data_8R5F
#
_model_server_result.job_id            '_S1FT_lIeojW3c4EX6uSpA' 
_model_server_result.datetime_utc      '2025-02-23 02:50:32' 
_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          8r5f 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"D","auth_seq_id":403}' 
#
_entry.id    8R5F 
#
_exptl.entry_id    8R5F 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              294.343 
_entity.id                          4 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '~{O}3-~{tert}-butyl ~{O}1-prop-2-ynyl (1~{S},3~{S})-1-methyl-4-oxidanylidene-cyclohexane-1,3-dicarboxylate' 
_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            8R5F 
_cell.length_a            41.486 
_cell.length_b            77.081 
_cell.length_c            123.251 
_cell.Z_PDB               4 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8R5F 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        19 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 21 21 21' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    monomeric 
_pdbx_struct_assembly.oligomeric_count      1 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      4 
_struct_asym.id                             D 
_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 NE2 HIS 129 A HIS 125 1_555 D C3 Y3H . A Y3H 403 1_555 ? A ? ? A ? ? ? ? ? ? ? 1.534 ? 
covale ? covale2 A SG CYS 165 A CYS 161 1_555 D C3 Y3H . A Y3H 403 1_555 ? B ? ? B ? ? ? ? ? ? ? 1.767 ? 
#
_chem_comp.formula           'C16 H22 O5' 
_chem_comp.formula_weight    294.343 
_chem_comp.id                Y3H 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '~{O}3-~{tert}-butyl ~{O}1-prop-2-ynyl (1~{S},3~{S})-1-methyl-4-oxidanylidene-cyclohexane-1,3-dicarboxylate' 
_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
C18 C17 Y3H sing 439 n n 
C19 C17 Y3H sing 440 n n 
C17 C20 Y3H sing 441 n n 
C17 O3 Y3H sing 442 n n 
C7 C4 Y3H sing 443 n n 
O4 C1 Y3H doub 444 n n 
O3 C16 Y3H sing 445 n n 
C1 C2 Y3H sing 446 n n 
C1 C6 Y3H sing 447 n n 
C2 C16 Y3H sing 448 n n 
C2 C3 Y3H sing 449 n n 
C6 C5 Y3H sing 450 n n 
C16 O2 Y3H doub 451 n n 
C4 C5 Y3H sing 452 n n 
C4 C3 Y3H sing 453 n n 
C4 C21 Y3H sing 454 n n 
O1 C21 Y3H doub 455 n n 
C21 O Y3H sing 456 n n 
C24 C23 Y3H trip 457 n n 
O C22 Y3H sing 458 n n 
C23 C22 Y3H sing 459 n n 
C18 H1 Y3H sing 460 n n 
C18 H2 Y3H sing 461 n n 
C18 H3 Y3H sing 462 n n 
C19 H4 Y3H sing 463 n n 
C19 H5 Y3H sing 464 n n 
C19 H6 Y3H sing 465 n n 
C2 H7 Y3H sing 466 n n 
C20 H8 Y3H sing 467 n n 
C20 H9 Y3H sing 468 n n 
C20 H10 Y3H sing 469 n n 
C22 H11 Y3H sing 470 n n 
C22 H12 Y3H sing 471 n n 
C24 H13 Y3H sing 472 n n 
C3 H14 Y3H sing 473 n n 
C3 H15 Y3H sing 474 n n 
C5 H16 Y3H sing 475 n n 
C5 H17 Y3H sing 476 n n 
C6 H18 Y3H sing 477 n n 
C6 H19 Y3H sing 478 n n 
C7 H20 Y3H sing 479 n n 
C7 H21 Y3H sing 480 n n 
C7 H22 Y3H sing 481 n n 
#
_atom_sites.entry_id                     8R5F 
_atom_sites.fract_transf_matrix[1][1]    0.024105 
_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]    0.012973 
_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]    0.008114 
_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 ANP A 1 401 401 ANP ANP . 
C 3 GOL A 1 402 402 GOL GOL . 
D 4 Y3H A 1 403 405 Y3H r83 . 
E 5 HOH A 1 501 65 HOH HOH . 
E 5 HOH A 2 502 124 HOH HOH . 
E 5 HOH A 3 503 66 HOH HOH . 
E 5 HOH A 4 504 86 HOH HOH . 
E 5 HOH A 5 505 136 HOH HOH . 
E 5 HOH A 6 506 129 HOH HOH . 
E 5 HOH A 7 507 115 HOH HOH . 
E 5 HOH A 8 508 39 HOH HOH . 
E 5 HOH A 9 509 137 HOH HOH . 
E 5 HOH A 10 510 95 HOH HOH . 
E 5 HOH A 11 511 24 HOH HOH . 
E 5 HOH A 12 512 80 HOH HOH . 
E 5 HOH A 13 513 85 HOH HOH . 
E 5 HOH A 14 514 26 HOH HOH . 
E 5 HOH A 15 515 132 HOH HOH . 
E 5 HOH A 16 516 112 HOH HOH . 
E 5 HOH A 17 517 35 HOH HOH . 
E 5 HOH A 18 518 90 HOH HOH . 
E 5 HOH A 19 519 12 HOH HOH . 
E 5 HOH A 20 520 53 HOH HOH . 
E 5 HOH A 21 521 125 HOH HOH . 
E 5 HOH A 22 522 75 HOH HOH . 
E 5 HOH A 23 523 99 HOH HOH . 
E 5 HOH A 24 524 121 HOH HOH . 
E 5 HOH A 25 525 134 HOH HOH . 
E 5 HOH A 26 526 38 HOH HOH . 
E 5 HOH A 27 527 94 HOH HOH . 
E 5 HOH A 28 528 55 HOH HOH . 
E 5 HOH A 29 529 37 HOH HOH . 
E 5 HOH A 30 530 82 HOH HOH . 
E 5 HOH A 31 531 34 HOH HOH . 
E 5 HOH A 32 532 88 HOH HOH . 
E 5 HOH A 33 533 138 HOH HOH . 
E 5 HOH A 34 534 114 HOH HOH . 
E 5 HOH A 35 535 44 HOH HOH . 
E 5 HOH A 36 536 56 HOH HOH . 
E 5 HOH A 37 537 111 HOH HOH . 
E 5 HOH A 38 538 11 HOH HOH . 
E 5 HOH A 39 539 60 HOH HOH . 
E 5 HOH A 40 540 113 HOH HOH . 
E 5 HOH A 41 541 62 HOH HOH . 
E 5 HOH A 42 542 18 HOH HOH . 
E 5 HOH A 43 543 61 HOH HOH . 
E 5 HOH A 44 544 23 HOH HOH . 
E 5 HOH A 45 545 97 HOH HOH . 
E 5 HOH A 46 546 133 HOH HOH . 
E 5 HOH A 47 547 131 HOH HOH . 
E 5 HOH A 48 548 74 HOH HOH . 
E 5 HOH A 49 549 14 HOH HOH . 
E 5 HOH A 50 550 47 HOH HOH . 
E 5 HOH A 51 551 73 HOH HOH . 
E 5 HOH A 52 552 4 HOH HOH . 
E 5 HOH A 53 553 42 HOH HOH . 
E 5 HOH A 54 554 48 HOH HOH . 
E 5 HOH A 55 555 9 HOH HOH . 
E 5 HOH A 56 556 130 HOH HOH . 
E 5 HOH A 57 557 13 HOH HOH . 
E 5 HOH A 58 558 103 HOH HOH . 
E 5 HOH A 59 559 105 HOH HOH . 
E 5 HOH A 60 560 84 HOH HOH . 
E 5 HOH A 61 561 71 HOH HOH . 
E 5 HOH A 62 562 87 HOH HOH . 
E 5 HOH A 63 563 6 HOH HOH . 
E 5 HOH A 64 564 108 HOH HOH . 
E 5 HOH A 65 565 89 HOH HOH . 
E 5 HOH A 66 566 16 HOH HOH . 
E 5 HOH A 67 567 50 HOH HOH . 
E 5 HOH A 68 568 79 HOH HOH . 
E 5 HOH A 69 569 104 HOH HOH . 
E 5 HOH A 70 570 10 HOH HOH . 
E 5 HOH A 71 571 15 HOH HOH . 
E 5 HOH A 72 572 46 HOH HOH . 
E 5 HOH A 73 573 43 HOH HOH . 
E 5 HOH A 74 574 17 HOH HOH . 
E 5 HOH A 75 575 25 HOH HOH . 
E 5 HOH A 76 576 22 HOH HOH . 
E 5 HOH A 77 577 127 HOH HOH . 
E 5 HOH A 78 578 5 HOH HOH . 
E 5 HOH A 79 579 58 HOH HOH . 
E 5 HOH A 80 580 51 HOH HOH . 
E 5 HOH A 81 581 32 HOH HOH . 
E 5 HOH A 82 582 27 HOH HOH . 
E 5 HOH A 83 583 3 HOH HOH . 
E 5 HOH A 84 584 19 HOH HOH . 
E 5 HOH A 85 585 93 HOH HOH . 
E 5 HOH A 86 586 20 HOH HOH . 
E 5 HOH A 87 587 36 HOH HOH . 
E 5 HOH A 88 588 68 HOH HOH . 
E 5 HOH A 89 589 109 HOH HOH . 
E 5 HOH A 90 590 57 HOH HOH . 
E 5 HOH A 91 591 7 HOH HOH . 
E 5 HOH A 92 592 63 HOH HOH . 
E 5 HOH A 93 593 21 HOH HOH . 
E 5 HOH A 94 594 45 HOH HOH . 
E 5 HOH A 95 595 139 HOH HOH . 
E 5 HOH A 96 596 52 HOH HOH . 
E 5 HOH A 97 597 83 HOH HOH . 
E 5 HOH A 98 598 2 HOH HOH . 
E 5 HOH A 99 599 30 HOH HOH . 
E 5 HOH A 100 600 54 HOH HOH . 
E 5 HOH A 101 601 41 HOH HOH . 
E 5 HOH A 102 602 28 HOH HOH . 
E 5 HOH A 103 603 59 HOH HOH . 
E 5 HOH A 104 604 76 HOH HOH . 
E 5 HOH A 105 605 33 HOH HOH . 
E 5 HOH A 106 606 77 HOH HOH . 
E 5 HOH A 107 607 100 HOH HOH . 
E 5 HOH A 108 608 8 HOH HOH . 
E 5 HOH A 109 609 96 HOH HOH . 
E 5 HOH A 110 610 69 HOH HOH . 
E 5 HOH A 111 611 81 HOH HOH . 
E 5 HOH A 112 612 64 HOH HOH . 
E 5 HOH A 113 613 128 HOH HOH . 
E 5 HOH A 114 614 49 HOH HOH . 
E 5 HOH A 115 615 31 HOH HOH . 
E 5 HOH A 116 616 72 HOH HOH . 
E 5 HOH A 117 617 40 HOH HOH . 
E 5 HOH A 118 618 126 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 O O Y3H . A . D 4 -21.146 -36.074 24.071 0.45 63.45 ? O Y3H 403 A 1 
HETATM 2 O O Y3H . B . D 4 -22.281 -35.166 22.186 0.55 57.63 ? O Y3H 403 A 1 
HETATM 3 C C1 Y3H . A . D 4 -25.009 -35.124 21.107 0.45 57.75 ? C1 Y3H 403 A 1 
HETATM 4 C C1 Y3H . B . D 4 -25.067 -31.501 20.763 0.55 62.25 ? C1 Y3H 403 A 1 
HETATM 5 C C16 Y3H . A . D 4 -24.4 -32.764 21.653 0.45 59.19 ? C16 Y3H 403 A 1 
HETATM 6 C C16 Y3H . B . D 4 -23.917 -30.245 18.846 0.55 58.06 ? C16 Y3H 403 A 1 
HETATM 7 C C17 Y3H . A . D 4 -24.89 -31.001 19.879 0.45 62.23 ? C17 Y3H 403 A 1 
HETATM 8 C C17 Y3H . B . D 4 -25.261 -28.898 17.149 0.55 55.93 ? C17 Y3H 403 A 1 
HETATM 9 C C18 Y3H . A . D 4 -25.179 -32.032 18.786 0.45 57.12 ? C18 Y3H 403 A 1 
HETATM 10 C C18 Y3H . B . D 4 -26.55 -28.09 17.162 0.55 57.38 ? C18 Y3H 403 A 1 
HETATM 11 C C19 Y3H . A . D 4 -24.175 -29.821 19.233 0.45 56.98 ? C19 Y3H 403 A 1 
HETATM 12 C C19 Y3H . B . D 4 -25.394 -30.122 16.248 0.55 54.8 ? C19 Y3H 403 A 1 
HETATM 13 C C2 Y3H . A . D 4 -23.902 -34.117 21.208 0.45 60.62 ? C2 Y3H 403 A 1 
HETATM 14 C C2 Y3H . B . D 4 -24.265 -31.571 19.482 0.55 61.9 ? C2 Y3H 403 A 1 
HETATM 15 C C20 Y3H . A . D 4 -26.195 -30.522 20.501 0.45 61.8 ? C20 Y3H 403 A 1 
HETATM 16 C C20 Y3H . B . D 4 -24.158 -28.005 16.614 0.55 51.48 ? C20 Y3H 403 A 1 
HETATM 17 C C21 Y3H . A . D 4 -21.156 -36.345 22.635 0.45 58.52 ? C21 Y3H 403 A 1 
HETATM 18 C C21 Y3H . B . D 4 -22.886 -33.876 21.868 0.55 61.94 ? C21 Y3H 403 A 1 
HETATM 19 C C22 Y3H . A . D 4 -20.008 -36.282 24.913 0.45 61.28 ? C22 Y3H 403 A 1 
HETATM 20 C C22 Y3H . B . D 4 -20.879 -35.235 22.539 0.55 58.11 ? C22 Y3H 403 A 1 
HETATM 21 C C23 Y3H . A . D 4 -18.76 -35.663 24.437 0.45 59.25 ? C23 Y3H 403 A 1 
HETATM 22 C C23 Y3H . B . D 4 -20.73 -35.781 23.897 0.55 63.37 ? C23 Y3H 403 A 1 
HETATM 23 C C24 Y3H . A . D 4 -17.659 -35.144 24.061 0.45 54.91 ? C24 Y3H 403 A 1 
HETATM 24 C C24 Y3H . B . D 4 -20.531 -36.249 25.07 0.55 60.89 ? C24 Y3H 403 A 1 
HETATM 25 C C3 Y3H . A . D 4 -22.822 -34.608 22.157 0.45 60.06 ? C3 Y3H 403 A 1 
HETATM 26 C C3 Y3H . B . D 4 -23.032 -32.387 19.869 0.55 60.72 ? C3 Y3H 403 A 1 
HETATM 27 C C4 Y3H . A . D 4 -22.371 -36.011 21.807 0.45 58.98 ? C4 Y3H 403 A 1 
HETATM 28 C C4 Y3H . B . D 4 -23.485 -33.715 20.496 0.55 59.98 ? C4 Y3H 403 A 1 
HETATM 29 C C5 Y3H . A . D 4 -23.521 -36.983 22.057 0.45 59.45 ? C5 Y3H 403 A 1 
HETATM 30 C C5 Y3H . B . D 4 -25.006 -33.932 20.53 0.55 57.66 ? C5 Y3H 403 A 1 
HETATM 31 C C6 Y3H . A . D 4 -24.771 -36.622 21.253 0.45 50.71 ? C6 Y3H 403 A 1 
HETATM 32 C C6 Y3H . B . D 4 -25.735 -32.774 21.212 0.55 63.7 ? C6 Y3H 403 A 1 
HETATM 33 C C7 Y3H . A . D 4 -21.897 -36.094 20.365 0.45 58.6 ? C7 Y3H 403 A 1 
HETATM 34 C C7 Y3H . B . D 4 -22.907 -34.859 19.707 0.55 59.52 ? C7 Y3H 403 A 1 
HETATM 35 O O1 Y3H . A . D 4 -20.177 -36.828 22.086 0.45 63.05 ? O1 Y3H 403 A 1 
HETATM 36 O O1 Y3H . B . D 4 -22.895 -32.967 22.687 0.55 62.04 ? O1 Y3H 403 A 1 
HETATM 37 O O2 Y3H . A . D 4 -25.093 -32.67 22.653 0.45 65.97 ? O2 Y3H 403 A 1 
HETATM 38 O O2 Y3H . B . D 4 -22.755 -29.931 18.618 0.55 64.98 ? O2 Y3H 403 A 1 
HETATM 39 O O3 Y3H . A . D 4 -24.063 -31.531 20.934 0.45 61.13 ? O3 Y3H 403 A 1 
HETATM 40 O O3 Y3H . B . D 4 -24.966 -29.299 18.487 0.55 56.93 ? O3 Y3H 403 A 1 
HETATM 41 O O4 Y3H . A . D 4 -26.124 -34.701 20.869 0.45 54.37 ? O4 Y3H 403 A 1 
HETATM 42 O O4 Y3H . B . D 4 -25.154 -30.499 21.451 0.55 58.27 ? O4 Y3H 403 A 1 
#
_model_server_stats.io_time_ms              13 
_model_server_stats.parse_time_ms           15 
_model_server_stats.create_model_time_ms    4 
_model_server_stats.query_time_ms           309 
_model_server_stats.encode_time_ms          17 
_model_server_stats.element_count           42 
#