data_5WKM
#
_model_server_result.job_id            FQkdwFdpBE7J9dC616bbqQ 
_model_server_result.datetime_utc      '2024-11-08 11:51:05' 
_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          5wkm 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":401}' 
#
_entry.id    5WKM 
#
_exptl.entry_id    5WKM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              606.729 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1S,2S)-2-{[N-({[1-(tert-butoxycarbonyl)-4-ethylpiperidin-4-yl]oxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid' 
_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          112.07 
_cell.angle_gamma         90 
_cell.entry_id            5WKM 
_cell.length_a            100.626 
_cell.length_b            58.114 
_cell.length_c            49.862 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 5WKM 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        5 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'C 1 2 1' 
#
_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 
_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_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 -18.735102 0 46.208387 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             B 
_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
covale ? covale1 A SG CYS 155 A CYS 148 1_555 B C19 N02 . A N02 401 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.804 ? 
covale ? covale2 A SG CYS 155 A CYS 148 1_555 C C19 B6Y . A B6Y 402 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.797 ? 
#
_chem_comp.formula           'C26 H46 N4 O10 S' 
_chem_comp.formula_weight    606.729 
_chem_comp.id                N02 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1S,2S)-2-{[N-({[1-(tert-butoxycarbonyl)-4-ethylpiperidin-4-yl]oxy}carbonyl)-L-leucyl]amino}-1-hydroxy-3-[(3S)-2-oxopyrrolidin-3-yl]propane-1-sulfonic acid' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     'bound form' 
#
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
C08 C06 N02 sing 325 n n 
C07 C06 N02 sing 326 n n 
C06 C05 N02 sing 327 n n 
C05 C04 N02 sing 328 n n 
N03 C04 N02 sing 329 n n 
N03 C02 N02 sing 330 n n 
O22 C02 N02 sing 331 n n 
O22 C23 N02 sing 332 n n 
C04 C09 N02 sing 333 n n 
C02 O01 N02 doub 334 n n 
C09 O21 N02 doub 335 n n 
C09 N10 N02 sing 336 n n 
N10 C11 N02 sing 337 n n 
C11 C19 N02 sing 338 n n 
C11 C12 N02 sing 339 n n 
C19 O20 N02 sing 340 n n 
C12 C13 N02 sing 341 n n 
C13 C17 N02 sing 342 n n 
C13 C14 N02 sing 343 n n 
C17 C16 N02 sing 344 n n 
C14 O18 N02 doub 345 n n 
C14 N15 N02 sing 346 n n 
C16 N15 N02 sing 347 n n 
C04 H1 N02 sing 348 n n 
C05 H2 N02 sing 349 n n 
C05 H3 N02 sing 350 n n 
C06 H4 N02 sing 351 n n 
C07 H5 N02 sing 352 n n 
C07 H6 N02 sing 353 n n 
C07 H7 N02 sing 354 n n 
C08 H8 N02 sing 355 n n 
C08 H9 N02 sing 356 n n 
C08 H10 N02 sing 357 n n 
C11 H11 N02 sing 358 n n 
C12 H12 N02 sing 359 n n 
C12 H13 N02 sing 360 n n 
C13 H14 N02 sing 361 n n 
C16 H15 N02 sing 362 n n 
C16 H16 N02 sing 363 n n 
C17 H17 N02 sing 364 n n 
C17 H18 N02 sing 365 n n 
C19 H19 N02 sing 366 n n 
N03 H24 N02 sing 367 n n 
N10 H25 N02 sing 368 n n 
N15 H26 N02 sing 369 n n 
O20 H27 N02 sing 370 n n 
C19 S1 N02 sing 371 n n 
S1 O2 N02 doub 372 n n 
S1 O3 N02 doub 373 n n 
S1 O1 N02 sing 374 n n 
O1 H29 N02 sing 375 n n 
C23 C1 N02 sing 376 n n 
C1 C2 N02 sing 377 n n 
C2 N1 N02 sing 378 n n 
N1 C4 N02 sing 379 n n 
C4 C5 N02 sing 380 n n 
C5 C23 N02 sing 381 n n 
C23 C6 N02 sing 382 n n 
C1 H22 N02 sing 383 n n 
C1 H23 N02 sing 384 n n 
C2 H30 N02 sing 385 n n 
C2 H31 N02 sing 386 n n 
N1 C3 N02 sing 387 n n 
C4 H34 N02 sing 388 n n 
C4 H35 N02 sing 389 n n 
C5 H36 N02 sing 390 n n 
C5 H37 N02 sing 391 n n 
C6 C7 N02 sing 392 n n 
C3 O4 N02 doub 393 n n 
C3 O5 N02 sing 394 n n 
O5 C8 N02 sing 395 n n 
C8 C9 N02 sing 396 n n 
C8 C10 N02 sing 397 n n 
C8 C15 N02 sing 398 n n 
C6 H21 N02 sing 399 n n 
C6 H32 N02 sing 400 n n 
C7 H33 N02 sing 401 n n 
C7 H38 N02 sing 402 n n 
C7 H39 N02 sing 403 n n 
C9 H40 N02 sing 404 n n 
C9 H41 N02 sing 405 n n 
C9 H42 N02 sing 406 n n 
C10 H43 N02 sing 407 n n 
C10 H44 N02 sing 408 n n 
C10 H45 N02 sing 409 n n 
C15 H46 N02 sing 410 n n 
C15 H47 N02 sing 411 n n 
C15 H48 N02 sing 412 n n 
#
_atom_sites.entry_id                     5WKM 
_atom_sites.fract_transf_matrix[1][1]    0.009938 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004029 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.017208 
_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]    0.021641 
_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 N02 A 1 401 1 N02 N02 . 
C 3 B6Y A 1 402 1 B6Y N02 . 
D 4 HOH A 1 501 8 HOH HOH . 
D 4 HOH A 2 502 54 HOH HOH . 
D 4 HOH A 3 503 29 HOH HOH . 
D 4 HOH A 4 504 65 HOH HOH . 
D 4 HOH A 5 505 10 HOH HOH . 
D 4 HOH A 6 506 18 HOH HOH . 
D 4 HOH A 7 507 17 HOH HOH . 
D 4 HOH A 8 508 23 HOH HOH . 
D 4 HOH A 9 509 22 HOH HOH . 
D 4 HOH A 10 510 46 HOH HOH . 
D 4 HOH A 11 511 37 HOH HOH . 
D 4 HOH A 12 512 27 HOH HOH . 
D 4 HOH A 13 513 26 HOH HOH . 
D 4 HOH A 14 514 5 HOH HOH . 
D 4 HOH A 15 515 34 HOH HOH . 
D 4 HOH A 16 516 68 HOH HOH . 
D 4 HOH A 17 517 38 HOH HOH . 
D 4 HOH A 18 518 64 HOH HOH . 
D 4 HOH A 19 519 56 HOH HOH . 
D 4 HOH A 20 520 35 HOH HOH . 
D 4 HOH A 21 521 33 HOH HOH . 
D 4 HOH A 22 522 12 HOH HOH . 
D 4 HOH A 23 523 61 HOH HOH . 
D 4 HOH A 24 524 9 HOH HOH . 
D 4 HOH A 25 525 7 HOH HOH . 
D 4 HOH A 26 526 2 HOH HOH . 
D 4 HOH A 27 527 20 HOH HOH . 
D 4 HOH A 28 528 57 HOH HOH . 
D 4 HOH A 29 529 3 HOH HOH . 
D 4 HOH A 30 530 44 HOH HOH . 
D 4 HOH A 31 531 41 HOH HOH . 
D 4 HOH A 32 532 59 HOH HOH . 
D 4 HOH A 33 533 51 HOH HOH . 
D 4 HOH A 34 534 36 HOH HOH . 
D 4 HOH A 35 535 53 HOH HOH . 
D 4 HOH A 36 536 60 HOH HOH . 
D 4 HOH A 37 537 4 HOH HOH . 
D 4 HOH A 38 538 16 HOH HOH . 
D 4 HOH A 39 539 39 HOH HOH . 
D 4 HOH A 40 540 58 HOH HOH . 
D 4 HOH A 41 541 32 HOH HOH . 
D 4 HOH A 42 542 11 HOH HOH . 
D 4 HOH A 43 543 19 HOH HOH . 
D 4 HOH A 44 544 24 HOH HOH . 
D 4 HOH A 45 545 49 HOH HOH . 
D 4 HOH A 46 546 40 HOH HOH . 
D 4 HOH A 47 547 55 HOH HOH . 
D 4 HOH A 48 548 52 HOH HOH . 
D 4 HOH A 49 549 6 HOH HOH . 
D 4 HOH A 50 550 14 HOH HOH . 
D 4 HOH A 51 551 30 HOH HOH . 
D 4 HOH A 52 552 31 HOH HOH . 
D 4 HOH A 53 553 13 HOH HOH . 
D 4 HOH A 54 554 28 HOH HOH . 
D 4 HOH A 55 555 67 HOH HOH . 
D 4 HOH A 56 556 45 HOH HOH . 
D 4 HOH A 57 557 42 HOH HOH . 
D 4 HOH A 58 558 48 HOH HOH . 
D 4 HOH A 59 559 15 HOH HOH . 
D 4 HOH A 60 560 47 HOH HOH . 
D 4 HOH A 61 561 25 HOH HOH . 
D 4 HOH A 62 562 1 HOH HOH . 
D 4 HOH A 63 563 43 HOH HOH . 
D 4 HOH A 64 564 50 HOH HOH . 
D 4 HOH A 65 565 21 HOH HOH . 
D 4 HOH A 66 566 63 HOH HOH . 
D 4 HOH A 67 567 62 HOH HOH . 
D 4 HOH A 68 568 69 HOH HOH . 
D 4 HOH A 69 569 66 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 C C02 N02 . A . B 2 -21.558 -5.668 2.006 0.5 43.79 ? C02 N02 401 A 1 
HETATM 2 C C04 N02 . A . B 2 -20.934 -3.278 1.855 0.5 36.61 ? C04 N02 401 A 1 
HETATM 3 C C05 N02 . A . B 2 -20.989 -2.161 0.809 0.5 40.09 ? C05 N02 401 A 1 
HETATM 4 C C06 N02 . A . B 2 -20.496 -2.586 -0.588 0.5 40.8 ? C06 N02 401 A 1 
HETATM 5 C C07 N02 . A . B 2 -18.97 -2.708 -0.63 0.5 38.1 ? C07 N02 401 A 1 
HETATM 6 C C08 N02 . A . B 2 -20.981 -1.624 -1.674 0.5 42.31 ? C08 N02 401 A 1 
HETATM 7 C C09 N02 . A . B 2 -21.425 -2.771 3.218 0.5 35.77 ? C09 N02 401 A 1 
HETATM 8 C C11 N02 . A . B 2 -21.029 -1.483 5.358 0.5 31.84 ? C11 N02 401 A 1 
HETATM 9 C C12 N02 . A . B 2 -20.39 -2.304 6.498 0.5 27.54 ? C12 N02 401 A 1 
HETATM 10 C C13 N02 . A . B 2 -20.852 -3.759 6.526 0.5 27.4 ? C13 N02 401 A 1 
HETATM 11 C C14 N02 . A . B 2 -20.099 -4.509 7.704 0.5 29.77 ? C14 N02 401 A 1 
HETATM 12 C C16 N02 . A . B 2 -22.48 -4.864 7.78 0.5 28.55 ? C16 N02 401 A 1 
HETATM 13 C C17 N02 . A . B 2 -22.343 -3.838 6.883 0.5 25.54 ? C17 N02 401 A 1 
HETATM 14 C C19 N02 . A . B 2 -20.7 0.004 5.443 0.5 28.35 ? C19 N02 401 A 1 
HETATM 15 C C23 N02 . A . B 2 -22.263 -7.909 2.317 0.5 44.66 ? C23 N02 401 A 1 
HETATM 16 N N03 N02 . A . B 2 -21.807 -4.356 1.459 0.5 39.81 ? N03 N02 401 A 1 
HETATM 17 N N10 N02 . A . B 2 -20.559 -1.961 4.071 0.5 33.28 ? N10 N02 401 A 1 
HETATM 18 N N15 N02 . A . B 2 -21.057 -5.142 8.442 0.5 28.3 ? N15 N02 401 A 1 
HETATM 19 O O01 N02 . A . B 2 -20.738 -5.807 2.867 0.5 41.94 ? O01 N02 401 A 1 
HETATM 20 O O18 N02 . A . B 2 -18.925 -4.498 7.891 0.5 28.16 ? O18 N02 401 A 1 
HETATM 21 O O20 N02 . A . B 2 -21.139 0.876 6.44 0.5 27.83 ? O20 N02 401 A 1 
HETATM 22 O O21 N02 . A . B 2 -22.513 -3.042 3.587 0.5 32.88 ? O21 N02 401 A 1 
HETATM 23 O O22 N02 . A . B 2 -22.292 -6.754 1.505 0.5 44.26 ? O22 N02 401 A 1 
#
_model_server_stats.io_time_ms              16 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           303 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           23 
#