data_7QT8
#
_model_server_result.job_id            oEQ07mBVeYCkMIjF-kS5hw 
_model_server_result.datetime_utc      '2024-11-21 08:36:52' 
_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          7qt8 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":401}' 
#
_entry.id    7QT8 
#
_exptl.entry_id    7QT8 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              486.562 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2~{R})-5-oxidanylidene-~{N}-[(2~{R},3~{S})-3-oxidanyl-4-oxidanylidene-1-phenyl-4-(pyridin-2-ylmethylamino)butan-2-yl]-1-(phenylmethyl)pyrrolidine-2-carboxamide 
_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          100.385 
_cell.angle_gamma         90 
_cell.entry_id            7QT8 
_cell.length_a            45.245 
_cell.length_b            54.673 
_cell.length_c            116.578 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7QT8 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        4 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1 21 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,E,F 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    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 D 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
covale ? covale1 A SG CYS 145 A CYS 145 1_555 C C R8H . A R8H 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.868 ? 
covale ? covale2 B SG CYS 145 B CYS 145 1_555 D C R8H . B R8H 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.74 ? 
#
_chem_comp.formula           'C28 H30 N4 O4' 
_chem_comp.formula_weight    486.562 
_chem_comp.id                R8H 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2~{R})-5-oxidanylidene-~{N}-[(2~{R},3~{S})-3-oxidanyl-4-oxidanylidene-1-phenyl-4-(pyridin-2-ylmethylamino)butan-2-yl]-1-(phenylmethyl)pyrrolidine-2-carboxamide 
_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
N3 C27 R8H doub 277 n y 
N3 C23 R8H sing 278 n y 
C27 C26 R8H sing 279 n y 
C22 C23 R8H sing 280 n n 
C22 N2 R8H sing 281 n n 
C23 C24 R8H doub 282 n y 
C26 C25 R8H doub 283 n y 
N2 C21 R8H sing 284 n n 
O3 C21 R8H doub 285 n n 
C24 C25 R8H sing 286 n y 
C21 C R8H sing 287 n n 
C O R8H sing 288 n n 
C C1 R8H sing 289 n n 
C1 C2 R8H sing 290 n n 
C1 N R8H sing 291 n n 
O1 C9 R8H doub 292 n n 
C2 C3 R8H sing 293 n n 
N C9 R8H sing 294 n n 
C9 C10 R8H sing 295 n n 
C11 C10 R8H sing 296 n n 
C11 C12 R8H sing 297 n n 
C4 C3 R8H doub 298 n y 
C4 C5 R8H sing 299 n y 
C3 C8 R8H sing 300 n y 
C10 N1 R8H sing 301 n n 
C12 C13 R8H sing 302 n n 
C19 C20 R8H doub 303 n y 
C19 C18 R8H sing 304 n y 
C5 C6 R8H doub 305 n y 
C20 C15 R8H sing 306 n y 
N1 C13 R8H sing 307 n n 
N1 C14 R8H sing 308 n n 
C18 C17 R8H doub 309 n y 
C8 C7 R8H doub 310 n y 
C13 O2 R8H doub 311 n n 
C15 C14 R8H sing 312 n n 
C15 C16 R8H doub 313 n y 
C17 C16 R8H sing 314 n y 
C6 C7 R8H sing 315 n y 
C4 H1 R8H sing 316 n n 
C5 H2 R8H sing 317 n n 
C6 H3 R8H sing 318 n n 
C7 H4 R8H sing 319 n n 
C8 H5 R8H sing 320 n n 
C10 H6 R8H sing 321 n n 
C17 H7 R8H sing 322 n n 
C20 H8 R8H sing 323 n n 
C22 H9 R8H sing 324 n n 
C22 H10 R8H sing 325 n n 
C24 H11 R8H sing 326 n n 
C26 H12 R8H sing 327 n n 
N2 H13 R8H sing 328 n n 
C27 H14 R8H sing 329 n n 
C25 H15 R8H sing 330 n n 
C H16 R8H sing 331 n n 
O H17 R8H sing 332 n n 
C1 H18 R8H sing 333 n n 
C2 H19 R8H sing 334 n n 
C2 H20 R8H sing 335 n n 
N H21 R8H sing 336 n n 
C12 H22 R8H sing 337 n n 
C12 H23 R8H sing 338 n n 
C11 H24 R8H sing 339 n n 
C11 H25 R8H sing 340 n n 
C14 H26 R8H sing 341 n n 
C14 H27 R8H sing 342 n n 
C19 H28 R8H sing 343 n n 
C18 H29 R8H sing 344 n n 
C16 H30 R8H sing 345 n n 
#
_atom_sites.entry_id                     7QT8 
_atom_sites.fract_transf_matrix[1][1]    0.022102 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.00405 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.018291 
_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]    0.008721 
_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 R8H A 1 401 401 R8H LIG . 
D 2 R8H B 1 401 401 R8H LIG . 
E 3 HOH A 1 501 35 HOH HOH . 
E 3 HOH A 2 502 26 HOH HOH . 
E 3 HOH A 3 503 5 HOH HOH . 
E 3 HOH A 4 504 20 HOH HOH . 
E 3 HOH A 5 505 40 HOH HOH . 
E 3 HOH A 6 506 44 HOH HOH . 
E 3 HOH A 7 507 9 HOH HOH . 
E 3 HOH A 8 508 13 HOH HOH . 
E 3 HOH A 9 509 47 HOH HOH . 
E 3 HOH A 10 510 29 HOH HOH . 
E 3 HOH A 11 511 18 HOH HOH . 
E 3 HOH A 12 512 24 HOH HOH . 
E 3 HOH A 13 513 8 HOH HOH . 
E 3 HOH A 14 514 10 HOH HOH . 
E 3 HOH A 15 515 25 HOH HOH . 
E 3 HOH A 16 516 45 HOH HOH . 
E 3 HOH A 17 517 21 HOH HOH . 
E 3 HOH A 18 518 27 HOH HOH . 
E 3 HOH A 19 519 46 HOH HOH . 
E 3 HOH A 20 520 28 HOH HOH . 
F 3 HOH B 1 501 36 HOH HOH . 
F 3 HOH B 2 502 38 HOH HOH . 
F 3 HOH B 3 503 22 HOH HOH . 
F 3 HOH B 4 504 17 HOH HOH . 
F 3 HOH B 5 505 34 HOH HOH . 
F 3 HOH B 6 506 1 HOH HOH . 
F 3 HOH B 7 507 4 HOH HOH . 
F 3 HOH B 8 508 42 HOH HOH . 
F 3 HOH B 9 509 33 HOH HOH . 
F 3 HOH B 10 510 2 HOH HOH . 
F 3 HOH B 11 511 43 HOH HOH . 
F 3 HOH B 12 512 15 HOH HOH . 
F 3 HOH B 13 513 32 HOH HOH . 
F 3 HOH B 14 514 30 HOH HOH . 
F 3 HOH B 15 515 3 HOH HOH . 
F 3 HOH B 16 516 19 HOH HOH . 
F 3 HOH B 17 517 14 HOH HOH . 
F 3 HOH B 18 518 39 HOH HOH . 
F 3 HOH B 19 519 16 HOH HOH . 
F 3 HOH B 20 520 11 HOH HOH . 
F 3 HOH B 21 521 7 HOH HOH . 
F 3 HOH B 22 522 37 HOH HOH . 
F 3 HOH B 23 523 23 HOH HOH . 
F 3 HOH B 24 524 12 HOH HOH . 
F 3 HOH B 25 525 6 HOH HOH . 
F 3 HOH B 26 526 41 HOH HOH . 
F 3 HOH B 27 527 48 HOH HOH . 
F 3 HOH B 28 528 31 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 R8H . . . D 2 40.98 1.329 40.541 1 60.94 0 N1 R8H 401 B 1 
HETATM 2 N N3 R8H . . . D 2 35.795 0.09 39.343 1 27.63 0 N3 R8H 401 B 1 
HETATM 3 C C4 R8H . . . D 2 40.978 5.827 41.841 1 42.31 0 C4 R8H 401 B 1 
HETATM 4 C C5 R8H . . . D 2 42.245 6.13 41.35 1 44.61 0 C5 R8H 401 B 1 
HETATM 5 C C6 R8H . . . D 2 42.417 6.53 40.029 1 45.17 0 C6 R8H 401 B 1 
HETATM 6 C C7 R8H . . . D 2 41.322 6.663 39.207 1 44.34 0 C7 R8H 401 B 1 
HETATM 7 C C8 R8H . . . D 2 40.053 6.364 39.705 1 42.13 0 C8 R8H 401 B 1 
HETATM 8 C C10 R8H . . . D 2 39.618 1.741 40.839 1 52.37 0 C10 R8H 401 B 1 
HETATM 9 C C13 R8H . . . D 2 41.015 0.231 39.755 1 60.95 0 C13 R8H 401 B 1 
HETATM 10 C C15 R8H . . . D 2 43.278 2.203 40.135 1 74.66 0 C15 R8H 401 B 1 
HETATM 11 C C17 R8H . . . D 2 45.638 2.165 39.606 1 80.24 0 C17 R8H 401 B 1 
HETATM 12 C C20 R8H . . . D 2 43.018 2.721 38.869 1 77.37 0 C20 R8H 401 B 1 
HETATM 13 C C21 R8H . . . D 2 35.633 3.159 40.455 1 28.34 0 C21 R8H 401 B 1 
HETATM 14 C C22 R8H . . . D 2 34.015 1.325 40.471 1 25.54 0 C22 R8H 401 B 1 
HETATM 15 C C24 R8H . . . D 2 33.548 -0.572 38.895 1 24.66 0 C24 R8H 401 B 1 
HETATM 16 C C26 R8H . . . D 2 35.339 -1.732 37.838 1 27.45 0 C26 R8H 401 B 1 
HETATM 17 O O3 R8H . . . D 2 35.657 3.207 39.232 1 27.75 0 O3 R8H 401 B 1 
HETATM 18 N N2 R8H . . . D 2 35.028 2.163 41.088 1 26.48 0 N2 R8H 401 B 1 
HETATM 19 C C23 R8H . . . D 2 34.472 0.229 39.539 1 25.87 0 C23 R8H 401 B 1 
HETATM 20 C C27 R8H . . . D 2 36.209 -0.884 38.504 1 28.32 0 C27 R8H 401 B 1 
HETATM 21 C C25 R8H . . . D 2 33.993 -1.571 38.05 1 25.98 0 C25 R8H 401 B 1 
HETATM 22 C C R8H . . . D 2 36.362 4.205 41.308 1 31.1 0 C R8H 401 B 1 
HETATM 23 O O R8H . . . D 2 36.213 3.906 42.676 1 27.65 0 O R8H 401 B 1 
HETATM 24 C C1 R8H . . . D 2 37.93 4.222 41.258 1 35.75 0 C1 R8H 401 B 1 
HETATM 25 C C2 R8H . . . D 2 38.478 5.634 41.552 1 37.13 0 C2 R8H 401 B 1 
HETATM 26 C C3 R8H . . . D 2 39.866 5.93 41.018 1 40.1 0 C3 R8H 401 B 1 
HETATM 27 N N R8H . . . D 2 38.407 3.747 39.966 1 41.51 0 N R8H 401 B 1 
HETATM 28 C C9 R8H . . . D 2 39.022 2.59 39.703 1 47.38 0 C9 R8H 401 B 1 
HETATM 29 O O1 R8H . . . D 2 39.16 2.248 38.533 1 48.75 0 O1 R8H 401 B 1 
HETATM 30 O O2 R8H . . . D 2 41.92 -0.081 38.986 1 64.48 0 O2 R8H 401 B 1 
HETATM 31 C C12 R8H . . . D 2 39.77 -0.564 40.054 1 55.92 0 C12 R8H 401 B 1 
HETATM 32 C C11 R8H . . . D 2 38.957 0.351 40.968 1 53.45 0 C11 R8H 401 B 1 
HETATM 33 C C14 R8H . . . D 2 42.156 1.969 41.118 1 66.87 0 C14 R8H 401 B 1 
HETATM 34 C C19 R8H . . . D 2 44.063 2.952 37.979 1 80.98 0 C19 R8H 401 B 1 
HETATM 35 C C18 R8H . . . D 2 45.369 2.677 38.351 1 82.35 0 C18 R8H 401 B 1 
HETATM 36 C C16 R8H . . . D 2 44.596 1.926 40.495 1 79.04 0 C16 R8H 401 B 1 
HETATM 37 H H1 R8H . . . D 2 40.875 5.547 42.737 1 41.61 0 H1 R8H 401 B 1 
HETATM 38 H H2 R8H . . . D 2 42.998 6.039 41.912 1 45.28 0 H2 R8H 401 B 1 
HETATM 39 H H3 R8H . . . D 2 43.28 6.734 39.705 1 46.85 0 H3 R8H 401 B 1 
HETATM 40 H H4 R8H . . . D 2 41.428 6.939 38.31 1 45.02 0 H4 R8H 401 B 1 
HETATM 41 H H5 R8H . . . D 2 39.303 6.446 39.138 1 41.23 0 H5 R8H 401 B 1 
HETATM 42 H H6 R8H . . . D 2 39.586 2.227 41.695 1 52.47 0 H6 R8H 401 B 1 
HETATM 43 H H7 R8H . . . D 2 46.527 1.967 39.856 1 82.34 0 H7 R8H 401 B 1 
HETATM 44 H H8 R8H . . . D 2 42.131 2.921 38.615 1 75.75 0 H8 R8H 401 B 1 
HETATM 45 H H9 R8H . . . D 2 33.477 0.916 41.186 1 24.72 0 H9 R8H 401 B 1 
HETATM 46 H H10 R8H . . . D 2 33.391 1.906 39.981 1 25.01 0 H10 R8H 401 B 1 
HETATM 47 H H11 R8H . . . D 2 32.628 -0.454 39.051 1 23.88 0 H11 R8H 401 B 1 
HETATM 48 H H12 R8H . . . D 2 35.664 -2.404 37.26 1 28.51 0 H12 R8H 401 B 1 
HETATM 49 H H13 R8H . . . D 2 35.25 2.001 41.917 1 26.7 0 H13 R8H 401 B 1 
HETATM 50 H H14 R8H . . . D 2 37.135 -0.992 38.371 1 29.59 0 H14 R8H 401 B 1 
HETATM 51 H H15 R8H . . . D 2 33.373 -2.129 37.61 1 25.6 0 H15 R8H 401 B 1 
HETATM 52 H H16 R8H . . . D 2 36.014 5.109 41.121 1 30.51 0 H16 R8H 401 B 1 
HETATM 53 H H17 R8H . . . D 2 36.19 2.861 42.552 0 30 0 H17 R8H 401 B 1 
HETATM 54 H H18 R8H . . . D 2 38.259 3.609 41.96 1 36.22 0 H18 R8H 401 B 1 
HETATM 55 H H19 R8H . . . D 2 38.487 5.765 42.524 1 37.01 0 H19 R8H 401 B 1 
HETATM 56 H H20 R8H . . . D 2 37.86 6.294 41.175 1 36.83 0 H20 R8H 401 B 1 
HETATM 57 H H21 R8H . . . D 2 38.27 4.279 39.26 1 41.57 0 H21 R8H 401 B 1 
HETATM 58 H H22 R8H . . . D 2 39.286 -0.764 39.233 1 56.1 0 H22 R8H 401 B 1 
HETATM 59 H H23 R8H . . . D 2 39.995 -1.4 40.5 1 56.81 0 H23 R8H 401 B 1 
HETATM 60 H H24 R8H . . . D 2 38.992 0.039 41.887 1 52.98 0 H24 R8H 401 B 1 
HETATM 61 H H25 R8H . . . D 2 38.03 0.385 40.685 1 51.98 0 H25 R8H 401 B 1 
HETATM 62 H H26 R8H . . . D 2 41.886 2.83 41.5 1 66.39 0 H26 R8H 401 B 1 
HETATM 63 H H27 R8H . . . D 2 42.487 1.408 41.85 1 67.32 0 H27 R8H 401 B 1 
HETATM 64 H H28 R8H . . . D 2 43.881 3.303 37.122 1 80.64 0 H28 R8H 401 B 1 
HETATM 65 H H29 R8H . . . D 2 46.075 2.828 37.742 1 83.62 0 H29 R8H 401 B 1 
HETATM 66 H H30 R8H . . . D 2 44.784 1.579 41.353 1 78.11 0 H30 R8H 401 B 1 
#
_model_server_stats.io_time_ms              54 
_model_server_stats.parse_time_ms           13 
_model_server_stats.create_model_time_ms    6 
_model_server_stats.query_time_ms           300 
_model_server_stats.encode_time_ms          2 
_model_server_stats.element_count           66 
#