data_5WKM
#
_model_server_result.job_id            5SwRr6EEgE9CPLqk3bzYUQ 
_model_server_result.datetime_utc      '2024-11-28 07:14:23' 
_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":"C","auth_seq_id":402}' 
#
_entry.id    5WKM 
#
_exptl.entry_id    5WKM 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              606.729 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '(1R,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                      3 
_struct_asym.id                             C 
_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                B6Y 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '(1R,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 B6Y sing 70 n n 
C07 C06 B6Y sing 71 n n 
C06 C05 B6Y sing 72 n n 
C05 C04 B6Y sing 73 n n 
N03 C04 B6Y sing 74 n n 
N03 C02 B6Y sing 75 n n 
O22 C02 B6Y sing 76 n n 
O22 C23 B6Y sing 77 n n 
C04 C09 B6Y sing 78 n n 
C02 O01 B6Y doub 79 n n 
C09 O21 B6Y doub 80 n n 
C09 N10 B6Y sing 81 n n 
N10 C11 B6Y sing 82 n n 
O20 C19 B6Y sing 83 n n 
C19 C11 B6Y sing 84 n n 
C11 C12 B6Y sing 85 n n 
C12 C13 B6Y sing 86 n n 
C13 C17 B6Y sing 87 n n 
C13 C14 B6Y sing 88 n n 
C17 C16 B6Y sing 89 n n 
C16 N15 B6Y sing 90 n n 
C14 O18 B6Y doub 91 n n 
C14 N15 B6Y sing 92 n n 
C19 S1 B6Y sing 93 n n 
C04 H1 B6Y sing 94 n n 
C05 H2 B6Y sing 95 n n 
C05 H3 B6Y sing 96 n n 
C06 H4 B6Y sing 97 n n 
C07 H5 B6Y sing 98 n n 
C07 H6 B6Y sing 99 n n 
C07 H7 B6Y sing 100 n n 
C08 H8 B6Y sing 101 n n 
C08 H9 B6Y sing 102 n n 
C08 H10 B6Y sing 103 n n 
C11 H11 B6Y sing 104 n n 
C12 H12 B6Y sing 105 n n 
C12 H13 B6Y sing 106 n n 
C13 H14 B6Y sing 107 n n 
C16 H15 B6Y sing 108 n n 
C16 H16 B6Y sing 109 n n 
C17 H17 B6Y sing 110 n n 
C17 H18 B6Y sing 111 n n 
C19 H19 B6Y sing 112 n n 
N03 H23 B6Y sing 113 n n 
N10 H24 B6Y sing 114 n n 
N15 H25 B6Y sing 115 n n 
O20 H26 B6Y sing 116 n n 
S1 O1 B6Y doub 117 n n 
S1 O2 B6Y doub 118 n n 
S1 O3 B6Y sing 119 n n 
C23 C1 B6Y sing 120 n n 
C1 C2 B6Y sing 121 n n 
C2 N1 B6Y sing 122 n n 
N1 C4 B6Y sing 123 n n 
C4 C5 B6Y sing 124 n n 
C5 C23 B6Y sing 125 n n 
N1 C3 B6Y sing 126 n n 
C3 O4 B6Y doub 127 n n 
C3 O5 B6Y sing 128 n n 
C23 C10 B6Y sing 129 n n 
O3 H21 B6Y sing 130 n n 
C1 H22 B6Y sing 131 n n 
C1 H27 B6Y sing 132 n n 
C2 H28 B6Y sing 133 n n 
C2 H29 B6Y sing 134 n n 
C4 H30 B6Y sing 135 n n 
C4 H31 B6Y sing 136 n n 
C5 H32 B6Y sing 137 n n 
C5 H33 B6Y sing 138 n n 
O5 C6 B6Y sing 139 n n 
C6 C7 B6Y sing 140 n n 
C6 C8 B6Y sing 141 n n 
C6 C9 B6Y sing 142 n n 
C7 H34 B6Y sing 143 n n 
C7 H35 B6Y sing 144 n n 
C7 H36 B6Y sing 145 n n 
C8 H37 B6Y sing 146 n n 
C8 H38 B6Y sing 147 n n 
C8 H39 B6Y sing 148 n n 
C9 H40 B6Y sing 149 n n 
C9 H41 B6Y sing 150 n n 
C9 H42 B6Y sing 151 n n 
C10 C15 B6Y sing 152 n n 
C10 H20 B6Y sing 153 n n 
C10 H43 B6Y sing 154 n n 
C15 H44 B6Y sing 155 n n 
C15 H45 B6Y sing 156 n n 
C15 H46 B6Y sing 157 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 B6Y . B . C 3 -21.56 -5.493 2.041 0.5 43.61 ? C02 B6Y 402 A 1 
HETATM 2 C C04 B6Y . B . C 3 -20.941 -3.107 1.898 0.5 36.66 ? C04 B6Y 402 A 1 
HETATM 3 C C05 B6Y . B . C 3 -20.959 -1.993 0.85 0.5 40.07 ? C05 B6Y 402 A 1 
HETATM 4 C C06 B6Y . B . C 3 -20.47 -2.427 -0.542 0.5 40.74 ? C06 B6Y 402 A 1 
HETATM 5 C C07 B6Y . B . C 3 -18.94 -2.453 -0.604 0.5 38.1 ? C07 B6Y 402 A 1 
HETATM 6 C C08 B6Y . B . C 3 -21.038 -1.525 -1.638 0.5 42.32 ? C08 B6Y 402 A 1 
HETATM 7 C C09 B6Y . B . C 3 -21.482 -2.563 3.229 0.5 35.81 ? C09 B6Y 402 A 1 
HETATM 8 C C11 B6Y . B . C 3 -21.082 -1.377 5.418 0.5 31.92 ? C11 B6Y 402 A 1 
HETATM 9 C C12 B6Y . B . C 3 -20.445 -2.139 6.589 0.5 27.54 ? C12 B6Y 402 A 1 
HETATM 10 C C13 B6Y . B . C 3 -20.821 -3.622 6.641 0.5 27.35 ? C13 B6Y 402 A 1 
HETATM 11 C C14 B6Y . B . C 3 -20.13 -4.294 7.903 0.5 29.39 ? C14 B6Y 402 A 1 
HETATM 12 C C16 B6Y . B . C 3 -22.46 -4.862 7.741 0.5 28.54 ? C16 B6Y 402 A 1 
HETATM 13 C C17 B6Y . B . C 3 -22.327 -3.803 6.882 0.5 24.9 ? C17 B6Y 402 A 1 
HETATM 14 C C19 B6Y . B . C 3 -20.707 0.092 5.412 0.5 28.31 ? C19 B6Y 402 A 1 
HETATM 15 C C23 B6Y . B . C 3 -22.1 -7.794 2.237 0.5 44.6 ? C23 B6Y 402 A 1 
HETATM 16 N N03 B6Y . B . C 3 -21.797 -4.188 1.478 0.5 39.7 ? N03 B6Y 402 A 1 
HETATM 17 N N10 B6Y . B . C 3 -20.584 -1.9 4.165 0.5 33.37 ? N10 B6Y 402 A 1 
HETATM 18 N N15 B6Y . B . C 3 -21.094 -5.007 8.55 0.5 28.47 ? N15 B6Y 402 A 1 
HETATM 19 O O01 B6Y . B . C 3 -20.715 -5.63 2.877 0.5 41.76 ? O01 B6Y 402 A 1 
HETATM 20 O O18 B6Y . B . C 3 -18.989 -4.173 8.211 0.5 27.88 ? O18 B6Y 402 A 1 
HETATM 21 O O20 B6Y . B . C 3 -21.346 0.676 4.315 0.5 31.39 ? O20 B6Y 402 A 1 
HETATM 22 O O21 B6Y . B . C 3 -22.624 -2.673 3.51 0.5 33.41 ? O21 B6Y 402 A 1 
HETATM 23 O O22 B6Y . B . C 3 -22.34 -6.566 1.581 0.5 44.05 ? O22 B6Y 402 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           30 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           23 
#