33 468 468 HOH WAT . 
G 4 HOH A 34 470 470 HOH WAT . 
G 4 HOH A 35 472 472 HOH WAT . 
G 4 HOH A 36 473 473 HOH WAT . 
G 4 HOH A 37 475 475 HOH WAT . 
G 4 HOH A 38 476 476 HOH WAT . 
G 4 HOH A 39 481 481 HOH WAT . 
G 4 HOH A 40 482 482 HOH WAT . 
G 4 HOH A 41 484 484 HOH WAT . 
G 4 HOH A 42 485 485 HOH WAT . 
G 4 HOH A 43 490 490 HOH WAT . 
G 4 HOH A 44 492 492 HOH WAT . 
G 4 HOH A 45 497 497 HOH WAT . 
G 4 HOH A 46 500 500 HOH WAT . 
G 4 HOH A 47 505 505 HOH WAT . 
H 4 HOH B 1 401 401 HOH WAT . 
H 4 HOH B 2 403 403 HOH WAT . 
H 4 HOH B 3 406 406 HOH WAT . 
H 4 HOH B 4 407 407 HOH WAT . 
H 4 HOH B 5 408 408 HOH WAT . 
H 4 HOH B 6 412 412 HOH WAT . 
H 4 HOH B 7 413 413 HOH WAT . 
H 4 HOH B 8 415 415 HOH WAT . 
H 4 HOH B 9 418 418 HOH WAT . 
H 4 HOH B 10 419 419 HOH WAT . 
H 4 HOH B 11 421 421 HOH WAT . 
H 4 HOH B 12 422 422 HOH WAT . 
H 4 HOH B 13 423 423 HOH WAT . 
H 4 HOH B 14 427 427 HOH WAT . 
H 4 HOH B 15 428 428 HOH WAT . 
H 4 HOH B 16 429 429 HOH WAT . 
H 4 HOH B 17 431 431 HOH WAT . 
H 4 HOH B 18 432 432 HOH WAT . 
H 4 HOH B 19 433 433 HOH WAT . 
H 4 HOH B 20 439 439 HOH WAT . 
H 4 HOH B 21 443 443 HOH WAT . 
H 4 HOH B 22 444 444 HOH WAT . 
H 4 HOH B 23 448 448 HOH WAT . 
H 4 HOH B 24 449 449 HOH WAT . 
H 4 HOH B 25 450 450 HOH WAT . 
H 4 HOH B 26 451 451 HOH WAT . 
H 4 HOH B 27 452 452 HOH WAT . 
H 4 HOH B 28 453 453 HOH WAT . 
H 4 HOH B 29 454 454 HOH WAT . 
H 4 HOH B 30 455 455 HOH WAT . 
H 4 HOH B 31 456 456 HOH WAT . 
H 4 HOH B 32 458 458 HOH WAT . 
H 4 HOH B 33 460 460 HOH WAT . 
H 4 HOH B 34 461 461 HOH WAT . 
H 4 HOH B 35 463 463 HOH WAT . 
H 4 HOH B 36 469 469 HOH WAT . 
H 4 HOH B 37 471 471 HOH WAT . 
H 4 HOH B 38 474 474 HOH WAT . 
H 4 HOH B 39 477 477 HOH WAT . 
H 4 HOH B 40 478 478 HOH WAT . 
H 4 HOH B 41 479 479 HOH WAT . 
H 4 HOH B 42 480 480 HOH WAT . 
H 4 HOH B 43 483 483 HOH WAT . 
H 4 HOH B 44 486 486 HOH WAT . 
H 4 HOH B 45 487 487 HOH WAT . 
H 4 HOH B 46 488 488 HOH WAT . 
H 4 HOH B 47 489 489 HOH WAT . 
H 4 HOH B 48 491 491 HOH WAT . 
H 4 HOH B 49 493 493 HOH WAT . 
H 4 HOH B 50 494 494 HOH WAT . 
H 4 HOH B 51 495 495 HOH WAT . 
H 4 HOH B 52 496 496 HOH WAT . 
H 4 HOH B 53 498 498 HOH WAT . 
H 4 HOH B 54 499 499 HOH WAT . 
H 4 HOH B 55 501 501 HOH WAT . 
H 4 HOH B 56 502 502 HOH WAT . 
H 4 HOH B 57 503 503 HOH WAT . 
H 4 HOH B 58 504 504 HOH WAT . 
H 4 HOH B 59 506 506 HOH WAT . 
H 4 HOH B 60 507 507 HOH WAT . 
#
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 SNR . . . D 3 -0.045 26.521 22.322 1 21.68 ? C1 SNR 150 A 1 
HETATM 2 N N2 SNR . . . D 3 0.133 27.504 21.418 1 20.75 ? N2 SNR 150 A 1 
HETATM 3 C C3 SNR . . . D 3 0.072 28.791 22.072 1 20.91 ? C3 SNR 150 A 1 
HETATM 4 C C4 SNR . . . D 3 -0.184 28.471 23.57 1 21.28 ? C4 SNR 150 A 1 
HETATM 5 N N5 SNR . . . D 3 -0.226 27.009 23.575 1 20.02 ? N5 SNR 150 A 1 
HETATM 6 C C6 SNR . . . D 3 -1.542 29.221 23.993 1 21.11 ? C6 SNR 150 A 1 
HETATM 7 S S7 SNR . . . D 3 -2.517 29.382 22.453 1 20.46 ? S7 SNR 150 A 1 
HETATM 8 C C8 SNR . . . D 3 -1.04 29.684 21.421 1 20.49 ? C8 SNR 150 A 1 
HETATM 9 O O11 SNR . . . D 3 -0.039 25.328 22.035 1 21.34 ? O11 SNR 150 A 1 
HETATM 10 C C12 SNR . . . D 3 -2.331 28.558 25.135 1 22.44 ? C12 SNR 150 A 1 
HETATM 11 C C13 SNR . . . D 3 -3.52 29.394 25.556 1 24.64 ? C13 SNR 150 A 1 
HETATM 12 C C14 SNR . . . D 3 -4.062 28.991 26.891 1 27.65 ? C14 SNR 150 A 1 
HETATM 13 C C15 SNR . . . D 3 -3.39 29.79 27.976 1 28.7 ? C15 SNR 150 A 1 
HETATM 14 O O16 SNR . . . D 3 -2.533 30.634 27.767 1 30.08 ? O16 SNR 150 A 1 
HETATM 15 O O17 SNR . . . D 3 -3.673 29.598 28.829 1 30.29 ? O17 SNR 150 A 1 
#
_model_server_stats.io_time_ms              8 
_model_server_stats.parse_time_ms           5 
_model_server_stats.create_model_time_ms    10 
_model_server_stats.query_time_ms           247 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           15 
#