data_8ELE
#
_model_server_result.job_id            pvPXtyPPJTfImhX2O1x84g 
_model_server_result.datetime_utc      '2024-12-01 10:59:08' 
_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          8ele 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"M","auth_seq_id":1003}' 
#
_entry.id    8ELE 
#
_exptl.entry_id    8ELE 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              514.571 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2R,3R,4R,5S)-2-(hydroxymethyl)-1-{[4-({2-nitro-4-[(1R,5S)-3-oxa-8-azabicyclo[3.2.1]octan-8-yl]anilino}methyl)phenyl]methyl}piperidine-3,4,5-triol 
_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            8ELE 
_cell.length_a            137.825 
_cell.length_b            178.729 
_cell.length_c            180.875 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8ELE 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        23 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'I 2 2 2' 
#
loop_
_pdbx_struct_assembly.method_details
_pdbx_struct_assembly.oligomeric_details
_pdbx_struct_assembly.oligomeric_count
_pdbx_struct_assembly.details
_pdbx_struct_assembly.id
? monomeric 1 author_defined_assembly 1 
? monomeric 1 author_defined_assembly 2 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,C,D,E,F,G,H,I,J,R 1 1 
B,K,L,M,N,O,P,Q,S 2 1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 2 C N N 
? 2 M 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 656 A CYS 654 1_555 A SG CYS 670 A CYS 668 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? 
disulf ? disulf2 B SG CYS 656 B CYS 654 1_555 B SG CYS 670 B CYS 668 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? 
covale ? covale1 B ND2 ASN 47 B ASN 45 1_555 L C1 NAG . B NAG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? 
#
_chem_comp.formula           'C26 H34 N4 O7' 
_chem_comp.formula_weight    514.571 
_chem_comp.id                WM0 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2R,3R,4R,5S)-2-(hydroxymethyl)-1-{[4-({2-nitro-4-[(1R,5S)-3-oxa-8-azabicyclo[3.2.1]octan-8-yl]anilino}methyl)phenyl]methyl}piperidine-3,4,5-triol 
_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
N1 C4 WM0 sing 423 n n 
N1 C24 WM0 sing 424 n n 
N1 C2 WM0 sing 425 n n 
N3 O3 WM0 sing 426 n n 
N3 O4 WM0 doub 427 n n 
N3 C11 WM0 sing 428 n n 
C4 C5 WM0 sing 429 n n 
C5 C6 WM0 doub 430 n y 
C5 C23 WM0 sing 431 n y 
C6 C7 WM0 sing 432 n y 
C7 C8 WM0 doub 433 n y 
C8 C22 WM0 sing 434 n y 
C8 C9 WM0 sing 435 n n 
C10 C21 WM0 doub 436 n y 
C10 N2 WM0 sing 437 n n 
C10 C11 WM0 sing 438 n y 
C13 C20 WM0 doub 439 n y 
C13 N4 WM0 sing 440 n n 
C13 C12 WM0 sing 441 n y 
C17 N4 WM0 sing 442 n n 
C17 C16 WM0 sing 443 n n 
C17 C18 WM0 sing 444 n n 
C20 C21 WM0 sing 445 n y 
C22 C23 WM0 doub 446 n y 
C24 C25 WM0 sing 447 n n 
C26 C1 WM0 sing 448 n n 
C26 O7 WM0 sing 449 n n 
C26 C25 WM0 sing 450 n n 
C1 O1 WM0 sing 451 n n 
C1 C2 WM0 sing 452 n n 
C2 C3 WM0 sing 453 n n 
N2 C9 WM0 sing 454 n n 
O2 C3 WM0 sing 455 n n 
N4 C14 WM0 sing 456 n n 
O5 C16 WM0 sing 457 n n 
O6 C25 WM0 sing 458 n n 
C11 C12 WM0 doub 459 n y 
C14 C19 WM0 sing 460 n n 
C18 C19 WM0 sing 461 n n 
C14 C15 WM0 sing 462 n n 
C4 H2 WM0 sing 463 n n 
C4 H3 WM0 sing 464 n n 
C6 H4 WM0 sing 465 n n 
C7 H5 WM0 sing 466 n n 
C15 H7 WM0 sing 467 n n 
C15 H8 WM0 sing 468 n n 
C17 H9 WM0 sing 469 n n 
C20 H10 WM0 sing 470 n n 
C21 H11 WM0 sing 471 n n 
C22 H12 WM0 sing 472 n n 
C24 H13 WM0 sing 473 n n 
C24 H14 WM0 sing 474 n n 
C26 H15 WM0 sing 475 n n 
C1 H16 WM0 sing 476 n n 
O1 H17 WM0 sing 477 n n 
C2 H18 WM0 sing 478 n n 
N2 H19 WM0 sing 479 n n 
O2 H20 WM0 sing 480 n n 
C3 H21 WM0 sing 481 n n 
C3 H22 WM0 sing 482 n n 
O6 H24 WM0 sing 483 n n 
O7 H25 WM0 sing 484 n n 
C9 H26 WM0 sing 485 n n 
C9 H27 WM0 sing 486 n n 
C12 H28 WM0 sing 487 n n 
C14 H29 WM0 sing 488 n n 
C16 H30 WM0 sing 489 n n 
C16 H31 WM0 sing 490 n n 
C18 H32 WM0 sing 491 n n 
C18 H33 WM0 sing 492 n n 
C19 H34 WM0 sing 493 n n 
C19 H35 WM0 sing 494 n n 
C23 H36 WM0 sing 495 n n 
C25 H37 WM0 sing 496 n n 
C15 O5 WM0 sing 497 n n 
#
_atom_sites.entry_id                     8ELE 
_atom_sites.fract_transf_matrix[1][1]    0.007256 
_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]    0.005595 
_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]    0.005529 
_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 WM0 A 1 901 901 WM0 LIG . 
D 3 GOL A 1 902 1001 GOL GOL . 
E 4 SO4 A 1 903 1 SO4 SO4 . 
F 4 SO4 A 1 904 2 SO4 SO4 . 
G 4 SO4 A 1 905 3 SO4 SO4 . 
H 4 SO4 A 1 906 4 SO4 SO4 . 
I 4 SO4 A 1 907 5 SO4 SO4 . 
J 4 SO4 A 1 908 6 SO4 SO4 . 
K 3 GOL B 1 1001 1001 GOL GOL . 
L 5 NAG B 1 1002 1101 NAG NAG . 
M 2 WM0 B 1 1003 1201 WM0 LIG . 
N 4 SO4 B 1 1004 7 SO4 SO4 . 
O 4 SO4 B 1 1005 8 SO4 SO4 . 
P 4 SO4 B 1 1006 9 SO4 SO4 . 
Q 4 SO4 B 1 1007 10 SO4 SO4 . 
R 6 HOH A 1 1001 31 HOH HOH . 
R 6 HOH A 2 1002 16 HOH HOH . 
R 6 HOH A 3 1003 17 HOH HOH . 
R 6 HOH A 4 1004 33 HOH HOH . 
R 6 HOH A 5 1005 5 HOH HOH . 
R 6 HOH A 6 1006 5 HOH HOH . 
R 6 HOH A 7 1007 1 HOH HOH . 
R 6 HOH A 8 1008 24 HOH HOH . 
R 6 HOH A 9 1009 7 HOH HOH . 
R 6 HOH A 10 1010 25 HOH HOH . 
R 6 HOH A 11 1011 36 HOH HOH . 
R 6 HOH A 12 1012 26 HOH HOH . 
R 6 HOH A 13 1013 8 HOH HOH . 
R 6 HOH A 14 1014 37 HOH HOH . 
S 6 HOH B 1 1101 119 HOH HOH . 
S 6 HOH B 2 1102 38 HOH HOH . 
S 6 HOH B 3 1103 14 HOH HOH . 
S 6 HOH B 4 1104 3 HOH HOH . 
S 6 HOH B 5 1105 11 HOH HOH . 
S 6 HOH B 6 1106 2 HOH HOH . 
S 6 HOH B 7 1107 34 HOH HOH . 
S 6 HOH B 8 1108 23 HOH HOH . 
S 6 HOH B 9 1109 18 HOH HOH . 
S 6 HOH B 10 1110 20 HOH HOH . 
S 6 HOH B 11 1111 10 HOH HOH . 
S 6 HOH B 12 1112 9 HOH HOH . 
S 6 HOH B 13 1113 35 HOH HOH . 
S 6 HOH B 14 1114 6 HOH HOH . 
S 6 HOH B 15 1115 29 HOH HOH . 
S 6 HOH B 16 1116 15 HOH HOH . 
S 6 HOH B 17 1117 39 HOH HOH . 
S 6 HOH B 18 1118 30 HOH HOH . 
S 6 HOH B 19 1119 13 HOH HOH . 
S 6 HOH B 20 1120 19 HOH HOH . 
S 6 HOH B 21 1121 22 HOH HOH . 
S 6 HOH B 22 1122 4 HOH HOH . 
S 6 HOH B 23 1123 27 HOH HOH . 
S 6 HOH B 24 1124 32 HOH HOH . 
S 6 HOH B 25 1125 12 HOH HOH . 
S 6 HOH B 26 1126 28 HOH HOH . 
S 6 HOH B 27 1127 21 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 WM0 . . . M 2 -7.593 -40.264 -33.293 1 47.37 ? N1 WM0 1003 B 1 
HETATM 2 N N3 WM0 . . . M 2 -13.551 -36.78 -38.945 1 117.15 1 N3 WM0 1003 B 1 
HETATM 3 C C4 WM0 . . . M 2 -8.32 -39.366 -33.588 1 53.5 ? C4 WM0 1003 B 1 
HETATM 4 C C5 WM0 . . . M 2 -8.871 -39.379 -35.04 1 52.83 ? C5 WM0 1003 B 1 
HETATM 5 C C6 WM0 . . . M 2 -8.099 -38.888 -36.085 1 54.95 ? C6 WM0 1003 B 1 
HETATM 6 C C7 WM0 . . . M 2 -8.614 -38.904 -37.386 1 50.69 ? C7 WM0 1003 B 1 
HETATM 7 C C8 WM0 . . . M 2 -9.868 -39.383 -37.664 1 54.02 ? C8 WM0 1003 B 1 
HETATM 8 C C10 WM0 . . . M 2 -11.195 -36.987 -39.401 1 74.32 ? C10 WM0 1003 B 1 
HETATM 9 C C13 WM0 . . . M 2 -10.888 -34.248 -39.188 1 89.63 ? C13 WM0 1003 B 1 
HETATM 10 C C15 WM0 . . . M 2 -9.044 -32.017 -38.691 1 135.88 ? C15 WM0 1003 B 1 
HETATM 11 C C17 WM0 . . . M 2 -11.556 -31.915 -38.296 1 125.43 ? C17 WM0 1003 B 1 
HETATM 12 C C20 WM0 . . . M 2 -9.786 -35.049 -39.468 1 79.8 ? C20 WM0 1003 B 1 
HETATM 13 C C21 WM0 . . . M 2 -9.954 -36.429 -39.57 1 72.33 ? C21 WM0 1003 B 1 
HETATM 14 C C22 WM0 . . . M 2 -10.643 -39.879 -36.624 1 51.26 ? C22 WM0 1003 B 1 
HETATM 15 C C24 WM0 . . . M 2 -6.526 -40.463 -34.215 1 45.27 ? C24 WM0 1003 B 1 
HETATM 16 C C26 WM0 . . . M 2 -6.134 -42.689 -33.281 1 39.76 ? C26 WM0 1003 B 1 
HETATM 17 C C1 WM0 . . . M 2 -7.264 -42.507 -32.433 1 41.94 ? C1 WM0 1003 B 1 
HETATM 18 O O1 WM0 . . . M 2 -7.835 -43.804 -32.341 1 44.82 ? O1 WM0 1003 B 1 
HETATM 19 C C2 WM0 . . . M 2 -8.259 -41.519 -33.058 1 43.61 ? C2 WM0 1003 B 1 
HETATM 20 N N2 WM0 . . . M 2 -11.445 -38.432 -39.477 1 62.56 ? N2 WM0 1003 B 1 
HETATM 21 O O2 WM0 . . . M 2 -8.847 -40.766 -30.949 1 45.75 ? O2 WM0 1003 B 1 
HETATM 22 C C3 WM0 . . . M 2 -9.396 -41.269 -32.109 1 47.41 ? C3 WM0 1003 B 1 
HETATM 23 O O3 WM0 . . . M 2 -14.678 -35.965 -38.782 1 120.53 -1 O3 WM0 1003 B 1 
HETATM 24 N N4 WM0 . . . M 2 -10.73 -32.788 -39.082 1 116.33 ? N4 WM0 1003 B 1 
HETATM 25 O O4 WM0 . . . M 2 -13.688 -38.177 -38.93 1 89.44 ? O4 WM0 1003 B 1 
HETATM 26 O O5 WM0 . . . M 2 -9.809 -31.444 -37.094 1 139.71 ? O5 WM0 1003 B 1 
HETATM 27 O O6 WM0 . . . M 2 -4.513 -41.726 -34.522 1 44.85 ? O6 WM0 1003 B 1 
HETATM 28 O O7 WM0 . . . M 2 -5.144 -43.43 -32.488 1 34.48 ? O7 WM0 1003 B 1 
HETATM 29 C C9 WM0 . . . M 2 -10.388 -39.395 -39.13 1 54.93 ? C9 WM0 1003 B 1 
HETATM 30 C C11 WM0 . . . M 2 -12.25 -36.183 -39.13 1 91.94 ? C11 WM0 1003 B 1 
HETATM 31 C C12 WM0 . . . M 2 -12.128 -34.814 -39.016 1 91.28 ? C12 WM0 1003 B 1 
HETATM 32 C C14 WM0 . . . M 2 -9.663 -32.14 -39.323 1 130.14 ? C14 WM0 1003 B 1 
HETATM 33 C C16 WM0 . . . M 2 -11 -31.514 -37.177 1 135.25 ? C16 WM0 1003 B 1 
HETATM 34 C C18 WM0 . . . M 2 -11.472 -30.999 -39.079 1 125.98 ? C18 WM0 1003 B 1 
HETATM 35 C C19 WM0 . . . M 2 -10.139 -31.107 -39.678 1 127.81 ? C19 WM0 1003 B 1 
HETATM 36 C C23 WM0 . . . M 2 -10.131 -39.861 -35.323 1 53.1 ? C23 WM0 1003 B 1 
HETATM 37 C C25 WM0 . . . M 2 -5.517 -41.414 -33.583 1 43.72 ? C25 WM0 1003 B 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           12 
_model_server_stats.create_model_time_ms    14 
_model_server_stats.query_time_ms           274 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           37 
#