data_4NOT
#
_model_server_result.job_id            HJLSV-78O-Y4pI4tlf6H6w 
_model_server_result.datetime_utc      '2025-07-20 09:48:25' 
_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          4not 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":303}' 
#
_entry.id    4NOT 
#
_exptl.entry_id    4NOT 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              408.629 
_entity.id                          4 
_entity.src_method                  man 
_entity.type                        non-polymer 
_entity.pdbx_description            '5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannopyranoside' 
_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            4NOT 
_cell.length_a            64.94 
_cell.length_b            66.61 
_cell.length_c            108.65 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4NOT 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
_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' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -66.61 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_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 OE2 GLU 8 A GLU 8 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.301 ? 
metalc ? metalc2 A OD2 ASP 10 A ASP 10 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? 
metalc ? metalc3 A OD2 ASP 10 A ASP 10 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? 
metalc ? metalc4 A OD1 ASP 10 A ASP 10 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.982 ? 
metalc ? metalc5 A O TYR 12 A TYR 12 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.705 ? 
metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.384 ? 
metalc ? metalc7 A OD2 ASP 19 A ASP 19 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.462 ? 
metalc ? metalc8 A OD1 ASP 19 A ASP 19 1_555 C CA CA . A CA 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? 
metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 B MN MN . A MN 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.531 ? 
metalc ? metalc10 B MN MN . A MN 301 1_555 E O HOH . A HOH 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? 
metalc ? metalc11 B MN MN . A MN 301 1_555 E O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.252 ? 
metalc ? metalc12 C CA CA . A CA 302 1_555 E O HOH . A HOH 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? 
metalc ? metalc13 C CA CA . A CA 302 1_555 E O HOH . A HOH 407 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.745 ? 
#
_chem_comp.formula           'C14 H15 Br Cl N O6' 
_chem_comp.formula_weight    408.629 
_chem_comp.id                XMM 
_chem_comp.mon_nstd_flag     n 
_chem_comp.name              '5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannopyranoside' 
_chem_comp.type              d-saccharide 
_chem_comp.pdbx_synonyms     '(2R,3S,4S,5S,6R)-2-(5-BROMO-4-CHLORO-1H-INDOL-3-YLOXY)-TETRAHYDRO-6-(HYDROXYMETHYL)-2H-PYRAN-3,4,5-TRIOL;(5-BROMO-4-CHLORO-3-INDOLYL)-Alpha-D-MANNOSE;5-bromo-4-chloro-1H-indol-3-yl alpha-D-mannoside;5-bromo-4-chloro-1H-indol-3-yl D-mannoside;5-bromo-4-chloro-1H-indol-3-yl mannoside' 
#
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
O2 C2 XMM sing 363 n n 
O2 HO2 XMM sing 364 n n 
C2 C3 XMM sing 365 n n 
C2 C1 XMM sing 366 n n 
C2 H2 XMM sing 367 n n 
C3 O3 XMM sing 368 n n 
C3 C4 XMM sing 369 n n 
C3 H3 XMM sing 370 n n 
O3 HO3 XMM sing 371 n n 
C4 O4 XMM sing 372 n n 
C4 C5 XMM sing 373 n n 
C4 H4 XMM sing 374 n n 
O4 HO4 XMM sing 375 n n 
C5 O5 XMM sing 376 n n 
C5 C6 XMM sing 377 n n 
C5 H5 XMM sing 378 n n 
O5 C1 XMM sing 379 n n 
C6 O6 XMM sing 380 n n 
C6 H61 XMM sing 381 n n 
C6 H62 XMM sing 382 n n 
O6 HO6 XMM sing 383 n n 
C1 O1 XMM sing 384 n n 
C1 H1 XMM sing 385 n n 
O1 C7 XMM sing 386 n n 
C7 C8 XMM sing 387 n y 
C7 C11 XMM doub 388 n y 
C8 C9 XMM doub 389 n y 
C8 C10 XMM sing 390 n y 
C9 N1 XMM sing 391 n y 
C9 C12 XMM sing 392 n y 
N1 C11 XMM sing 393 n y 
N1 HN1 XMM sing 394 n n 
C11 H11 XMM sing 395 n n 
C10 CL XMM sing 396 n n 
C10 C13 XMM doub 397 n y 
C13 BR XMM sing 398 n n 
C13 C14 XMM sing 399 n y 
C14 C12 XMM doub 400 n y 
C14 H14 XMM sing 401 n n 
C12 H12 XMM sing 402 n n 
#
_atom_sites.entry_id                     4NOT 
_atom_sites.fract_transf_matrix[1][1]    0.015399 
_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]    0.015013 
_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]    0.009204 
_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 MN A 1 301 1 MN MN . 
C 3 CA A 1 302 1 CA CA . 
D 4 XMM A 1 303 1 XMM XMM . 
E 5 HOH A 1 401 1 HOH HOH . 
E 5 HOH A 2 402 2 HOH HOH . 
E 5 HOH A 3 403 3 HOH HOH . 
E 5 HOH A 4 404 4 HOH HOH . 
E 5 HOH A 5 405 5 HOH HOH . 
E 5 HOH A 6 406 6 HOH HOH . 
E 5 HOH A 7 407 7 HOH HOH . 
E 5 HOH A 8 408 8 HOH HOH . 
E 5 HOH A 9 409 9 HOH HOH . 
E 5 HOH A 10 410 10 HOH HOH . 
E 5 HOH A 11 411 11 HOH HOH . 
E 5 HOH A 12 412 12 HOH HOH . 
E 5 HOH A 13 413 13 HOH HOH . 
E 5 HOH A 14 414 14 HOH HOH . 
E 5 HOH A 15 415 15 HOH HOH . 
E 5 HOH A 16 416 16 HOH HOH . 
E 5 HOH A 17 417 17 HOH HOH . 
E 5 HOH A 18 418 18 HOH HOH . 
E 5 HOH A 19 419 19 HOH HOH . 
E 5 HOH A 20 420 20 HOH HOH . 
E 5 HOH A 21 421 21 HOH HOH . 
E 5 HOH A 22 422 22 HOH HOH . 
E 5 HOH A 23 423 23 HOH HOH . 
E 5 HOH A 24 424 24 HOH HOH . 
E 5 HOH A 25 425 25 HOH HOH . 
E 5 HOH A 26 426 26 HOH HOH . 
E 5 HOH A 27 427 27 HOH HOH . 
E 5 HOH A 28 428 28 HOH HOH . 
E 5 HOH A 29 429 29 HOH HOH . 
E 5 HOH A 30 430 30 HOH HOH . 
E 5 HOH A 31 431 31 HOH HOH . 
E 5 HOH A 32 432 32 HOH HOH . 
E 5 HOH A 33 433 33 HOH HOH . 
E 5 HOH A 34 434 34 HOH HOH . 
E 5 HOH A 35 435 35 HOH HOH . 
E 5 HOH A 36 436 36 HOH HOH . 
E 5 HOH A 37 437 37 HOH HOH . 
E 5 HOH A 38 438 38 HOH HOH . 
E 5 HOH A 39 439 39 HOH HOH . 
E 5 HOH A 40 440 40 HOH HOH . 
E 5 HOH A 41 441 41 HOH HOH . 
E 5 HOH A 42 442 42 HOH HOH . 
E 5 HOH A 43 443 43 HOH HOH . 
E 5 HOH A 44 444 44 HOH HOH . 
E 5 HOH A 45 445 45 HOH HOH . 
E 5 HOH A 46 446 46 HOH HOH . 
E 5 HOH A 47 447 47 HOH HOH . 
E 5 HOH A 48 448 48 HOH HOH . 
E 5 HOH A 49 449 49 HOH HOH . 
E 5 HOH A 50 450 50 HOH HOH . 
E 5 HOH A 51 451 51 HOH HOH . 
E 5 HOH A 52 452 52 HOH HOH . 
E 5 HOH A 53 453 53 HOH HOH . 
E 5 HOH A 54 454 54 HOH HOH . 
E 5 HOH A 55 455 55 HOH HOH . 
E 5 HOH A 56 456 56 HOH HOH . 
E 5 HOH A 57 457 57 HOH HOH . 
E 5 HOH A 58 458 58 HOH HOH . 
E 5 HOH A 59 459 59 HOH HOH . 
E 5 HOH A 60 460 60 HOH HOH . 
E 5 HOH A 61 461 61 HOH HOH . 
E 5 HOH A 62 462 62 HOH HOH . 
E 5 HOH A 63 463 63 HOH HOH . 
E 5 HOH A 64 464 64 HOH HOH . 
E 5 HOH A 65 465 65 HOH HOH . 
E 5 HOH A 66 466 66 HOH HOH . 
E 5 HOH A 67 467 67 HOH HOH . 
E 5 HOH A 68 468 68 HOH HOH . 
E 5 HOH A 69 469 69 HOH HOH . 
E 5 HOH A 70 470 70 HOH HOH . 
E 5 HOH A 71 471 71 HOH HOH . 
E 5 HOH A 72 472 72 HOH HOH . 
E 5 HOH A 73 473 73 HOH HOH . 
E 5 HOH A 74 474 74 HOH HOH . 
E 5 HOH A 75 475 75 HOH HOH . 
E 5 HOH A 76 476 76 HOH HOH . 
E 5 HOH A 77 477 77 HOH HOH . 
E 5 HOH A 78 478 78 HOH HOH . 
E 5 HOH A 79 479 79 HOH HOH . 
E 5 HOH A 80 480 80 HOH HOH . 
E 5 HOH A 81 481 81 HOH HOH . 
E 5 HOH A 82 482 82 HOH HOH . 
E 5 HOH A 83 483 83 HOH HOH . 
E 5 HOH A 84 484 84 HOH HOH . 
E 5 HOH A 85 485 85 HOH HOH . 
E 5 HOH A 86 486 86 HOH HOH . 
E 5 HOH A 87 487 87 HOH HOH . 
E 5 HOH A 88 488 88 HOH HOH . 
E 5 HOH A 89 489 89 HOH HOH . 
E 5 HOH A 90 490 90 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 O O2 XMM . . . D 4 25.894 -56.482 348.327 1 18.74 ? O2 XMM 303 A 1 
HETATM 2 C C2 XMM . . . D 4 25.377 -56.577 349.649 1 17.07 ? C2 XMM 303 A 1 
HETATM 3 C C3 XMM . . . D 4 24.152 -55.724 349.867 1 18.54 ? C3 XMM 303 A 1 
HETATM 4 O O3 XMM . . . D 4 24.395 -54.388 349.537 1 19.8 ? O3 XMM 303 A 1 
HETATM 5 C C4 XMM . . . D 4 23.031 -56.299 349.071 1 16.99 ? C4 XMM 303 A 1 
HETATM 6 O O4 XMM . . . D 4 21.789 -55.596 349.516 1 17.22 ? O4 XMM 303 A 1 
HETATM 7 C C5 XMM . . . D 4 22.847 -57.786 349.291 1 18.99 ? C5 XMM 303 A 1 
HETATM 8 O O5 XMM . . . D 4 24.069 -58.609 349.073 1 18.85 ? O5 XMM 303 A 1 
HETATM 9 C C6 XMM . . . D 4 21.885 -58.451 348.429 1 18.17 ? C6 XMM 303 A 1 
HETATM 10 O O6 XMM . . . D 4 22.256 -58.392 347.04 1 18.25 ? O6 XMM 303 A 1 
HETATM 11 C C1 XMM . . . D 4 25.036 -58.06 349.963 1 18.95 ? C1 XMM 303 A 1 
HETATM 12 O O1 XMM . . . D 4 24.784 -58.121 351.369 1 21.31 ? O1 XMM 303 A 1 
HETATM 13 C C7 XMM . . . D 4 24.591 -59.412 351.763 1 21.23 ? C7 XMM 303 A 1 
HETATM 14 C C8 XMM . . . D 4 25.683 -60.264 352.267 1 22.11 ? C8 XMM 303 A 1 
HETATM 15 C C9 XMM . . . D 4 24.915 -61.509 352.582 1 24.71 ? C9 XMM 303 A 1 
HETATM 16 N N1 XMM . . . D 4 23.626 -61.355 352.392 1 24.52 ? N1 XMM 303 A 1 
HETATM 17 C C11 XMM . . . D 4 23.386 -60.041 351.971 1 22.67 ? C11 XMM 303 A 1 
HETATM 18 C C10 XMM . . . D 4 27.094 -60.232 352.303 1 34.65 ? C10 XMM 303 A 1 
HETATM 19 CL CL XMM . . . D 4 27.852 -58.646 352.027 1 37.8 ? CL XMM 303 A 1 
HETATM 20 C C13 XMM . . . D 4 27.511 -61.529 352.801 1 28.93 ? C13 XMM 303 A 1 
HETATM 21 BR BR XMM . . . D 4 29.34 -61.9 352.75 1 46.65 ? BR XMM 303 A 1 
HETATM 22 C C14 XMM . . . D 4 26.802 -62.692 353.065 1 27.21 ? C14 XMM 303 A 1 
HETATM 23 C C12 XMM . . . D 4 25.47 -62.729 353.03 1 26.94 ? C12 XMM 303 A 1 
#
_model_server_stats.io_time_ms              19 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           1143 
_model_server_stats.encode_time_ms          7 
_model_server_stats.element_count           23 
#