data_7KVQ
#
_model_server_result.job_id            PYf1ZGVdmRjFf_xK6hBogg 
_model_server_result.datetime_utc      '2024-11-16 23:34:30' 
_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          7kvq 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"K","auth_seq_id":602}' 
#
_entry.id    7KVQ 
#
_exptl.entry_id    7KVQ 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              583.783 
_entity.id                          6 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            'tert-butyl [(2S)-1-(naphthalen-1-yl)-3-{[(2S)-1-oxo-3-phenyl-1-{[3-(pyridin-3-yl)propyl]amino}propan-2-yl]sulfanyl}propan-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          124.32 
_cell.angle_gamma         90 
_cell.entry_id            7KVQ 
_cell.length_a            153.861 
_cell.length_b            97.36 
_cell.length_c            93.229 
_cell.Z_PDB               8 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7KVQ 
_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,I,J,K 
_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
? 6 I N N 
? 6 K 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 ? ? ? ? ? ? ? ? ? ? ? ? 2.398 ? 
metalc ? metalc2 C FE HEM . A HEM 601 1_555 I N30 X7D . A X7D 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? 
metalc ? metalc3 B SG CYS 422 B CYS 442 1_555 J FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.401 ? 
metalc ? metalc4 J FE HEM . B HEM 601 1_555 K N30 X7D . B X7D 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.189 ? 
#
_chem_comp.formula           'C35 H41 N3 O3 S' 
_chem_comp.formula_weight    583.783 
_chem_comp.id                X7D 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              'tert-butyl [(2S)-1-(naphthalen-1-yl)-3-{[(2S)-1-oxo-3-phenyl-1-{[3-(pyridin-3-yl)propyl]amino}propan-2-yl]sulfanyl}propan-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 X7D sing 482 n n 
C02 C01 X7D sing 483 n n 
C02 C03 X7D sing 484 n n 
C02 O05 X7D sing 485 n n 
C19 C18 X7D doub 486 n y 
C19 C14 X7D sing 487 n y 
C18 C17 X7D sing 488 n y 
O05 C06 X7D sing 489 n n 
C36 C37 X7D doub 490 n y 
C36 C35 X7D sing 491 n y 
C13 C14 X7D sing 492 n n 
C13 C12 X7D sing 493 n n 
C14 C15 X7D doub 494 n y 
C37 C38 X7D sing 495 n y 
S11 C10 X7D sing 496 n n 
S11 C12 X7D sing 497 n n 
C17 C16 X7D doub 498 n y 
C10 C09 X7D sing 499 n n 
C35 C34 X7D doub 500 n y 
C06 N08 X7D sing 501 n n 
C06 O07 X7D doub 502 n n 
C12 C20 X7D sing 503 n n 
C09 N08 X7D sing 504 n n 
C09 C32 X7D sing 505 n n 
C15 C16 X7D sing 506 n y 
C38 C39 X7D doub 507 n y 
C28 C27 X7D doub 508 n y 
C28 C29 X7D sing 509 n y 
C34 C39 X7D sing 510 n y 
C34 C33 X7D sing 511 n y 
N22 C20 X7D sing 512 n n 
N22 C23 X7D sing 513 n n 
C27 C26 X7D sing 514 n y 
C20 O21 X7D doub 515 n n 
C39 C40 X7D sing 516 n y 
C29 N30 X7D doub 517 n y 
C32 C33 X7D sing 518 n n 
C33 C42 X7D doub 519 n y 
C24 C23 X7D sing 520 n n 
C24 C25 X7D sing 521 n n 
C26 C25 X7D sing 522 n n 
C26 C31 X7D doub 523 n y 
C40 C41 X7D doub 524 n y 
N30 C31 X7D sing 525 n y 
C42 C41 X7D sing 526 n y 
C01 H1 X7D sing 527 n n 
C01 H2 X7D sing 528 n n 
C01 H3 X7D sing 529 n n 
C03 H4 X7D sing 530 n n 
C03 H5 X7D sing 531 n n 
C03 H6 X7D sing 532 n n 
C04 H7 X7D sing 533 n n 
C04 H8 X7D sing 534 n n 
C04 H9 X7D sing 535 n n 
C09 H10 X7D sing 536 n n 
C10 H11 X7D sing 537 n n 
C10 H12 X7D sing 538 n n 
C12 H13 X7D sing 539 n n 
C13 H14 X7D sing 540 n n 
C13 H15 X7D sing 541 n n 
C15 H16 X7D sing 542 n n 
C16 H17 X7D sing 543 n n 
C17 H18 X7D sing 544 n n 
C18 H19 X7D sing 545 n n 
C19 H20 X7D sing 546 n n 
C23 H21 X7D sing 547 n n 
C23 H22 X7D sing 548 n n 
C24 H23 X7D sing 549 n n 
C24 H24 X7D sing 550 n n 
C25 H25 X7D sing 551 n n 
C25 H26 X7D sing 552 n n 
C27 H27 X7D sing 553 n n 
C28 H28 X7D sing 554 n n 
C29 H29 X7D sing 555 n n 
C31 H30 X7D sing 556 n n 
C32 H31 X7D sing 557 n n 
C32 H32 X7D sing 558 n n 
C35 H33 X7D sing 559 n n 
C36 H34 X7D sing 560 n n 
C37 H35 X7D sing 561 n n 
C38 H36 X7D sing 562 n n 
C40 H37 X7D sing 563 n n 
C41 H38 X7D sing 564 n n 
C42 H39 X7D sing 565 n n 
N08 H40 X7D sing 566 n n 
N22 H41 X7D sing 567 n n 
#
_atom_sites.entry_id                     7KVQ 
_atom_sites.fract_transf_matrix[1][1]    0.006499 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0.004437 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.010271 
_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]    0.012987 
_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 SO4 A 1 602 600 SO4 SO4 . 
E 4 GOL A 1 603 601 GOL GOL . 
F 5 EDO A 1 604 650 EDO EDO . 
G 5 EDO A 1 605 651 EDO EDO . 
H 5 EDO A 1 606 652 EDO EDO . 
I 6 X7D A 1 607 700 X7D 129 . 
J 2 HEM B 1 601 500 HEM HEM . 
K 6 X7D B 1 602 700 X7D 129 . 
#
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 C01 X7D . . . K 6 129.639 19.494 133.719 1 176.34 ? C01 X7D 602 B 1 
HETATM 2 C C02 X7D . . . K 6 129.178 19.414 135.191 1 177.03 ? C02 X7D 602 B 1 
HETATM 3 C C03 X7D . . . K 6 128.403 18.133 135.481 1 174.97 ? C03 X7D 602 B 1 
HETATM 4 C C04 X7D . . . K 6 130.459 19.392 136.081 1 168.05 ? C04 X7D 602 B 1 
HETATM 5 C C06 X7D . . . K 6 127.131 20.832 134.927 1 199.98 ? C06 X7D 602 B 1 
HETATM 6 C C09 X7D . . . K 6 126.426 23.257 134.63 1 178.27 ? C09 X7D 602 B 1 
HETATM 7 C C10 X7D . . . K 6 126.502 24.393 135.687 1 186.03 ? C10 X7D 602 B 1 
HETATM 8 C C12 X7D . . . K 6 124.616 25.741 137.707 1 197.15 ? C12 X7D 602 B 1 
HETATM 9 C C13 X7D . . . K 6 125.804 26.605 138.201 1 196.41 ? C13 X7D 602 B 1 
HETATM 10 C C14 X7D . . . K 6 125.605 28.119 138.457 1 202.34 ? C14 X7D 602 B 1 
HETATM 11 C C15 X7D . . . K 6 124.347 28.681 138.772 1 205.41 ? C15 X7D 602 B 1 
HETATM 12 C C16 X7D . . . K 6 124.176 30.05 139.016 1 213.22 ? C16 X7D 602 B 1 
HETATM 13 C C17 X7D . . . K 6 125.275 30.905 138.949 1 221.06 ? C17 X7D 602 B 1 
HETATM 14 C C18 X7D . . . K 6 126.533 30.376 138.646 1 220.65 ? C18 X7D 602 B 1 
HETATM 15 C C19 X7D . . . K 6 126.689 29.01 138.398 1 210.81 ? C19 X7D 602 B 1 
HETATM 16 C C20 X7D . . . K 6 123.823 26.408 136.591 1 197.34 ? C20 X7D 602 B 1 
HETATM 17 C C23 X7D . . . K 6 123.708 27.887 134.485 1 167.14 ? C23 X7D 602 B 1 
HETATM 18 C C24 X7D . . . K 6 124.245 29.344 134.222 1 156.73 ? C24 X7D 602 B 1 
HETATM 19 C C25 X7D . . . K 6 123.818 30.02 132.884 1 146.29 ? C25 X7D 602 B 1 
HETATM 20 C C26 X7D . . . K 6 124.909 30.103 131.824 1 151.2 ? C26 X7D 602 B 1 
HETATM 21 C C27 X7D . . . K 6 126.28 29.982 132.097 1 154.4 ? C27 X7D 602 B 1 
HETATM 22 C C28 X7D . . . K 6 127.24 30.066 131.075 1 154.92 ? C28 X7D 602 B 1 
HETATM 23 C C29 X7D . . . K 6 126.799 30.277 129.761 1 159.59 ? C29 X7D 602 B 1 
HETATM 24 C C31 X7D . . . K 6 124.582 30.313 130.471 1 154.92 ? C31 X7D 602 B 1 
HETATM 25 C C32 X7D . . . K 6 125.215 23.451 133.615 1 147.08 ? C32 X7D 602 B 1 
HETATM 26 C C33 X7D . . . K 6 125.326 24.441 132.443 1 134.22 ? C33 X7D 602 B 1 
HETATM 27 C C34 X7D . . . K 6 126.517 24.676 131.601 1 148.56 ? C34 X7D 602 B 1 
HETATM 28 C C35 X7D . . . K 6 127.76 23.974 131.816 1 163.51 ? C35 X7D 602 B 1 
HETATM 29 C C36 X7D . . . K 6 128.874 24.205 131.034 1 174.12 ? C36 X7D 602 B 1 
HETATM 30 C C37 X7D . . . K 6 128.82 25.138 129.988 1 181.87 ? C37 X7D 602 B 1 
HETATM 31 C C38 X7D . . . K 6 127.65 25.833 129.74 1 178.29 ? C38 X7D 602 B 1 
HETATM 32 C C39 X7D . . . K 6 126.488 25.589 130.567 1 159.09 ? C39 X7D 602 B 1 
HETATM 33 C C40 X7D . . . K 6 125.291 26.336 130.273 1 154.34 ? C40 X7D 602 B 1 
HETATM 34 C C41 X7D . . . K 6 124.169 26.119 131.05 1 139.31 ? C41 X7D 602 B 1 
HETATM 35 C C42 X7D . . . K 6 124.204 25.181 132.111 1 131.53 ? C42 X7D 602 B 1 
HETATM 36 N N08 X7D . . . K 6 126.39 21.953 135.3 1 198.8 ? N08 X7D 602 B 1 
HETATM 37 N N22 X7D . . . K 6 124.406 27.199 135.599 1 184.29 ? N22 X7D 602 B 1 
HETATM 38 N N30 X7D . . . K 6 125.485 30.399 129.466 1 153.56 ? N30 X7D 602 B 1 
HETATM 39 O O05 X7D . . . K 6 128.364 20.584 135.513 1 192.14 ? O05 X7D 602 B 1 
HETATM 40 O O07 X7D . . . K 6 126.638 20.108 134.057 1 197.74 ? O07 X7D 602 B 1 
HETATM 41 O O21 X7D . . . K 6 122.582 26.248 136.554 1 210.13 ? O21 X7D 602 B 1 
HETATM 42 S S11 X7D . . . K 6 125.301 24.11 137.095 1 200.85 ? S11 X7D 602 B 1 
#
_model_server_stats.io_time_ms              30 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    63 
_model_server_stats.query_time_ms           313 
_model_server_stats.encode_time_ms          6 
_model_server_stats.element_count           42 
#