data_8HVN # _model_server_result.job_id j4be0smgobYm2VTJexmq7w _model_server_result.datetime_utc '2024-11-05 15:28:16' _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 8hvn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 8HVN # _exptl.entry_id 8HVN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 501.542 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description (1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-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 90 _cell.angle_gamma 90 _cell.entry_id 8HVN _cell.length_a 67.902 _cell.length_b 101.384 _cell.length_c 103.55 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8HVN _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # _chem_comp.formula 'C23 H34 F3 N5 O4' _chem_comp.formula_weight 501.542 _chem_comp.id 4WI _chem_comp.mon_nstd_flag . _chem_comp.name (1R,2S,5S)-N-{(1E,2S)-1-imino-3-[(3S)-2-oxopyrrolidin-3-yl]propan-2-yl}-6,6-dimethyl-3-[3-methyl-N-(trifluoroacetyl)-L-valyl]-3-azabicyclo[3.1.0]hexane-2-carboxamide _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'PF-07321332, bound form;nirmatrelvir, bound form;Paxlovid, bound form' # 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 O1 C8 4WI doub 1 n n C8 N2 4WI sing 2 n n C8 C5 4WI sing 3 n n N2 C7 4WI sing 4 n n C4 C5 4WI sing 5 n n C4 C2 4WI sing 6 n n C5 C6 4WI sing 7 n n N5 C3 4WI doub 8 n n C3 C2 4WI sing 9 n n C7 C6 4WI sing 10 n n C2 N1 4WI sing 11 n n N1 C1 4WI sing 12 n n F1 C22 4WI sing 13 n n O3 C13 4WI doub 14 n n C1 C9 4WI sing 15 n n C1 O2 4WI doub 16 n n F3 C22 4WI sing 17 n n C23 C15 4WI sing 18 n n C22 F2 4WI sing 19 n n C22 C21 4WI sing 20 n n C9 N3 4WI sing 21 n n C9 C12 4WI sing 22 n n C13 N3 4WI sing 23 n n C13 C14 4WI sing 24 n n N4 C21 4WI sing 25 n n N4 C14 4WI sing 26 n n C19 C18 4WI sing 27 n n N3 C10 4WI sing 28 n n C21 O4 4WI doub 29 n n C12 C18 4WI sing 30 n n C12 C11 4WI sing 31 n n C14 C15 4WI sing 32 n n C15 C17 4WI sing 33 n n C15 C16 4WI sing 34 n n C18 C20 4WI sing 35 n n C18 C11 4WI sing 36 n n C10 C11 4WI sing 37 n n C3 H33 4WI sing 38 n n C6 H5 4WI sing 39 n n C6 H6 4WI sing 40 n n C7 H7 4WI sing 41 n n C7 H8 4WI sing 42 n n C10 H11 4WI sing 43 n n C10 H12 4WI sing 44 n n C5 H4 4WI sing 45 n n C9 H10 4WI sing 46 n n C11 H13 4WI sing 47 n n C12 H14 4WI sing 48 n n C19 H23 4WI sing 49 n n C19 H24 4WI sing 50 n n C19 H25 4WI sing 51 n n C20 H26 4WI sing 52 n n C20 H27 4WI sing 53 n n C20 H28 4WI sing 54 n n C16 H17 4WI sing 55 n n C16 H19 4WI sing 56 n n C16 H18 4WI sing 57 n n C17 H20 4WI sing 58 n n C17 H21 4WI sing 59 n n C17 H22 4WI sing 60 n n C23 H29 4WI sing 61 n n C23 H30 4WI sing 62 n n C23 H31 4WI sing 63 n n C4 H2 4WI sing 64 n n C4 H3 4WI sing 65 n n C2 H32 4WI sing 66 n n C14 H15 4WI sing 67 n n N5 H36 4WI sing 68 n n N2 H9 4WI sing 69 n n N1 H1 4WI sing 70 n n N4 H16 4WI sing 71 n n # _atom_sites.entry_id 8HVN _atom_sites.fract_transf_matrix[1][1] 0.014727 _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] 0.009863 _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] 0.009657 _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 4WI A 1 401 1 4WI 9I7 . D 2 4WI B 1 401 2 4WI 9I7 . E 3 HOH A 1 501 51 HOH HOH . E 3 HOH A 2 502 71 HOH HOH . E 3 HOH A 3 503 101 HOH HOH . E 3 HOH A 4 504 83 HOH HOH . E 3 HOH A 5 505 31 HOH HOH . E 3 HOH A 6 506 65 HOH HOH . E 3 HOH A 7 507 17 HOH HOH . E 3 HOH A 8 508 41 HOH HOH . E 3 HOH A 9 509 56 HOH HOH . E 3 HOH A 10 510 44 HOH HOH . E 3 HOH A 11 511 9 HOH HOH . E 3 HOH A 12 512 66 HOH HOH . E 3 HOH A 13 513 94 HOH HOH . E 3 HOH A 14 514 63 HOH HOH . E 3 HOH A 15 515 28 HOH HOH . E 3 HOH A 16 516 92 HOH HOH . E 3 HOH A 17 517 47 HOH HOH . E 3 HOH A 18 518 45 HOH HOH . E 3 HOH A 19 519 12 HOH HOH . E 3 HOH A 20 520 26 HOH HOH . E 3 HOH A 21 521 100 HOH HOH . E 3 HOH A 22 522 7 HOH HOH . E 3 HOH A 23 523 25 HOH HOH . E 3 HOH A 24 524 34 HOH HOH . E 3 HOH A 25 525 95 HOH HOH . E 3 HOH A 26 526 4 HOH HOH . E 3 HOH A 27 527 72 HOH HOH . E 3 HOH A 28 528 2 HOH HOH . E 3 HOH A 29 529 67 HOH HOH . E 3 HOH A 30 530 10 HOH HOH . E 3 HOH A 31 531 3 HOH HOH . E 3 HOH A 32 532 81 HOH HOH . E 3 HOH A 33 533 18 HOH HOH . E 3 HOH A 34 534 73 HOH HOH . E 3 HOH A 35 535 62 HOH HOH . E 3 HOH A 36 536 29 HOH HOH . E 3 HOH A 37 537 78 HOH HOH . E 3 HOH A 38 538 8 HOH HOH . E 3 HOH A 39 539 6 HOH HOH . E 3 HOH A 40 540 38 HOH HOH . E 3 HOH A 41 541 87 HOH HOH . E 3 HOH A 42 542 24 HOH HOH . E 3 HOH A 43 543 23 HOH HOH . E 3 HOH A 44 544 46 HOH HOH . E 3 HOH A 45 545 96 HOH HOH . E 3 HOH A 46 546 39 HOH HOH . E 3 HOH A 47 547 99 HOH HOH . E 3 HOH A 48 548 35 HOH HOH . E 3 HOH A 49 549 69 HOH HOH . E 3 HOH A 50 550 88 HOH HOH . E 3 HOH A 51 551 40 HOH HOH . E 3 HOH A 52 552 53 HOH HOH . E 3 HOH A 53 553 91 HOH HOH . E 3 HOH A 54 554 68 HOH HOH . E 3 HOH A 55 555 86 HOH HOH . E 3 HOH A 56 556 75 HOH HOH . E 3 HOH A 57 557 80 HOH HOH . E 3 HOH A 58 558 59 HOH HOH . E 3 HOH A 59 559 84 HOH HOH . E 3 HOH A 60 560 74 HOH HOH . E 3 HOH A 61 561 90 HOH HOH . E 3 HOH A 62 562 55 HOH HOH . E 3 HOH A 63 563 49 HOH HOH . E 3 HOH A 64 564 93 HOH HOH . E 3 HOH A 65 565 82 HOH HOH . E 3 HOH A 66 566 79 HOH HOH . E 3 HOH A 67 567 97 HOH HOH . E 3 HOH A 68 568 20 HOH HOH . F 3 HOH B 1 501 37 HOH HOH . F 3 HOH B 2 502 16 HOH HOH . F 3 HOH B 3 503 77 HOH HOH . F 3 HOH B 4 504 21 HOH HOH . F 3 HOH B 5 505 64 HOH HOH . F 3 HOH B 6 506 76 HOH HOH . F 3 HOH B 7 507 61 HOH HOH . F 3 HOH B 8 508 48 HOH HOH . F 3 HOH B 9 509 19 HOH HOH . F 3 HOH B 10 510 50 HOH HOH . F 3 HOH B 11 511 36 HOH HOH . F 3 HOH B 12 512 33 HOH HOH . F 3 HOH B 13 513 13 HOH HOH . F 3 HOH B 14 514 57 HOH HOH . F 3 HOH B 15 515 52 HOH HOH . F 3 HOH B 16 516 32 HOH HOH . F 3 HOH B 17 517 14 HOH HOH . F 3 HOH B 18 518 5 HOH HOH . F 3 HOH B 19 519 1 HOH HOH . F 3 HOH B 20 520 43 HOH HOH . F 3 HOH B 21 521 89 HOH HOH . F 3 HOH B 22 522 11 HOH HOH . F 3 HOH B 23 523 22 HOH HOH . F 3 HOH B 24 524 54 HOH HOH . F 3 HOH B 25 525 70 HOH HOH . F 3 HOH B 26 526 15 HOH HOH . F 3 HOH B 27 527 30 HOH HOH . F 3 HOH B 28 528 42 HOH HOH . F 3 HOH B 29 529 27 HOH HOH . F 3 HOH B 30 530 98 HOH HOH . F 3 HOH B 31 531 60 HOH HOH . F 3 HOH B 32 532 58 HOH HOH . F 3 HOH B 33 533 85 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 C8 4WI . . . D 2 13.342 9.95 -6.815 1 40.46 ? C8 4WI 401 B 1 HETATM 2 C C3 4WI . . . D 2 11.846 12.382 -2.715 1 35.4 ? C3 4WI 401 B 1 HETATM 3 C C1 4WI . . . D 2 15.222 11.543 -2.406 1 43.47 ? C1 4WI 401 B 1 HETATM 4 C C13 4WI . . . D 2 17.484 9.773 -3.238 1 42.79 ? C13 4WI 401 B 1 HETATM 5 C C21 4WI . . . D 2 20.015 7.581 -2.945 1 43.32 ? C21 4WI 401 B 1 HETATM 6 C C6 4WI . . . D 2 14.145 12.061 -6.464 1 44.47 ? C6 4WI 401 B 1 HETATM 7 C C7 4WI . . . D 2 14.745 11.498 -7.742 1 41.64 ? C7 4WI 401 B 1 HETATM 8 C C10 4WI . . . D 2 18.311 11.329 -1.35 1 43.22 ? C10 4WI 401 B 1 HETATM 9 C C5 4WI . . . D 2 13.77 10.782 -5.746 1 38.72 ? C5 4WI 401 B 1 HETATM 10 C C9 4WI . . . D 2 15.969 10.691 -1.57 1 39.08 ? C9 4WI 401 B 1 HETATM 11 C C11 4WI . . . D 2 17.653 11.615 0.008 1 43.85 ? C11 4WI 401 B 1 HETATM 12 C C12 4WI . . . D 2 16.19 11.238 -0.128 1 41.16 ? C12 4WI 401 B 1 HETATM 13 C C18 4WI . . . D 2 17.119 10.47 0.68 1 40.2 ? C18 4WI 401 B 1 HETATM 14 C C19 4WI . . . D 2 17.561 9.078 0.795 1 38.53 ? C19 4WI 401 B 1 HETATM 15 C C20 4WI . . . D 2 16.881 10.819 2.146 1 40.93 ? C20 4WI 401 B 1 HETATM 16 C C16 4WI . . . D 2 17.974 10.233 -6.246 1 39.59 ? C16 4WI 401 B 1 HETATM 17 C C17 4WI . . . D 2 18.761 11.549 -4.812 1 39.06 ? C17 4WI 401 B 1 HETATM 18 C C23 4WI . . . D 2 20.529 10.694 -5.627 1 43.72 ? C23 4WI 401 B 1 HETATM 19 C C4 4WI . . . D 2 12.622 11.07 -4.749 1 34.39 ? C4 4WI 401 B 1 HETATM 20 C C2 4WI . . . D 2 13.063 11.939 -3.546 1 36.99 ? C2 4WI 401 B 1 HETATM 21 C C14 4WI . . . D 2 18.926 9.623 -3.782 1 37.22 ? C14 4WI 401 B 1 HETATM 22 C C22 4WI . . . D 2 20.093 6.059 -3.098 1 44.95 ? C22 4WI 401 B 1 HETATM 23 C C15 4WI . . . D 2 19.144 10.121 -5.245 1 43.78 ? C15 4WI 401 B 1 HETATM 24 N N5 4WI . . . D 2 11.173 13.492 -3.08 1 33.65 ? N5 4WI 401 B 1 HETATM 25 N N2 4WI . . . D 2 13.873 10.313 -8 1 39.55 ? N2 4WI 401 B 1 HETATM 26 N N3 4WI . . . D 2 17.315 10.529 -2.137 1 41.18 ? N3 4WI 401 B 1 HETATM 27 N N1 4WI . . . D 2 13.95 11.162 -2.658 1 38.56 ? N1 4WI 401 B 1 HETATM 28 N N4 4WI . . . D 2 19.182 8.182 -3.8 1 40.01 ? N4 4WI 401 B 1 HETATM 29 O O1 4WI . . . D 2 12.574 8.992 -6.693 1 36.61 ? O1 4WI 401 B 1 HETATM 30 O O2 4WI . . . D 2 15.741 12.522 -2.938 1 39.55 ? O2 4WI 401 B 1 HETATM 31 O O3 4WI . . . D 2 16.551 9.176 -3.771 1 36.78 ? O3 4WI 401 B 1 HETATM 32 O O4 4WI . . . D 2 20.67 8.177 -2.09 1 46.43 ? O4 4WI 401 B 1 HETATM 33 F F1 4WI . . . D 2 18.872 5.542 -2.983 1 47.9 ? F1 4WI 401 B 1 HETATM 34 F F2 4WI . . . D 2 20.591 5.742 -4.278 1 45.86 ? F2 4WI 401 B 1 HETATM 35 F F3 4WI . . . D 2 20.852 5.557 -2.136 1 48.64 ? F3 4WI 401 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 309 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 35 #