data_1HVK # _model_server_result.job_id z4l_zpgQPLPGjW9PU48Mqw _model_server_result.datetime_utc '2025-03-05 01:13:27' _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 1hvk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":800}' # _entry.id 1HVK # _exptl.entry_id 1HVK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 794.981 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-{1-BENZYL-(2S,3S)-2,3-DIHYDROXY-4-[3-METHYL-2-(3-METHYL-3-PYRIDIN-2-YLMETHYL-UREIDO)-BUTYRYLAMINO]-5-PHENYL-PENTYL}-3-METHYL-2-(3-METHYL-3-PYRIDIN-2-YLMETHYL-UREIDO)-BUTYRAMIDE _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 1HVK _cell.length_a 51.85 _cell.length_b 59.53 _cell.length_c 62.2 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1HVK _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 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 _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 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C44 H58 N8 O6' _chem_comp.formula_weight 794.981 _chem_comp.id A79 _chem_comp.mon_nstd_flag . _chem_comp.name N-{1-BENZYL-(2S,3S)-2,3-DIHYDROXY-4-[3-METHYL-2-(3-METHYL-3-PYRIDIN-2-YLMETHYL-UREIDO)-BUTYRYLAMINO]-5-PHENYL-PENTYL}-3-METHYL-2-(3-METHYL-3-PYRIDIN-2-YLMETHYL-UREIDO)-BUTYRAMIDE _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 C1 O2 A79 doub 1 n n C1 N3 A79 sing 2 n n C1 N21 A79 sing 3 n n N3 C4 A79 sing 4 n n N3 C5 A79 sing 5 n n C4 H12 A79 sing 6 n n C4 H13 A79 sing 7 n n C4 H14 A79 sing 8 n n C5 C6 A79 sing 9 n n C5 H15 A79 sing 10 n n C5 H16 A79 sing 11 n n C6 C7 A79 sing 12 n y C6 N8 A79 doub 13 n y C7 C9 A79 doub 14 n y C7 H17 A79 sing 15 n n N8 C10 A79 sing 16 n y C9 C11 A79 sing 17 n y C9 H18 A79 sing 18 n n C10 C11 A79 doub 19 n y C10 H19 A79 sing 20 n n C11 H20 A79 sing 21 n n N21 C22 A79 sing 22 n n N21 H28 A79 sing 23 n n C22 C23 A79 sing 24 n n C22 C25 A79 sing 25 n n C22 H29 A79 sing 26 n n C23 O24 A79 doub 27 n n C23 N37 A79 sing 28 n n C25 C26 A79 sing 29 n n C25 C27 A79 sing 30 n n C25 H30 A79 sing 31 n n C26 H31 A79 sing 32 n n C26 H32 A79 sing 33 n n C26 H33 A79 sing 34 n n C27 H34 A79 sing 35 n n C27 H35 A79 sing 36 n n C27 H36 A79 sing 37 n n N37 C38 A79 sing 38 n n N37 H59 A79 sing 39 n n C38 C39 A79 sing 40 n n C38 C46 A79 sing 41 n n C38 H60 A79 sing 42 n n C39 C40 A79 sing 43 n n C39 H61 A79 sing 44 n n C39 H62 A79 sing 45 n n C40 C41 A79 doub 46 n y C40 C45 A79 sing 47 n y C41 C42 A79 sing 48 n y C41 H63 A79 sing 49 n n C42 C43 A79 doub 50 n y C42 H64 A79 sing 51 n n C43 C44 A79 sing 52 n y C43 H65 A79 sing 53 n n C44 C45 A79 doub 54 n y C44 H66 A79 sing 55 n n C45 H67 A79 sing 56 n n C46 O47 A79 sing 57 n n C46 C49 A79 sing 58 n n C46 H68 A79 sing 59 n n O47 H69 A79 sing 60 n n O48 C49 A79 sing 61 n n O48 H70 A79 sing 62 n n C49 C51 A79 sing 63 n n C49 H71 A79 sing 64 n n N50 C51 A79 sing 65 n n N50 C83 A79 sing 66 n n N50 H72 A79 sing 67 n n C51 C52 A79 sing 68 n n C51 H73 A79 sing 69 n n C52 C53 A79 sing 70 n n C52 H74 A79 sing 71 n n C52 H75 A79 sing 72 n n C53 C54 A79 doub 73 n y C53 C58 A79 sing 74 n y C54 C55 A79 sing 75 n y C54 H76 A79 sing 76 n n C55 C56 A79 doub 77 n y C55 H77 A79 sing 78 n n C56 C57 A79 sing 79 n y C56 H78 A79 sing 80 n n C57 C58 A79 doub 81 n y C57 H79 A79 sing 82 n n C58 H80 A79 sing 83 n n N81 C82 A79 sing 84 n n N81 C97 A79 sing 85 n n N81 H88 A79 sing 86 n n C82 C83 A79 sing 87 n n C82 C85 A79 sing 88 n n C82 H89 A79 sing 89 n n C83 O84 A79 doub 90 n n C85 C86 A79 sing 91 n n C85 C87 A79 sing 92 n n C85 H90 A79 sing 93 n n C86 H91 A79 sing 94 n n C86 H92 A79 sing 95 n n C86 H93 A79 sing 96 n n C87 H94 A79 sing 97 n n C87 H95 A79 sing 98 n n C87 H96 A79 sing 99 n n C97 O98 A79 doub 100 n n C97 N99 A79 sing 101 n n N99 C2 A79 sing 102 n n N99 C3 A79 sing 103 n n C2 H1 A79 sing 104 n n C2 H10 A79 sing 105 n n C2 H11 A79 sing 106 n n C3 C8 A79 sing 107 n n C3 H2 A79 sing 108 n n C3 H3 A79 sing 109 n n C8 C12 A79 sing 110 n y C8 N10 A79 doub 111 n y C12 C13 A79 doub 112 n y C12 H4 A79 sing 113 n n N10 C14 A79 sing 114 n y C13 C15 A79 sing 115 n y C13 H5 A79 sing 116 n n C14 C15 A79 doub 117 n y C14 H6 A79 sing 118 n n C15 H7 A79 sing 119 n n # _atom_sites.entry_id 1HVK _atom_sites.fract_transf_matrix[1][1] 0.019286 _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] 0.016798 _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] 0.016077 _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 A79 A 1 800 800 A79 A79 . D 3 HOH A 1 415 415 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 C1 A79 . . . C 2 3.442 3.364 10.664 1 22.17 ? C1 A79 800 A 1 HETATM 2 O O2 A79 . . . C 2 3.103 4.065 11.606 1 19.96 ? O2 A79 800 A 1 HETATM 3 N N3 A79 . . . C 2 4.108 3.876 9.623 1 22.19 ? N3 A79 800 A 1 HETATM 4 C C4 A79 . . . C 2 4.659 3.034 8.566 1 20.7 ? C4 A79 800 A 1 HETATM 5 C C5 A79 . . . C 2 4.376 5.322 9.613 1 24.4 ? C5 A79 800 A 1 HETATM 6 C C6 A79 . . . C 2 5.786 5.69 9.997 1 23.55 ? C6 A79 800 A 1 HETATM 7 C C7 A79 . . . C 2 6.687 6.018 8.994 1 22.08 ? C7 A79 800 A 1 HETATM 8 N N8 A79 . . . C 2 6.094 5.711 11.294 1 28.39 ? N8 A79 800 A 1 HETATM 9 C C9 A79 . . . C 2 7.961 6.391 9.394 1 22.71 ? C9 A79 800 A 1 HETATM 10 C C10 A79 . . . C 2 7.314 6.07 11.663 1 26 ? C10 A79 800 A 1 HETATM 11 C C11 A79 . . . C 2 8.287 6.42 10.747 1 26.61 ? C11 A79 800 A 1 HETATM 12 N N21 A79 . . . C 2 3.157 2.063 10.623 1 22.06 ? N21 A79 800 A 1 HETATM 13 C C22 A79 . . . C 2 2.538 1.381 11.776 1 21.31 ? C22 A79 800 A 1 HETATM 14 C C23 A79 . . . C 2 3.55 0.442 12.421 1 21.28 ? C23 A79 800 A 1 HETATM 15 O O24 A79 . . . C 2 3.683 -0.723 12.084 1 20.68 ? O24 A79 800 A 1 HETATM 16 C C25 A79 . . . C 2 1.189 0.675 11.432 1 21 ? C25 A79 800 A 1 HETATM 17 C C26 A79 . . . C 2 0.19 1.61 10.709 1 21.02 ? C26 A79 800 A 1 HETATM 18 C C27 A79 . . . C 2 0.529 0.077 12.675 1 19.98 ? C27 A79 800 A 1 HETATM 19 N N37 A79 . . . C 2 4.287 1.003 13.374 1 18.37 ? N37 A79 800 A 1 HETATM 20 C C38 A79 . . . C 2 5.247 0.231 14.198 1 18.15 ? C38 A79 800 A 1 HETATM 21 C C39 A79 . . . C 2 6.659 0.814 14.11 1 18.15 ? C39 A79 800 A 1 HETATM 22 C C40 A79 . . . C 2 7.175 0.951 12.706 1 21.69 ? C40 A79 800 A 1 HETATM 23 C C41 A79 . . . C 2 7.699 -0.17 12.045 1 21.02 ? C41 A79 800 A 1 HETATM 24 C C42 A79 . . . C 2 8.181 -0.036 10.738 1 21.67 ? C42 A79 800 A 1 HETATM 25 C C43 A79 . . . C 2 8.125 1.207 10.094 1 20.83 ? C43 A79 800 A 1 HETATM 26 C C44 A79 . . . C 2 7.602 2.323 10.753 1 19.65 ? C44 A79 800 A 1 HETATM 27 C C45 A79 . . . C 2 7.127 2.198 12.064 1 20.8 ? C45 A79 800 A 1 HETATM 28 C C46 A79 . . . C 2 4.704 0.106 15.647 1 18.82 ? C46 A79 800 A 1 HETATM 29 O O47 A79 . . . C 2 4.772 1.393 16.223 1 18.89 ? O47 A79 800 A 1 HETATM 30 O O48 A79 . . . C 2 5.245 -0.8 17.86 1 18.42 ? O48 A79 800 A 1 HETATM 31 C C49 A79 . . . C 2 5.411 -0.969 16.471 1 18.78 ? C49 A79 800 A 1 HETATM 32 N N50 A79 . . . C 2 5.848 -3.362 16.546 1 18.67 ? N50 A79 800 A 1 HETATM 33 C C51 A79 . . . C 2 4.884 -2.366 16.108 1 18.91 ? C51 A79 800 A 1 HETATM 34 C C52 A79 . . . C 2 3.49 -2.702 16.659 1 17.28 ? C52 A79 800 A 1 HETATM 35 C C53 A79 . . . C 2 3.097 -4.124 16.349 1 20.35 ? C53 A79 800 A 1 HETATM 36 C C54 A79 . . . C 2 2.555 -4.439 15.098 1 21.04 ? C54 A79 800 A 1 HETATM 37 C C55 A79 . . . C 2 2.268 -5.777 14.777 1 21.88 ? C55 A79 800 A 1 HETATM 38 C C56 A79 . . . C 2 2.524 -6.794 15.704 1 18.79 ? C56 A79 800 A 1 HETATM 39 C C57 A79 . . . C 2 3.048 -6.483 16.961 1 21.51 ? C57 A79 800 A 1 HETATM 40 C C58 A79 . . . C 2 3.332 -5.153 17.293 1 21.07 ? C58 A79 800 A 1 HETATM 41 N N81 A79 . . . C 2 7.096 -6.218 16.845 1 21 ? N81 A79 800 A 1 HETATM 42 C C82 A79 . . . C 2 7.637 -4.915 16.465 1 20.31 ? C82 A79 800 A 1 HETATM 43 C C83 A79 . . . C 2 6.629 -4.056 15.726 1 20.45 ? C83 A79 800 A 1 HETATM 44 O O84 A79 . . . C 2 6.558 -3.989 14.512 1 17.93 ? O84 A79 800 A 1 HETATM 45 C C85 A79 . . . C 2 8.96 -5.019 15.71 1 19.89 ? C85 A79 800 A 1 HETATM 46 C C86 A79 . . . C 2 9.927 -5.868 16.551 1 22.27 ? C86 A79 800 A 1 HETATM 47 C C87 A79 . . . C 2 9.556 -3.628 15.447 1 19.12 ? C87 A79 800 A 1 HETATM 48 C C97 A79 . . . C 2 6.898 -6.625 18.101 1 22.8 ? C97 A79 800 A 1 HETATM 49 O O98 A79 . . . C 2 7.217 -5.932 19.059 1 25.02 ? O98 A79 800 A 1 HETATM 50 N N99 A79 . . . C 2 6.322 -7.851 18.248 1 23.63 ? N99 A79 800 A 1 HETATM 51 C C2 A79 . . . C 2 5.868 -8.636 17.097 1 22.18 ? C2 A79 800 A 1 HETATM 52 C C3 A79 . . . C 2 6.017 -8.388 19.577 1 22.17 ? C3 A79 800 A 1 HETATM 53 C C8 A79 . . . C 2 4.653 -7.953 20.075 1 20.6 ? C8 A79 800 A 1 HETATM 54 C C12 A79 . . . C 2 3.55 -8.805 19.928 1 20.53 ? C12 A79 800 A 1 HETATM 55 N N10 A79 . . . C 2 4.573 -6.742 20.648 1 22.92 ? N10 A79 800 A 1 HETATM 56 C C13 A79 . . . C 2 2.301 -8.377 20.393 1 19.71 ? C13 A79 800 A 1 HETATM 57 C C14 A79 . . . C 2 3.366 -6.345 21.09 1 22.94 ? C14 A79 800 A 1 HETATM 58 C C15 A79 . . . C 2 2.207 -7.125 20.99 1 22.04 ? C15 A79 800 A 1 HETATM 59 H H12 A79 . . . C 2 3.865 2.653 7.925 1 25 ? H12 A79 800 A 1 HETATM 60 H H13 A79 . . . C 2 5.22 2.196 8.982 1 25 ? H13 A79 800 A 1 HETATM 61 H H14 A79 . . . C 2 5.35 3.601 7.939 1 25 ? H14 A79 800 A 1 HETATM 62 H H15 A79 . . . C 2 3.715 5.854 10.298 1 25 ? H15 A79 800 A 1 HETATM 63 H H16 A79 . . . C 2 4.133 5.722 8.629 1 25 ? H16 A79 800 A 1 HETATM 64 H H17 A79 . . . C 2 6.399 5.964 7.957 1 25 ? H17 A79 800 A 1 HETATM 65 H H18 A79 . . . C 2 8.718 6.641 8.654 1 25 ? H18 A79 800 A 1 HETATM 66 H H19 A79 . . . C 2 7.576 6.088 12.717 1 25 ? H19 A79 800 A 1 HETATM 67 H H20 A79 . . . C 2 9.275 6.685 11.092 1 25 ? H20 A79 800 A 1 HETATM 68 H H28 A79 . . . C 2 3.395 1.57 9.782 1 25 ? H28 A79 800 A 1 HETATM 69 H H29 A79 . . . C 2 2.279 2.112 12.541 1 25 ? H29 A79 800 A 1 HETATM 70 H H30 A79 . . . C 2 1.411 -0.145 10.747 1 25 ? H30 A79 800 A 1 HETATM 71 H H31 A79 . . . C 2 -0.751 1.099 10.514 1 25 ? H31 A79 800 A 1 HETATM 72 H H32 A79 . . . C 2 0.593 1.941 9.75 1 25 ? H32 A79 800 A 1 HETATM 73 H H33 A79 . . . C 2 -0.025 2.494 11.312 1 25 ? H33 A79 800 A 1 HETATM 74 H H34 A79 . . . C 2 0.219 0.853 13.376 1 25 ? H34 A79 800 A 1 HETATM 75 H H35 A79 . . . C 2 1.195 -0.605 13.206 1 25 ? H35 A79 800 A 1 HETATM 76 H H36 A79 . . . C 2 -0.359 -0.493 12.401 1 25 ? H36 A79 800 A 1 HETATM 77 H H59 A79 . . . C 2 4.18 1.989 13.491 1 25 ? H59 A79 800 A 1 HETATM 78 H H60 A79 . . . C 2 5.321 -0.781 13.796 1 25 ? H60 A79 800 A 1 HETATM 79 H H61 A79 . . . C 2 7.356 0.186 14.668 1 25 ? H61 A79 800 A 1 HETATM 80 H H62 A79 . . . C 2 6.718 1.788 14.596 1 25 ? H62 A79 800 A 1 HETATM 81 H H63 A79 . . . C 2 7.726 -1.128 12.553 1 25 ? H63 A79 800 A 1 HETATM 82 H H64 A79 . . . C 2 8.594 -0.882 10.213 1 25 ? H64 A79 800 A 1 HETATM 83 H H65 A79 . . . C 2 8.479 1.322 9.079 1 25 ? H65 A79 800 A 1 HETATM 84 H H66 A79 . . . C 2 7.564 3.269 10.24 1 25 ? H66 A79 800 A 1 HETATM 85 H H67 A79 . . . C 2 6.711 3.06 12.576 1 25 ? H67 A79 800 A 1 HETATM 86 H H68 A79 . . . C 2 3.636 -0.107 15.62 1 25 ? H68 A79 800 A 1 HETATM 87 H H69 A79 . . . C 2 5.176 1.925 15.527 1 25 ? H69 A79 800 A 1 HETATM 88 H H70 A79 . . . C 2 4.812 -1.616 18.129 1 25 ? H70 A79 800 A 1 HETATM 89 H H88 A79 . . . C 2 6.852 -6.872 16.128 1 25 ? H88 A79 800 A 1 HETATM 90 H H89 A79 . . . C 2 7.865 -4.359 17.377 1 25 ? H89 A79 800 A 1 HETATM 91 H H90 A79 . . . C 2 8.795 -5.513 14.75 1 25 ? H90 A79 800 A 1 HETATM 92 H H91 A79 . . . C 2 9.626 -6.917 16.567 1 25 ? H91 A79 800 A 1 HETATM 93 H H92 A79 . . . C 2 9.966 -5.512 17.583 1 25 ? H92 A79 800 A 1 HETATM 94 H H93 A79 . . . C 2 10.942 -5.815 16.163 1 25 ? H93 A79 800 A 1 HETATM 95 H H94 A79 . . . C 2 10.492 -3.708 14.896 1 25 ? H94 A79 800 A 1 HETATM 96 H H95 A79 . . . C 2 9.768 -3.109 16.384 1 25 ? H95 A79 800 A 1 HETATM 97 H H96 A79 . . . C 2 8.891 -2.992 14.862 1 25 ? H96 A79 800 A 1 HETATM 98 H H1 A79 . . . C 2 6.723 -8.986 16.517 1 25 ? H1 A79 800 A 1 HETATM 99 H H10 A79 . . . C 2 5.232 -8.042 16.441 1 25 ? H10 A79 800 A 1 HETATM 100 H H11 A79 . . . C 2 5.289 -9.509 17.406 1 25 ? H11 A79 800 A 1 HETATM 101 H H2 A79 . . . C 2 6.078 -9.48 19.555 1 25 ? H2 A79 800 A 1 HETATM 102 H H3 A79 . . . C 2 6.768 -8.063 20.294 1 25 ? H3 A79 800 A 1 HETATM 103 H H4 A79 . . . C 2 3.657 -9.753 19.425 1 25 ? H4 A79 800 A 1 HETATM 104 H H5 A79 . . . C 2 1.412 -8.991 20.272 1 25 ? H5 A79 800 A 1 HETATM 105 H H6 A79 . . . C 2 3.283 -5.362 21.544 1 25 ? H6 A79 800 A 1 HETATM 106 H H7 A79 . . . C 2 1.261 -6.752 21.361 1 25 ? H7 A79 800 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 335 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 106 #