data_4Z8B
#
_model_server_result.job_id            V8-ImuLn9Fcw1XPj8fOaXA 
_model_server_result.datetime_utc      '2025-07-20 16:07:08' 
_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          4z8b 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"G","auth_seq_id":306}' 
#
_entry.id    4Z8B 
#
_exptl.entry_id    4Z8B 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              408.629 
_entity.id                          6 
_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            4Z8B 
_cell.length_a            62.35 
_cell.length_b            67.08 
_cell.length_c            108.62 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 4Z8B 
_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               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' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      6 
_struct_asym.id                             G 
_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 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.226 ? 
metalc ? metalc2 A OD1 ASP 10 A ASP 10 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.368 ? 
metalc ? metalc3 A OD2 ASP 10 A ASP 10 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? 
metalc ? metalc4 A OD2 ASP 10 A ASP 10 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.085 ? 
metalc ? metalc5 A O TYR 12 A TYR 12 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? 
metalc ? metalc6 A OD1 ASN 14 A ASN 14 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? 
metalc ? metalc7 A OD2 ASP 19 A ASP 19 1_555 B CA CA . A CA 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.583 ? 
metalc ? metalc8 A OD1 ASP 19 A ASP 19 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? 
metalc ? metalc9 A NE2 HIS 24 A HIS 24 1_555 C MN MN . A MN 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? 
metalc ? metalc10 B CA CA . A CA 301 1_555 H O HOH . A HOH 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? 
metalc ? metalc11 B CA CA . A CA 301 1_555 H O HOH . A HOH 415 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? 
metalc ? metalc12 C MN MN . A MN 302 1_555 H O HOH . A HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.813 ? 
#
_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 380 n n 
O2 HO2 XMM sing 381 n n 
C2 C3 XMM sing 382 n n 
C2 C1 XMM sing 383 n n 
C2 H2 XMM sing 384 n n 
C3 O3 XMM sing 385 n n 
C3 C4 XMM sing 386 n n 
C3 H3 XMM sing 387 n n 
O3 HO3 XMM sing 388 n n 
C4 O4 XMM sing 389 n n 
C4 C5 XMM sing 390 n n 
C4 H4 XMM sing 391 n n 
O4 HO4 XMM sing 392 n n 
C5 O5 XMM sing 393 n n 
C5 C6 XMM sing 394 n n 
C5 H5 XMM sing 395 n n 
O5 C1 XMM sing 396 n n 
C6 O6 XMM sing 397 n n 
C6 H61 XMM sing 398 n n 
C6 H62 XMM sing 399 n n 
O6 HO6 XMM sing 400 n n 
C1 O1 XMM sing 401 n n 
C1 H1 XMM sing 402 n n 
O1 C7 XMM sing 403 n n 
C7 C8 XMM sing 404 n y 
C7 C11 XMM doub 405 n y 
C8 C9 XMM doub 406 n y 
C8 C10 XMM sing 407 n y 
C9 N1 XMM sing 408 n y 
C9 C12 XMM sing 409 n y 
N1 C11 XMM sing 410 n y 
N1 HN1 XMM sing 411 n n 
C11 H11 XMM sing 412 n n 
C10 CL XMM sing 413 n n 
C10 C13 XMM doub 414 n y 
C13 BR XMM sing 415 n n 
C13 C14 XMM sing 416 n y 
C14 C12 XMM doub 417 n y 
C14 H14 XMM sing 418 n n 
C12 H12 XMM sing 419 n n 
#
_atom_sites.entry_id                     4Z8B 
_atom_sites.fract_transf_matrix[1][1]    0.016038 
_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]    0.014908 
_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]    0.009206 
_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 CA A 1 301 301 CA CA . 
C 3 MN A 1 302 302 MN MN . 
D 4 SO4 A 1 303 1 SO4 SO4 . 
E 4 SO4 A 1 304 1 SO4 SO4 . 
F 5 GOL A 1 305 1 GOL GOL . 
G 6 XMM A 1 306 1 XMM XMM . 
H 7 HOH A 1 401 90 HOH HOH . 
H 7 HOH A 2 402 43 HOH HOH . 
H 7 HOH A 3 403 26 HOH HOH . 
H 7 HOH A 4 404 7 HOH HOH . 
H 7 HOH A 5 405 1 HOH HOH . 
H 7 HOH A 6 406 22 HOH HOH . 
H 7 HOH A 7 407 3 HOH HOH . 
H 7 HOH A 8 408 28 HOH HOH . 
H 7 HOH A 9 409 32 HOH HOH . 
H 7 HOH A 10 410 59 HOH HOH . 
H 7 HOH A 11 411 67 HOH HOH . 
H 7 HOH A 12 412 69 HOH HOH . 
H 7 HOH A 13 413 2 HOH HOH . 
H 7 HOH A 14 414 13 HOH HOH . 
H 7 HOH A 15 415 83 HOH HOH . 
H 7 HOH A 16 416 12 HOH HOH . 
H 7 HOH A 17 417 6 HOH HOH . 
H 7 HOH A 18 418 53 HOH HOH . 
H 7 HOH A 19 419 30 HOH HOH . 
H 7 HOH A 20 420 9 HOH HOH . 
H 7 HOH A 21 421 4 HOH HOH . 
H 7 HOH A 22 422 79 HOH HOH . 
H 7 HOH A 23 423 11 HOH HOH . 
H 7 HOH A 24 424 86 HOH HOH . 
H 7 HOH A 25 425 65 HOH HOH . 
H 7 HOH A 26 426 34 HOH HOH . 
H 7 HOH A 27 427 23 HOH HOH . 
H 7 HOH A 28 428 73 HOH HOH . 
H 7 HOH A 29 429 21 HOH HOH . 
H 7 HOH A 30 430 25 HOH HOH . 
H 7 HOH A 31 431 54 HOH HOH . 
H 7 HOH A 32 432 45 HOH HOH . 
H 7 HOH A 33 433 5 HOH HOH . 
H 7 HOH A 34 434 29 HOH HOH . 
H 7 HOH A 35 435 39 HOH HOH . 
H 7 HOH A 36 436 8 HOH HOH . 
H 7 HOH A 37 437 19 HOH HOH . 
H 7 HOH A 38 438 44 HOH HOH . 
H 7 HOH A 39 439 66 HOH HOH . 
H 7 HOH A 40 440 17 HOH HOH . 
H 7 HOH A 41 441 62 HOH HOH . 
H 7 HOH A 42 442 37 HOH HOH . 
H 7 HOH A 43 443 72 HOH HOH . 
H 7 HOH A 44 444 33 HOH HOH . 
H 7 HOH A 45 445 74 HOH HOH . 
H 7 HOH A 46 446 78 HOH HOH . 
H 7 HOH A 47 447 89 HOH HOH . 
H 7 HOH A 48 448 41 HOH HOH . 
H 7 HOH A 49 449 18 HOH HOH . 
H 7 HOH A 50 450 82 HOH HOH . 
H 7 HOH A 51 451 71 HOH HOH . 
H 7 HOH A 52 452 85 HOH HOH . 
H 7 HOH A 53 453 75 HOH HOH . 
H 7 HOH A 54 454 24 HOH HOH . 
H 7 HOH A 55 455 70 HOH HOH . 
H 7 HOH A 56 456 36 HOH HOH . 
H 7 HOH A 57 457 64 HOH HOH . 
H 7 HOH A 58 458 40 HOH HOH . 
H 7 HOH A 59 459 68 HOH HOH . 
H 7 HOH A 60 460 77 HOH HOH . 
H 7 HOH A 61 461 84 HOH HOH . 
H 7 HOH A 62 462 80 HOH HOH . 
H 7 HOH A 63 463 31 HOH HOH . 
H 7 HOH A 64 464 76 HOH HOH . 
H 7 HOH A 65 465 87 HOH HOH . 
H 7 HOH A 66 466 61 HOH HOH . 
H 7 HOH A 67 467 81 HOH HOH . 
H 7 HOH A 68 468 38 HOH HOH . 
H 7 HOH A 69 469 35 HOH HOH . 
H 7 HOH A 70 470 88 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 . . . G 6 25.498 -9.699 31.839 1 41.78 ? O2 XMM 306 A 1 
HETATM 2 C C2 XMM . . . G 6 25.01 -9.746 30.548 1 46.22 ? C2 XMM 306 A 1 
HETATM 3 C C3 XMM . . . G 6 23.885 -10.728 30.495 1 33.36 ? C3 XMM 306 A 1 
HETATM 4 O O3 XMM . . . G 6 24.366 -12.056 31.061 1 34.35 ? O3 XMM 306 A 1 
HETATM 5 C C4 XMM . . . G 6 22.745 -10.329 31.222 1 38.68 ? C4 XMM 306 A 1 
HETATM 6 O O4 XMM . . . G 6 21.611 -11.302 30.897 1 33.27 ? O4 XMM 306 A 1 
HETATM 7 C C5 XMM . . . G 6 22.283 -8.977 30.936 1 38.93 ? C5 XMM 306 A 1 
HETATM 8 O O5 XMM . . . G 6 23.359 -7.945 30.995 1 45.15 ? O5 XMM 306 A 1 
HETATM 9 C C6 XMM . . . G 6 21.195 -8.591 31.95 1 44.85 ? C6 XMM 306 A 1 
HETATM 10 O O6 XMM . . . G 6 21.761 -8.459 33.206 1 37.3 ? O6 XMM 306 A 1 
HETATM 11 C C1 XMM . . . G 6 24.59 -8.23 30.085 1 62.08 ? C1 XMM 306 A 1 
HETATM 12 O O1 XMM . . . G 6 24.297 -8.219 28.91 1 57.82 ? O1 XMM 306 A 1 
HETATM 13 C C7 XMM . . . G 6 23.976 -6.888 28.438 1 44.61 ? C7 XMM 306 A 1 
HETATM 14 C C8 XMM . . . G 6 25.048 -6.08 28.024 1 19.43 ? C8 XMM 306 A 1 
HETATM 15 C C9 XMM . . . G 6 24.535 -4.875 27.613 1 37.1 ? C9 XMM 306 A 1 
HETATM 16 N N1 XMM . . . G 6 23.143 -4.925 27.762 1 27.77 ? N1 XMM 306 A 1 
HETATM 17 C C11 XMM . . . G 6 22.811 -6.166 28.269 1 39.9 ? C11 XMM 306 A 1 
HETATM 18 C C10 XMM . . . G 6 26.452 -6.304 27.979 1 51.82 ? C10 XMM 306 A 1 
HETATM 19 CL CL XMM . . . G 6 27.827 -7.272 28.219 1 231.92 ? CL XMM 306 A 1 
HETATM 20 C C13 XMM . . . G 6 27.321 -5.29 27.51 1 34.18 ? C13 XMM 306 A 1 
HETATM 21 BR BR XMM . . . G 6 29.211 -5.159 27.284 1 316.21 ? BR XMM 306 A 1 
HETATM 22 C C14 XMM . . . G 6 26.8 -4.064 27.091 1 27.65 ? C14 XMM 306 A 1 
HETATM 23 C C12 XMM . . . G 6 25.421 -3.839 27.135 1 37.66 ? C12 XMM 306 A 1 
HETATM 24 H HO2 XMM . . . G 6 26.408 -9.809 31.824 1 50.13 ? HO2 XMM 306 A 1 
HETATM 25 H H2 XMM . . . G 6 25.71 -10.056 29.968 1 55.47 ? H2 XMM 306 A 1 
HETATM 26 H H3 XMM . . . G 6 23.619 -10.865 29.521 1 40.03 ? H3 XMM 306 A 1 
HETATM 27 H HO3 XMM . . . G 6 24.757 -12.561 30.383 1 41.22 ? HO3 XMM 306 A 1 
HETATM 28 H H4 XMM . . . G 6 22.945 -10.393 32.168 1 46.42 ? H4 XMM 306 A 1 
HETATM 29 H HO4 XMM . . . G 6 21.654 -11.969 31.417 1 39.92 ? HO4 XMM 306 A 1 
HETATM 30 H H5 XMM . . . G 6 21.888 -8.968 30.033 1 46.72 ? H5 XMM 306 A 1 
HETATM 31 H H61 XMM . . . G 6 20.496 -9.3 31.974 1 53.82 ? H61 XMM 306 A 1 
HETATM 32 H H62 XMM . . . G 6 20.77 -7.702 31.671 1 53.82 ? H62 XMM 306 A 1 
HETATM 33 H HO6 XMM . . . G 6 21.19 -8.036 33.746 1 44.76 ? HO6 XMM 306 A 1 
HETATM 34 H H1 XMM . . . G 6 25.323 -7.59 30.273 1 74.5 ? H1 XMM 306 A 1 
HETATM 35 H HN1 XMM . . . G 6 22.554 -4.25 27.561 1 33.32 ? HN1 XMM 306 A 1 
HETATM 36 H H11 XMM . . . G 6 21.888 -6.486 28.477 1 47.88 ? H11 XMM 306 A 1 
HETATM 37 H H14 XMM . . . G 6 27.429 -3.331 26.753 1 33.17 ? H14 XMM 306 A 1 
HETATM 38 H H12 XMM . . . G 6 25.04 -2.938 26.827 1 45.19 ? H12 XMM 306 A 1 
#
_model_server_stats.io_time_ms              10 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           279 
_model_server_stats.encode_time_ms          1 
_model_server_stats.element_count           38 
#