data_7KVH
#
_model_server_result.job_id            oE8tapFPyrzt_eGZ0_GGRA 
_model_server_result.datetime_utc      '2024-11-25 10:43:07' 
_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          7kvh 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":602}' 
#
_entry.id    7KVH 
#
_exptl.entry_id    7KVH 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              533.725 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'tert-butyl [(2S)-1-{[(2R)-1-oxo-3-phenyl-1-{[3-(pyridin-3-yl)propyl]amino}propan-2-yl]sulfanyl}-3-phenylpropan-2-yl]carbamate' 
_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          123.73 
_cell.angle_gamma         90 
_cell.entry_id            7KVH 
_cell.length_a            152.944 
_cell.length_b            94.815 
_cell.length_c            93.174 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KVH 
_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        ? 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H 
_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
? 3 D N N 
? 3 F 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
metalc ? metalc1 A SG CYS 422 A CYS 442 1_555 C FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.399 ? 
metalc ? metalc2 C FE HEM . A HEM 601 1_555 D N28 X5Y . A X5Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.108 ? 
metalc ? metalc3 B SG CYS 422 B CYS 442 1_555 E FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? 
metalc ? metalc4 E FE HEM . B HEM 601 1_555 F N28 X5Y . B X5Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.196 ? 
#
_chem_comp.formula           'C31 H39 N3 O3 S' 
_chem_comp.formula_weight    533.725 
_chem_comp.id                X5Y 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'tert-butyl [(2S)-1-{[(2R)-1-oxo-3-phenyl-1-{[3-(pyridin-3-yl)propyl]amino}propan-2-yl]sulfanyl}-3-phenylpropan-2-yl]carbamate' 
_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
C04 C02 X5Y sing 458 n n 
C03 C02 X5Y sing 459 n n 
C02 C01 X5Y sing 460 n n 
C02 O05 X5Y sing 461 n n 
O05 C06 X5Y sing 462 n n 
O07 C06 X5Y doub 463 n n 
C06 N08 X5Y sing 464 n n 
C15 C16 X5Y doub 465 n y 
C15 C14 X5Y sing 466 n y 
C16 C17 X5Y sing 467 n y 
N08 C09 X5Y sing 468 n n 
C13 C14 X5Y sing 469 n n 
C13 C12 X5Y sing 470 n n 
C14 C19 X5Y doub 471 n y 
C17 C18 X5Y doub 472 n y 
C09 C10 X5Y sing 473 n n 
C09 C32 X5Y sing 474 n n 
C10 S11 X5Y sing 475 n n 
C12 S11 X5Y sing 476 n n 
C12 C20 X5Y sing 477 n n 
C19 C18 X5Y sing 478 n y 
C38 C37 X5Y doub 479 n y 
C38 C33 X5Y sing 480 n y 
C30 C31 X5Y doub 481 n y 
C30 C29 X5Y sing 482 n y 
C32 C33 X5Y sing 483 n n 
C20 N22 X5Y sing 484 n n 
C20 O21 X5Y doub 485 n n 
N22 C23 X5Y sing 486 n n 
C31 C26 X5Y sing 487 n y 
C37 C36 X5Y sing 488 n y 
C33 C34 X5Y doub 489 n y 
C29 N28 X5Y doub 490 n y 
C24 C23 X5Y sing 491 n n 
C24 C25 X5Y sing 492 n n 
C36 C35 X5Y doub 493 n y 
C26 C25 X5Y sing 494 n n 
C26 C27 X5Y doub 495 n y 
C34 C35 X5Y sing 496 n y 
N28 C27 X5Y sing 497 n y 
C10 H1 X5Y sing 498 n n 
C10 H2 X5Y sing 499 n n 
C03 H3 X5Y sing 500 n n 
C03 H4 X5Y sing 501 n n 
C03 H5 X5Y sing 502 n n 
C04 H6 X5Y sing 503 n n 
C04 H7 X5Y sing 504 n n 
C04 H8 X5Y sing 505 n n 
C09 H9 X5Y sing 506 n n 
C12 H10 X5Y sing 507 n n 
C13 H11 X5Y sing 508 n n 
C13 H12 X5Y sing 509 n n 
C01 H13 X5Y sing 510 n n 
C01 H14 X5Y sing 511 n n 
C01 H15 X5Y sing 512 n n 
C15 H16 X5Y sing 513 n n 
C16 H17 X5Y sing 514 n n 
C17 H18 X5Y sing 515 n n 
C18 H19 X5Y sing 516 n n 
C19 H20 X5Y sing 517 n n 
C23 H21 X5Y sing 518 n n 
C23 H22 X5Y sing 519 n n 
C24 H23 X5Y sing 520 n n 
C24 H24 X5Y sing 521 n n 
C25 H25 X5Y sing 522 n n 
C25 H26 X5Y sing 523 n n 
C27 H27 X5Y sing 524 n n 
C29 H28 X5Y sing 525 n n 
C30 H29 X5Y sing 526 n n 
C31 H30 X5Y sing 527 n n 
C32 H31 X5Y sing 528 n n 
C32 H32 X5Y sing 529 n n 
C34 H33 X5Y sing 530 n n 
C35 H34 X5Y sing 531 n n 
C36 H35 X5Y sing 532 n n 
C37 H36 X5Y sing 533 n n 
C38 H37 X5Y sing 534 n n 
N08 H38 X5Y sing 535 n n 
N22 H39 X5Y sing 536 n n 
#
_atom_sites.entry_id                     7KVH 
_atom_sites.fract_transf_matrix[1][1]    0.006538 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004366 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010547 
_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]    0.012906 
_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 HEM A 1 601 500 HEM HEM . 
D 3 X5Y A 1 602 700 X5Y 377 . 
E 2 HEM B 1 601 500 HEM HEM . 
F 3 X5Y B 1 602 700 X5Y 377 . 
G 4 HOH A 1 701 12 HOH HOH . 
G 4 HOH A 2 702 13 HOH HOH . 
G 4 HOH A 3 703 7 HOH HOH . 
G 4 HOH A 4 704 14 HOH HOH . 
G 4 HOH A 5 705 1 HOH HOH . 
G 4 HOH A 6 706 3 HOH HOH . 
G 4 HOH A 7 707 11 HOH HOH . 
G 4 HOH A 8 708 9 HOH HOH . 
G 4 HOH A 9 709 15 HOH HOH . 
G 4 HOH A 10 710 17 HOH HOH . 
G 4 HOH A 11 711 19 HOH HOH . 
G 4 HOH A 12 712 16 HOH HOH . 
G 4 HOH A 13 713 18 HOH HOH . 
G 4 HOH A 14 714 4 HOH HOH . 
G 4 HOH A 15 715 10 HOH HOH . 
H 4 HOH B 1 701 22 HOH HOH . 
H 4 HOH B 2 702 20 HOH HOH . 
H 4 HOH B 3 703 6 HOH HOH . 
H 4 HOH B 4 704 25 HOH HOH . 
H 4 HOH B 5 705 8 HOH HOH . 
H 4 HOH B 6 706 24 HOH HOH . 
H 4 HOH B 7 707 21 HOH HOH . 
H 4 HOH B 8 708 23 HOH HOH . 
H 4 HOH B 9 709 5 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 C10 X5Y . . . D 3 15.673 -15.363 9.542 1 86.34 ? C10 X5Y 602 A 1 
HETATM 2 C C02 X5Y . . . D 3 16.406 -16.142 4.769 1 108.55 ? C02 X5Y 602 A 1 
HETATM 3 C C03 X5Y . . . D 3 15.85 -14.761 4.37 1 105.12 ? C03 X5Y 602 A 1 
HETATM 4 C C04 X5Y . . . D 3 16.974 -16.857 3.555 1 98.07 ? C04 X5Y 602 A 1 
HETATM 5 C C06 X5Y . . . D 3 17.495 -16.624 6.961 1 124.69 ? C06 X5Y 602 A 1 
HETATM 6 C C09 X5Y . . . D 3 16.984 -16.228 9.447 1 67.66 ? C09 X5Y 602 A 1 
HETATM 7 C C12 X5Y . . . D 3 14.267 -18.125 9.66 1 85.43 ? C12 X5Y 602 A 1 
HETATM 8 C C13 X5Y . . . D 3 13.017 -18.529 8.831 1 98.09 ? C13 X5Y 602 A 1 
HETATM 9 C C01 X5Y . . . D 3 15.198 -16.99 5.245 1 113.1 ? C01 X5Y 602 A 1 
HETATM 10 C C14 X5Y . . . D 3 12.602 -20.001 8.878 1 81.89 ? C14 X5Y 602 A 1 
HETATM 11 C C15 X5Y . . . D 3 13.097 -20.965 7.983 1 77.42 ? C15 X5Y 602 A 1 
HETATM 12 C C16 X5Y . . . D 3 12.698 -22.305 8.052 1 79.74 ? C16 X5Y 602 A 1 
HETATM 13 C C17 X5Y . . . D 3 11.794 -22.73 9.018 1 74.86 ? C17 X5Y 602 A 1 
HETATM 14 C C18 X5Y . . . D 3 11.296 -21.792 9.912 1 71.61 ? C18 X5Y 602 A 1 
HETATM 15 C C19 X5Y . . . D 3 11.701 -20.46 9.833 1 76.79 ? C19 X5Y 602 A 1 
HETATM 16 C C20 X5Y . . . D 3 14.428 -18.93 10.963 1 73.89 ? C20 X5Y 602 A 1 
HETATM 17 C C23 X5Y . . . D 3 15.183 -21.059 12.174 1 69.68 ? C23 X5Y 602 A 1 
HETATM 18 C C24 X5Y . . . D 3 15.538 -22.529 11.78 1 71.96 ? C24 X5Y 602 A 1 
HETATM 19 C C25 X5Y . . . D 3 16.481 -23.266 12.764 1 80.77 ? C25 X5Y 602 A 1 
HETATM 20 C C26 X5Y . . . D 3 17.927 -23.399 12.309 1 77.27 ? C26 X5Y 602 A 1 
HETATM 21 C C27 X5Y . . . D 3 18.964 -23.631 13.234 1 70.75 ? C27 X5Y 602 A 1 
HETATM 22 C C29 X5Y . . . D 3 20.64 -23.659 11.628 1 83.2 ? C29 X5Y 602 A 1 
HETATM 23 C C30 X5Y . . . D 3 19.696 -23.427 10.623 1 85.29 ? C30 X5Y 602 A 1 
HETATM 24 C C31 X5Y . . . D 3 18.347 -23.3 10.977 1 81.02 ? C31 X5Y 602 A 1 
HETATM 25 C C32 X5Y . . . D 3 17.891 -15.959 10.698 1 69.79 ? C32 X5Y 602 A 1 
HETATM 26 C C33 X5Y . . . D 3 18.635 -17.158 11.269 1 71.78 ? C33 X5Y 602 A 1 
HETATM 27 C C34 X5Y . . . D 3 18.33 -17.709 12.521 1 57.74 ? C34 X5Y 602 A 1 
HETATM 28 C C35 X5Y . . . D 3 19.026 -18.812 13.03 1 70.72 ? C35 X5Y 602 A 1 
HETATM 29 C C36 X5Y . . . D 3 20.054 -19.401 12.303 1 74.53 ? C36 X5Y 602 A 1 
HETATM 30 C C37 X5Y . . . D 3 20.372 -18.868 11.061 1 80.36 ? C37 X5Y 602 A 1 
HETATM 31 C C38 X5Y . . . D 3 19.669 -17.768 10.563 1 86.37 ? C38 X5Y 602 A 1 
HETATM 32 N N08 X5Y . . . D 3 17.646 -15.901 8.152 1 96.29 ? N08 X5Y 602 A 1 
HETATM 33 N N22 X5Y . . . D 3 14.988 -20.203 10.974 1 73.24 ? N22 X5Y 602 A 1 
HETATM 34 N N28 X5Y . . . D 3 20.275 -23.762 12.926 1 77.09 ? N28 X5Y 602 A 1 
HETATM 35 O O05 X5Y . . . D 3 17.443 -15.954 5.744 1 119.1 ? O05 X5Y 602 A 1 
HETATM 36 O O07 X5Y . . . D 3 17.69 -17.843 6.919 1 139.96 ? O07 X5Y 602 A 1 
HETATM 37 O O21 X5Y . . . D 3 14.047 -18.452 12.049 1 73.38 ? O21 X5Y 602 A 1 
HETATM 38 S S11 X5Y . . . D 3 14.183 -16.302 10.147 1 85.43 ? S11 X5Y 602 A 1 
#
_model_server_stats.io_time_ms              23 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    9 
_model_server_stats.query_time_ms           283 
_model_server_stats.encode_time_ms          5 
_model_server_stats.element_count           38 
#