data_8HVO # _model_server_result.job_id zbvcaiNWPxh4-0bT3X1odQ _model_server_result.datetime_utc '2024-11-14 03:29:19' _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 8hvo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":401}' # _entry.id 8HVO # _exptl.entry_id 8HVO _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 108.822 _cell.angle_gamma 90 _cell.entry_id 8HVO _cell.length_a 55.74 _cell.length_b 99.191 _cell.length_c 59.513 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8HVO _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # _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 8HVO _atom_sites.fract_transf_matrix[1][1] 0.01794 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.006115 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010082 _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] 0.017752 _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 63 HOH HOH . E 3 HOH A 2 502 38 HOH HOH . E 3 HOH A 3 503 78 HOH HOH . E 3 HOH A 4 504 80 HOH HOH . E 3 HOH A 5 505 6 HOH HOH . E 3 HOH A 6 506 68 HOH HOH . E 3 HOH A 7 507 59 HOH HOH . E 3 HOH A 8 508 43 HOH HOH . E 3 HOH A 9 509 84 HOH HOH . E 3 HOH A 10 510 32 HOH HOH . E 3 HOH A 11 511 29 HOH HOH . E 3 HOH A 12 512 69 HOH HOH . E 3 HOH A 13 513 5 HOH HOH . E 3 HOH A 14 514 17 HOH HOH . E 3 HOH A 15 515 27 HOH HOH . E 3 HOH A 16 516 40 HOH HOH . E 3 HOH A 17 517 13 HOH HOH . E 3 HOH A 18 518 3 HOH HOH . E 3 HOH A 19 519 47 HOH HOH . E 3 HOH A 20 520 51 HOH HOH . E 3 HOH A 21 521 7 HOH HOH . E 3 HOH A 22 522 11 HOH HOH . E 3 HOH A 23 523 9 HOH HOH . E 3 HOH A 24 524 14 HOH HOH . E 3 HOH A 25 525 31 HOH HOH . E 3 HOH A 26 526 85 HOH HOH . E 3 HOH A 27 527 21 HOH HOH . E 3 HOH A 28 528 1 HOH HOH . E 3 HOH A 29 529 70 HOH HOH . E 3 HOH A 30 530 52 HOH HOH . E 3 HOH A 31 531 37 HOH HOH . E 3 HOH A 32 532 67 HOH HOH . E 3 HOH A 33 533 72 HOH HOH . E 3 HOH A 34 534 54 HOH HOH . E 3 HOH A 35 535 61 HOH HOH . E 3 HOH A 36 536 71 HOH HOH . E 3 HOH A 37 537 64 HOH HOH . E 3 HOH A 38 538 26 HOH HOH . E 3 HOH A 39 539 36 HOH HOH . E 3 HOH A 40 540 65 HOH HOH . E 3 HOH A 41 541 20 HOH HOH . E 3 HOH A 42 542 62 HOH HOH . E 3 HOH A 43 543 44 HOH HOH . E 3 HOH A 44 544 89 HOH HOH . E 3 HOH A 45 545 35 HOH HOH . E 3 HOH A 46 546 25 HOH HOH . E 3 HOH A 47 547 87 HOH HOH . E 3 HOH A 48 548 90 HOH HOH . E 3 HOH A 49 549 73 HOH HOH . E 3 HOH A 50 550 77 HOH HOH . E 3 HOH A 51 551 56 HOH HOH . F 3 HOH B 1 501 46 HOH HOH . F 3 HOH B 2 502 74 HOH HOH . F 3 HOH B 3 503 55 HOH HOH . F 3 HOH B 4 504 45 HOH HOH . F 3 HOH B 5 505 24 HOH HOH . F 3 HOH B 6 506 4 HOH HOH . F 3 HOH B 7 507 18 HOH HOH . F 3 HOH B 8 508 83 HOH HOH . F 3 HOH B 9 509 66 HOH HOH . F 3 HOH B 10 510 60 HOH HOH . F 3 HOH B 11 511 12 HOH HOH . F 3 HOH B 12 512 33 HOH HOH . F 3 HOH B 13 513 81 HOH HOH . F 3 HOH B 14 514 28 HOH HOH . F 3 HOH B 15 515 23 HOH HOH . F 3 HOH B 16 516 2 HOH HOH . F 3 HOH B 17 517 15 HOH HOH . F 3 HOH B 18 518 41 HOH HOH . F 3 HOH B 19 519 22 HOH HOH . F 3 HOH B 20 520 86 HOH HOH . F 3 HOH B 21 521 88 HOH HOH . F 3 HOH B 22 522 8 HOH HOH . F 3 HOH B 23 523 16 HOH HOH . F 3 HOH B 24 524 82 HOH HOH . F 3 HOH B 25 525 53 HOH HOH . F 3 HOH B 26 526 42 HOH HOH . F 3 HOH B 27 527 50 HOH HOH . F 3 HOH B 28 528 49 HOH HOH . F 3 HOH B 29 529 34 HOH HOH . F 3 HOH B 30 530 30 HOH HOH . F 3 HOH B 31 531 39 HOH HOH . F 3 HOH B 32 532 79 HOH HOH . F 3 HOH B 33 533 10 HOH HOH . F 3 HOH B 34 534 19 HOH HOH . F 3 HOH B 35 535 48 HOH HOH . F 3 HOH B 36 536 91 HOH HOH . F 3 HOH B 37 537 75 HOH HOH . F 3 HOH B 38 538 58 HOH HOH . F 3 HOH B 39 539 57 HOH HOH . F 3 HOH B 40 540 76 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 . . . C 2 -16.09 -7.969 3.782 1 27.42 ? C8 4WI 401 A 1 HETATM 2 C C3 4WI . . . C 2 -16.883 -12.141 6.296 1 20.41 ? C3 4WI 401 A 1 HETATM 3 C C1 4WI . . . C 2 -19.356 -11.832 3.72 1 26.12 ? C1 4WI 401 A 1 HETATM 4 C C13 4WI . . . C 2 -20.867 -10.045 1.894 1 29.54 ? C13 4WI 401 A 1 HETATM 5 C C21 4WI . . . C 2 -23.387 -8.42 0.291 1 36.24 ? C21 4WI 401 A 1 HETATM 6 C C6 4WI . . . C 2 -15.73 -9.944 2.665 1 27.05 ? C6 4WI 401 A 1 HETATM 7 C C7 4WI . . . C 2 -15.363 -8.79 1.761 1 25.37 ? C7 4WI 401 A 1 HETATM 8 C C10 4WI . . . C 2 -21.835 -12.367 1.614 1 29.58 ? C10 4WI 401 A 1 HETATM 9 C C5 4WI . . . C 2 -16.661 -9.255 3.661 1 25.47 ? C5 4WI 401 A 1 HETATM 10 C C9 4WI . . . C 2 -20.756 -11.654 3.691 1 25.6 ? C9 4WI 401 A 1 HETATM 11 C C11 4WI . . . C 2 -22.298 -13.343 2.701 1 33.52 ? C11 4WI 401 A 1 HETATM 12 C C12 4WI . . . C 2 -21.59 -12.928 3.975 1 26.59 ? C12 4WI 401 A 1 HETATM 13 C C18 4WI . . . C 2 -23.024 -12.769 3.795 1 27.55 ? C18 4WI 401 A 1 HETATM 14 C C19 4WI . . . C 2 -23.992 -11.671 3.941 1 25.71 ? C19 4WI 401 A 1 HETATM 15 C C20 4WI . . . C 2 -23.742 -13.898 4.54 1 25.46 ? C20 4WI 401 A 1 HETATM 16 C C16 4WI . . . C 2 -20.527 -9.134 -1.989 1 33.92 ? C16 4WI 401 A 1 HETATM 17 C C17 4WI . . . C 2 -19.534 -8.71 -0.208 1 31.89 ? C17 4WI 401 A 1 HETATM 18 C C23 4WI . . . C 2 -19.087 -10.766 -0.455 1 30.28 ? C23 4WI 401 A 1 HETATM 19 C C4 4WI . . . C 2 -16.615 -10.006 5.017 1 21.47 ? C4 4WI 401 A 1 HETATM 20 C C2 4WI . . . C 2 -17.241 -11.429 4.959 1 23.53 ? C2 4WI 401 A 1 HETATM 21 C C14 4WI . . . C 2 -21.378 -9.744 0.468 1 29.44 ? C14 4WI 401 A 1 HETATM 22 C C22 4WI . . . C 2 -24.076 -7.052 0.408 1 36.89 ? C22 4WI 401 A 1 HETATM 23 C C15 4WI . . . C 2 -20.344 -9.921 -0.678 1 32.19 ? C15 4WI 401 A 1 HETATM 24 N N5 4WI . . . C 2 -15.834 -12.945 6.221 1 21.8 ? N5 4WI 401 A 1 HETATM 25 N N2 4WI . . . C 2 -15.313 -7.66 2.737 1 28.79 ? N2 4WI 401 A 1 HETATM 26 N N3 4WI . . . C 2 -21.155 -11.259 2.339 1 31.65 ? N3 4WI 401 A 1 HETATM 27 N N1 4WI . . . C 2 -18.702 -11.363 4.831 1 23.44 ? N1 4WI 401 A 1 HETATM 28 N N4 4WI . . . C 2 -22.063 -8.445 0.511 1 29.49 ? N4 4WI 401 A 1 HETATM 29 O O1 4WI . . . C 2 -16.252 -7.214 4.738 1 26.01 ? O1 4WI 401 A 1 HETATM 30 O O2 4WI . . . C 2 -18.768 -12.295 2.744 1 24.91 ? O2 4WI 401 A 1 HETATM 31 O O3 4WI . . . C 2 -20.316 -9.203 2.588 1 28.04 ? O3 4WI 401 A 1 HETATM 32 O O4 4WI . . . C 2 -24.032 -9.419 -0.016 1 36.86 ? O4 4WI 401 A 1 HETATM 33 F F1 4WI . . . C 2 -23.652 -6.447 1.415 1 36.83 ? F1 4WI 401 A 1 HETATM 34 F F2 4WI . . . C 2 -23.829 -6.357 -0.629 1 40.38 ? F2 4WI 401 A 1 HETATM 35 F F3 4WI . . . C 2 -25.4 -7.233 0.545 1 44.89 ? F3 4WI 401 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 35 #