data_7UFD
#
_model_server_result.job_id            FLn-s7aw8muu6VsuVIQbXA 
_model_server_result.datetime_utc      '2024-11-14 19:31:51' 
_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          7ufd 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":602}' 
#
_entry.id    7UFD 
#
_exptl.entry_id    7UFD 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              552.73 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            (2S)-3-phenyl-2-({(2S)-3-phenyl-2-[3-(pyridin-3-yl)propanamido]propyl}sulfanyl)-N-[2-(pyridin-3-yl)ethyl]propanamide 
_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            7UFD 
_cell.length_a            77.7 
_cell.length_b            102.719 
_cell.length_c            129.69 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7UFD 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
loop_
_pdbx_struct_assembly_gen.asym_id_list
_pdbx_struct_assembly_gen.assembly_id
_pdbx_struct_assembly_gen.oper_expression
A,B,C 1 1 
A,B,C 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_545 x,-y-1,-z 1 0 0 0 -1 0 0 0 -1 0 -102.719 0 
#
_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
metalc ? metalc1 A SG CYS 422 A CYS 442 1_555 B FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? 
metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N36 T0K . A T0K 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? 
#
_chem_comp.formula           'C33 H36 N4 O2 S' 
_chem_comp.formula_weight    552.73 
_chem_comp.id                T0K 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              (2S)-3-phenyl-2-({(2S)-3-phenyl-2-[3-(pyridin-3-yl)propanamido]propyl}sulfanyl)-N-[2-(pyridin-3-yl)ethyl]propanamide 
_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
C06 C05 T0K doub 370 n y 
C06 C01 T0K sing 371 n y 
C25 C24 T0K doub 372 n y 
C25 C26 T0K sing 373 n y 
C05 N04 T0K sing 374 n y 
C24 C23 T0K sing 375 n y 
C26 C22 T0K doub 376 n y 
C01 C02 T0K doub 377 n y 
C23 C21 T0K doub 378 n y 
N04 C03 T0K doub 379 n y 
C22 C21 T0K sing 380 n y 
C02 C03 T0K sing 381 n y 
C02 C07 T0K sing 382 n n 
C21 C20 T0K sing 383 n n 
O17 C10 T0K doub 384 n n 
C37 C38 T0K doub 385 n y 
C37 N36 T0K sing 386 n y 
C38 C39 T0K sing 387 n y 
C08 C07 T0K sing 388 n n 
C08 N09 T0K sing 389 n n 
C20 C14 T0K sing 390 n n 
C10 N09 T0K sing 391 n n 
C10 C11 T0K sing 392 n n 
N36 C40 T0K doub 393 n y 
C39 C34 T0K doub 394 n y 
C13 C14 T0K sing 395 n n 
C13 S12 T0K sing 396 n n 
C14 N15 T0K sing 397 n n 
C11 S12 T0K sing 398 n n 
C11 C18 T0K sing 399 n n 
C40 C34 T0K sing 400 n y 
N15 C16 T0K sing 401 n n 
C34 C33 T0K sing 402 n n 
C18 C19 T0K sing 403 n n 
C16 O35 T0K doub 404 n n 
C16 C32 T0K sing 405 n n 
C32 C33 T0K sing 406 n n 
C30 C19 T0K doub 407 n y 
C30 C29 T0K sing 408 n y 
C19 C31 T0K sing 409 n y 
C29 C28 T0K doub 410 n y 
C31 C27 T0K doub 411 n y 
C28 C27 T0K sing 412 n y 
C11 H1 T0K sing 413 n n 
C13 H2 T0K sing 414 n n 
C13 H3 T0K sing 415 n n 
C14 H4 T0K sing 416 n n 
C18 H5 T0K sing 417 n n 
C18 H6 T0K sing 418 n n 
C20 H7 T0K sing 419 n n 
C20 H8 T0K sing 420 n n 
C22 H9 T0K sing 421 n n 
C01 H10 T0K sing 422 n n 
C03 H11 T0K sing 423 n n 
C05 H12 T0K sing 424 n n 
C06 H13 T0K sing 425 n n 
C07 H14 T0K sing 426 n n 
C07 H15 T0K sing 427 n n 
C08 H16 T0K sing 428 n n 
C08 H17 T0K sing 429 n n 
C23 H18 T0K sing 430 n n 
C24 H19 T0K sing 431 n n 
C25 H20 T0K sing 432 n n 
C26 H21 T0K sing 433 n n 
C27 H22 T0K sing 434 n n 
C28 H23 T0K sing 435 n n 
C29 H24 T0K sing 436 n n 
C30 H25 T0K sing 437 n n 
C31 H26 T0K sing 438 n n 
C32 H27 T0K sing 439 n n 
C32 H28 T0K sing 440 n n 
C33 H29 T0K sing 441 n n 
C33 H30 T0K sing 442 n n 
C37 H31 T0K sing 443 n n 
C38 H32 T0K sing 444 n n 
C39 H33 T0K sing 445 n n 
C40 H34 T0K sing 446 n n 
N09 H35 T0K sing 447 n n 
N15 H36 T0K sing 448 n n 
#
_atom_sites.entry_id                     7UFD 
_atom_sites.fract_transf_matrix[1][1]    0.01287 
_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]    0.009735 
_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]    0.007711 
_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 HEM A 1 601 500 HEM HEM . 
C 3 T0K A 1 602 700 T0K 058 . 
#
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 C10 T0K . . . C 3 -15.835 -36.759 -10.392 1 109.57 ? C10 T0K 602 A 1 
HETATM 2 C C11 T0K . . . C 3 -16.211 -35.728 -9.309 1 91.91 ? C11 T0K 602 A 1 
HETATM 3 C C13 T0K . . . C 3 -19.087 -35.232 -9.952 1 85.45 ? C13 T0K 602 A 1 
HETATM 4 C C14 T0K . . . C 3 -19.698 -33.901 -9.458 1 85.73 ? C14 T0K 602 A 1 
HETATM 5 C C16 T0K . . . C 3 -19.135 -31.859 -8.07 1 75.5 ? C16 T0K 602 A 1 
HETATM 6 C C18 T0K . . . C 3 -15.307 -35.887 -8.073 1 97.77 ? C18 T0K 602 A 1 
HETATM 7 C C19 T0K . . . C 3 -15.528 -34.728 -7.08 1 92.84 ? C19 T0K 602 A 1 
HETATM 8 C C20 T0K . . . C 3 -20.53 -33.307 -10.616 1 101.74 ? C20 T0K 602 A 1 
HETATM 9 C C21 T0K . . . C 3 -19.75 -32.563 -11.726 1 120.73 ? C21 T0K 602 A 1 
HETATM 10 C C22 T0K . . . C 3 -18.432 -32.888 -12.089 1 130.88 ? C22 T0K 602 A 1 
HETATM 11 C C01 T0K . . . C 3 -13.151 -40.253 -13.091 1 120.17 ? C01 T0K 602 A 1 
HETATM 12 C C02 T0K . . . C 3 -13.018 -40.661 -11.753 1 119.65 ? C02 T0K 602 A 1 
HETATM 13 C C03 T0K . . . C 3 -12.065 -41.647 -11.454 1 133.23 ? C03 T0K 602 A 1 
HETATM 14 C C05 T0K . . . C 3 -11.416 -41.814 -13.682 1 141.22 ? C05 T0K 602 A 1 
HETATM 15 C C06 T0K . . . C 3 -12.339 -40.836 -14.078 1 128.66 ? C06 T0K 602 A 1 
HETATM 16 C C07 T0K . . . C 3 -13.878 -40.06 -10.62 1 113.58 ? C07 T0K 602 A 1 
HETATM 17 C C08 T0K . . . C 3 -14.92 -39.033 -11.101 1 109 ? C08 T0K 602 A 1 
HETATM 18 C C23 T0K . . . C 3 -20.398 -31.526 -12.405 1 140.7 ? C23 T0K 602 A 1 
HETATM 19 C C24 T0K . . . C 3 -19.75 -30.821 -13.424 1 160.1 ? C24 T0K 602 A 1 
HETATM 20 C C25 T0K . . . C 3 -18.436 -31.149 -13.772 1 162.33 ? C25 T0K 602 A 1 
HETATM 21 C C26 T0K . . . C 3 -17.775 -32.185 -13.105 1 147.96 ? C26 T0K 602 A 1 
HETATM 22 C C27 T0K . . . C 3 -16.606 -33.82 -5.103 1 90.4 ? C27 T0K 602 A 1 
HETATM 23 C C28 T0K . . . C 3 -15.923 -32.613 -5.305 1 77.62 ? C28 T0K 602 A 1 
HETATM 24 C C29 T0K . . . C 3 -15.046 -32.454 -6.386 1 84.45 ? C29 T0K 602 A 1 
HETATM 25 C C30 T0K . . . C 3 -14.852 -33.515 -7.275 1 93.73 ? C30 T0K 602 A 1 
HETATM 26 C C31 T0K . . . C 3 -16.406 -34.879 -5.994 1 95.16 ? C31 T0K 602 A 1 
HETATM 27 C C32 T0K . . . C 3 -18.165 -30.772 -7.56 1 71.42 ? C32 T0K 602 A 1 
HETATM 28 C C33 T0K . . . C 3 -18.81 -29.368 -7.53 1 71.78 ? C33 T0K 602 A 1 
HETATM 29 C C34 T0K . . . C 3 -19.356 -28.917 -8.9 1 46 ? C34 T0K 602 A 1 
HETATM 30 C C37 T0K . . . C 3 -20.395 -28.107 -11.322 1 58.93 ? C37 T0K 602 A 1 
HETATM 31 C C38 T0K . . . C 3 -19.01 -28.258 -11.188 1 55.26 ? C38 T0K 602 A 1 
HETATM 32 C C39 T0K . . . C 3 -18.476 -28.668 -9.96 1 45.49 ? C39 T0K 602 A 1 
HETATM 33 C C40 T0K . . . C 3 -20.731 -28.745 -9.103 1 62.22 ? C40 T0K 602 A 1 
HETATM 34 N N04 T0K . . . C 3 -11.297 -42.194 -12.403 1 145.57 ? N04 T0K 602 A 1 
HETATM 35 N N09 T0K . . . C 3 -15.278 -38.079 -10.044 1 110.56 ? N09 T0K 602 A 1 
HETATM 36 N N15 T0K . . . C 3 -18.704 -32.907 -9.011 1 84.66 ? N15 T0K 602 A 1 
HETATM 37 N N36 T0K . . . C 3 -21.214 -28.351 -10.291 1 66.1 ? N36 T0K 602 A 1 
HETATM 38 O O17 T0K . . . C 3 -15.993 -36.438 -11.545 1 124.04 ? O17 T0K 602 A 1 
HETATM 39 O O35 T0K . . . C 3 -20.28 -31.859 -7.686 1 69.56 ? O35 T0K 602 A 1 
HETATM 40 S S12 T0K . . . C 3 -17.928 -35.962 -8.755 1 91.1 ? S12 T0K 602 A 1 
#
_model_server_stats.io_time_ms              34 
_model_server_stats.parse_time_ms           22 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           264 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           40 
#