data_1HVL # _model_server_result.job_id 6IPQ5UgfcPsku07I02_J-w _model_server_result.datetime_utc '2025-03-05 01:30:25' _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 1hvl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":800}' # _entry.id 1HVL # _exptl.entry_id 1HVL _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-(2R,3R)-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 1HVL _cell.length_a 51.87 _cell.length_b 59.63 _cell.length_c 62.14 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1HVL _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 A76 _chem_comp.mon_nstd_flag . _chem_comp.name N-{1-BENZYL-(2R,3R)-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 A76 doub 1 n n C1 N3 A76 sing 2 n n C1 N21 A76 sing 3 n n N3 C4 A76 sing 4 n n N3 C5 A76 sing 5 n n C4 H12 A76 sing 6 n n C4 H13 A76 sing 7 n n C4 H14 A76 sing 8 n n C5 C6 A76 sing 9 n n C5 H15 A76 sing 10 n n C5 H16 A76 sing 11 n n C6 C7 A76 sing 12 n y C6 N8 A76 doub 13 n y C7 C9 A76 doub 14 n y C7 H17 A76 sing 15 n n N8 C10 A76 sing 16 n y C9 C11 A76 sing 17 n y C9 H18 A76 sing 18 n n C10 C11 A76 doub 19 n y C10 H19 A76 sing 20 n n C11 H20 A76 sing 21 n n N21 C22 A76 sing 22 n n N21 H28 A76 sing 23 n n C22 C23 A76 sing 24 n n C22 C25 A76 sing 25 n n C22 H29 A76 sing 26 n n C23 O24 A76 doub 27 n n C23 N37 A76 sing 28 n n C25 C26 A76 sing 29 n n C25 C27 A76 sing 30 n n C25 H30 A76 sing 31 n n C26 H31 A76 sing 32 n n C26 H32 A76 sing 33 n n C26 H33 A76 sing 34 n n C27 H34 A76 sing 35 n n C27 H35 A76 sing 36 n n C27 H36 A76 sing 37 n n N37 C38 A76 sing 38 n n N37 H59 A76 sing 39 n n C38 C39 A76 sing 40 n n C38 C46 A76 sing 41 n n C38 H60 A76 sing 42 n n C39 C40 A76 sing 43 n n C39 H61 A76 sing 44 n n C39 H62 A76 sing 45 n n C40 C41 A76 doub 46 n y C40 C45 A76 sing 47 n y C41 C42 A76 sing 48 n y C41 H63 A76 sing 49 n n C42 C43 A76 doub 50 n y C42 H64 A76 sing 51 n n C43 C44 A76 sing 52 n y C43 H65 A76 sing 53 n n C44 C45 A76 doub 54 n y C44 H66 A76 sing 55 n n C45 H67 A76 sing 56 n n C46 O47 A76 sing 57 n n C46 C49 A76 sing 58 n n C46 H68 A76 sing 59 n n O47 H69 A76 sing 60 n n O48 C49 A76 sing 61 n n O48 H70 A76 sing 62 n n C49 C51 A76 sing 63 n n C49 H71 A76 sing 64 n n N50 C51 A76 sing 65 n n N50 C83 A76 sing 66 n n N50 H72 A76 sing 67 n n C51 C52 A76 sing 68 n n C51 H73 A76 sing 69 n n C52 C53 A76 sing 70 n n C52 H74 A76 sing 71 n n C52 H75 A76 sing 72 n n C53 C54 A76 doub 73 n y C53 C58 A76 sing 74 n y C54 C55 A76 sing 75 n y C54 H76 A76 sing 76 n n C55 C56 A76 doub 77 n y C55 H77 A76 sing 78 n n C56 C57 A76 sing 79 n y C56 H78 A76 sing 80 n n C57 C58 A76 doub 81 n y C57 H79 A76 sing 82 n n C58 H80 A76 sing 83 n n N81 C82 A76 sing 84 n n N81 C97 A76 sing 85 n n N81 H88 A76 sing 86 n n C82 C83 A76 sing 87 n n C82 C85 A76 sing 88 n n C82 H89 A76 sing 89 n n C83 O84 A76 doub 90 n n C85 C86 A76 sing 91 n n C85 C87 A76 sing 92 n n C85 H90 A76 sing 93 n n C86 H91 A76 sing 94 n n C86 H92 A76 sing 95 n n C86 H93 A76 sing 96 n n C87 H94 A76 sing 97 n n C87 H95 A76 sing 98 n n C87 H96 A76 sing 99 n n C97 O98 A76 doub 100 n n C97 N99 A76 sing 101 n n N99 C2 A76 sing 102 n n N99 C3 A76 sing 103 n n C2 H1 A76 sing 104 n n C2 H10 A76 sing 105 n n C2 H11 A76 sing 106 n n C3 C8 A76 sing 107 n n C3 H2 A76 sing 108 n n C3 H3 A76 sing 109 n n C8 C12 A76 sing 110 n y C8 N10 A76 doub 111 n y C12 C13 A76 doub 112 n y C12 H4 A76 sing 113 n n N10 C14 A76 sing 114 n y C13 C15 A76 sing 115 n y C13 H5 A76 sing 116 n n C14 C15 A76 doub 117 n y C14 H6 A76 sing 118 n n C15 H7 A76 sing 119 n n # _atom_sites.entry_id 1HVL _atom_sites.fract_transf_matrix[1][1] 0.019279 _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] 0.01677 _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] 0.016093 _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 A76 B 1 800 800 A76 A76 . D 3 HOH B 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 A76 . . . C 2 3.375 3.213 10.802 1 22.73 ? C1 A76 800 B 1 HETATM 2 O O2 A76 . . . C 2 3.089 3.915 11.751 1 18.1 ? O2 A76 800 B 1 HETATM 3 N N3 A76 . . . C 2 3.922 3.749 9.7 1 23.95 ? N3 A76 800 B 1 HETATM 4 C C4 A76 . . . C 2 4.273 2.946 8.525 1 23.15 ? C4 A76 800 B 1 HETATM 5 C C5 A76 . . . C 2 4.261 5.173 9.727 1 28.11 ? C5 A76 800 B 1 HETATM 6 C C6 A76 . . . C 2 5.735 5.464 9.915 1 31.31 ? C6 A76 800 B 1 HETATM 7 C C7 A76 . . . C 2 6.514 5.719 8.793 1 32.44 ? C7 A76 800 B 1 HETATM 8 N N8 A76 . . . C 2 6.205 5.548 11.155 1 34.94 ? N8 A76 800 B 1 HETATM 9 C C9 A76 . . . C 2 7.833 6.103 9.005 1 36.67 ? C9 A76 800 B 1 HETATM 10 C C10 A76 . . . C 2 7.461 5.925 11.358 1 34.14 ? C10 A76 800 B 1 HETATM 11 C C11 A76 . . . C 2 8.316 6.223 10.31 1 34.3 ? C11 A76 800 B 1 HETATM 12 N N21 A76 . . . C 2 3.163 1.895 10.804 1 18.61 ? N21 A76 800 B 1 HETATM 13 C C22 A76 . . . C 2 2.734 1.16 12.022 1 20.19 ? C22 A76 800 B 1 HETATM 14 C C23 A76 . . . C 2 3.843 0.172 12.474 1 21.01 ? C23 A76 800 B 1 HETATM 15 O O24 A76 . . . C 2 3.935 -0.949 12.014 1 19.53 ? O24 A76 800 B 1 HETATM 16 C C25 A76 . . . C 2 1.353 0.459 11.805 1 21.05 ? C25 A76 800 B 1 HETATM 17 C C26 A76 . . . C 2 0.259 1.437 11.339 1 22.16 ? C26 A76 800 B 1 HETATM 18 C C27 A76 . . . C 2 0.854 -0.302 13.035 1 18.85 ? C27 A76 800 B 1 HETATM 19 N N37 A76 . . . C 2 4.695 0.64 13.402 1 22.88 ? N37 A76 800 B 1 HETATM 20 C C38 A76 . . . C 2 5.863 -0.078 13.997 1 24.13 ? C38 A76 800 B 1 HETATM 21 C C39 A76 . . . C 2 7.18 0.663 13.741 1 22.89 ? C39 A76 800 B 1 HETATM 22 C C40 A76 . . . C 2 7.477 0.815 12.301 1 24.41 ? C40 A76 800 B 1 HETATM 23 C C41 A76 . . . C 2 7.952 -0.281 11.595 1 23.07 ? C41 A76 800 B 1 HETATM 24 C C42 A76 . . . C 2 8.217 -0.147 10.25 1 24.52 ? C42 A76 800 B 1 HETATM 25 C C43 A76 . . . C 2 8 1.075 9.607 1 25.29 ? C43 A76 800 B 1 HETATM 26 C C44 A76 . . . C 2 7.543 2.168 10.326 1 24.92 ? C44 A76 800 B 1 HETATM 27 C C45 A76 . . . C 2 7.277 2.043 11.678 1 25.2 ? C45 A76 800 B 1 HETATM 28 C C46 A76 . . . C 2 5.769 -0.185 15.504 1 27.34 ? C46 A76 800 B 1 HETATM 29 O O47 A76 . . . C 2 5.757 1.159 15.977 1 34.16 ? O47 A76 800 B 1 HETATM 30 O O48 A76 . . . C 2 4.681 -0.754 17.502 1 29.43 ? O48 A76 800 B 1 HETATM 31 C C49 A76 . . . C 2 4.541 -0.835 16.081 1 28.49 ? C49 A76 800 B 1 HETATM 32 N N50 A76 . . . C 2 5.466 -3.1 16.195 1 25.97 ? N50 A76 800 B 1 HETATM 33 C C51 A76 . . . C 2 4.369 -2.286 15.675 1 25.83 ? C51 A76 800 B 1 HETATM 34 C C52 A76 . . . C 2 3.049 -2.825 16.211 1 26.34 ? C52 A76 800 B 1 HETATM 35 C C53 A76 . . . C 2 2.864 -4.307 15.961 1 28.27 ? C53 A76 800 B 1 HETATM 36 C C54 A76 . . . C 2 2.408 -4.75 14.712 1 29.15 ? C54 A76 800 B 1 HETATM 37 C C55 A76 . . . C 2 2.244 -6.121 14.476 1 28.27 ? C55 A76 800 B 1 HETATM 38 C C56 A76 . . . C 2 2.54 -7.046 15.481 1 26.51 ? C56 A76 800 B 1 HETATM 39 C C57 A76 . . . C 2 2.992 -6.608 16.727 1 25.58 ? C57 A76 800 B 1 HETATM 40 C C58 A76 . . . C 2 3.157 -5.246 16.973 1 29.25 ? C58 A76 800 B 1 HETATM 41 N N81 A76 . . . C 2 6.948 -5.99 16.646 1 23.06 ? N81 A76 800 B 1 HETATM 42 C C82 A76 . . . C 2 7.361 -4.632 16.266 1 21.81 ? C82 A76 800 B 1 HETATM 43 C C83 A76 . . . C 2 6.268 -3.878 15.465 1 22.87 ? C83 A76 800 B 1 HETATM 44 O O84 A76 . . . C 2 6.176 -3.942 14.259 1 21.49 ? O84 A76 800 B 1 HETATM 45 C C85 A76 . . . C 2 8.711 -4.608 15.51 1 19.38 ? C85 A76 800 B 1 HETATM 46 C C86 A76 . . . C 2 9.769 -5.434 16.235 1 23.93 ? C86 A76 800 B 1 HETATM 47 C C87 A76 . . . C 2 9.226 -3.17 15.347 1 20.01 ? C87 A76 800 B 1 HETATM 48 C C97 A76 . . . C 2 6.797 -6.405 17.902 1 27.24 ? C97 A76 800 B 1 HETATM 49 O O98 A76 . . . C 2 7.087 -5.712 18.868 1 25.91 ? O98 A76 800 B 1 HETATM 50 N N99 A76 . . . C 2 6.311 -7.66 18.056 1 28.49 ? N99 A76 800 B 1 HETATM 51 C C2 A76 . . . C 2 5.891 -8.506 16.934 1 24.77 ? C2 A76 800 B 1 HETATM 52 C C3 A76 . . . C 2 6.095 -8.158 19.423 1 30.79 ? C3 A76 800 B 1 HETATM 53 C C8 A76 . . . C 2 4.7 -7.849 19.918 1 33.23 ? C8 A76 800 B 1 HETATM 54 C C12 A76 . . . C 2 3.663 -8.755 19.654 1 33.64 ? C12 A76 800 B 1 HETATM 55 N N10 A76 . . . C 2 4.524 -6.694 20.577 1 36.71 ? N10 A76 800 B 1 HETATM 56 C C13 A76 . . . C 2 2.378 -8.441 20.092 1 32.1 ? C13 A76 800 B 1 HETATM 57 C C14 A76 . . . C 2 3.28 -6.395 20.982 1 36.79 ? C14 A76 800 B 1 HETATM 58 C C15 A76 . . . C 2 2.179 -7.234 20.765 1 33.79 ? C15 A76 800 B 1 HETATM 59 H H12 A76 . . . C 2 3.377 2.557 8.042 1 25 ? H12 A76 800 B 1 HETATM 60 H H13 A76 . . . C 2 4.915 2.108 8.802 1 25 ? H13 A76 800 B 1 HETATM 61 H H14 A76 . . . C 2 4.818 3.538 7.789 1 25 ? H14 A76 800 B 1 HETATM 62 H H15 A76 . . . C 2 3.74 5.705 10.522 1 25 ? H15 A76 800 B 1 HETATM 63 H H16 A76 . . . C 2 3.906 5.637 8.807 1 25 ? H16 A76 800 B 1 HETATM 64 H H17 A76 . . . C 2 6.104 5.602 7.8 1 25 ? H17 A76 800 B 1 HETATM 65 H H18 A76 . . . C 2 8.497 6.302 8.163 1 25 ? H18 A76 800 B 1 HETATM 66 H H19 A76 . . . C 2 7.837 5.992 12.374 1 25 ? H19 A76 800 B 1 HETATM 67 H H20 A76 . . . C 2 9.339 6.516 10.51 1 25 ? H20 A76 800 B 1 HETATM 68 H H28 A76 . . . C 2 3.339 1.41 9.945 1 25 ? H28 A76 800 B 1 HETATM 69 H H29 A76 . . . C 2 2.598 1.861 12.845 1 25 ? H29 A76 800 B 1 HETATM 70 H H30 A76 . . . C 2 1.491 -0.267 11.001 1 25 ? H30 A76 800 B 1 HETATM 71 H H31 A76 . . . C 2 -0.675 0.909 11.146 1 25 ? H31 A76 800 B 1 HETATM 72 H H32 A76 . . . C 2 0.547 1.943 10.415 1 25 ? H32 A76 800 B 1 HETATM 73 H H33 A76 . . . C 2 0.069 2.201 12.097 1 25 ? H33 A76 800 B 1 HETATM 74 H H34 A76 . . . C 2 0.634 0.385 13.853 1 25 ? H34 A76 800 B 1 HETATM 75 H H35 A76 . . . C 2 1.584 -1.028 13.396 1 25 ? H35 A76 800 B 1 HETATM 76 H H36 A76 . . . C 2 -0.065 -0.846 12.808 1 25 ? H36 A76 800 B 1 HETATM 77 H H59 A76 . . . C 2 4.58 1.605 13.616 1 25 ? H59 A76 800 B 1 HETATM 78 H H60 A76 . . . C 2 5.94 -1.071 13.549 1 25 ? H60 A76 800 B 1 HETATM 79 H H61 A76 . . . C 2 8.009 0.124 14.209 1 25 ? H61 A76 800 B 1 HETATM 80 H H62 A76 . . . C 2 7.236 1.656 14.187 1 25 ? H62 A76 800 B 1 HETATM 81 H H63 A76 . . . C 2 8.104 -1.221 12.11 1 25 ? H63 A76 800 B 1 HETATM 82 H H64 A76 . . . C 2 8.588 -0.992 9.687 1 25 ? H64 A76 800 B 1 HETATM 83 H H65 A76 . . . C 2 8.19 1.169 8.547 1 25 ? H65 A76 800 B 1 HETATM 84 H H66 A76 . . . C 2 7.387 3.113 9.83 1 25 ? H66 A76 800 B 1 HETATM 85 H H67 A76 . . . C 2 6.905 2.889 12.247 1 25 ? H67 A76 800 B 1 HETATM 86 H H68 A76 . . . C 2 6.658 -0.703 15.876 1 25 ? H68 A76 800 B 1 HETATM 87 H H69 A76 . . . C 2 5.224 1.633 15.343 1 25 ? H69 A76 800 B 1 HETATM 88 H H70 A76 . . . C 2 5.273 -1.475 17.717 1 25 ? H70 A76 800 B 1 HETATM 89 H H88 A76 . . . C 2 6.744 -6.666 15.941 1 25 ? H88 A76 800 B 1 HETATM 90 H H89 A76 . . . C 2 7.513 -4.048 17.176 1 25 ? H89 A76 800 B 1 HETATM 91 H H90 A76 . . . C 2 8.565 -5.041 14.519 1 25 ? H90 A76 800 B 1 HETATM 92 H H91 A76 . . . C 2 9.483 -6.487 16.295 1 25 ? H91 A76 800 B 1 HETATM 93 H H92 A76 . . . C 2 9.927 -5.068 17.252 1 25 ? H92 A76 800 B 1 HETATM 94 H H93 A76 . . . C 2 10.722 -5.388 15.707 1 25 ? H93 A76 800 B 1 HETATM 95 H H94 A76 . . . C 2 10.154 -3.162 14.772 1 25 ? H94 A76 800 B 1 HETATM 96 H H95 A76 . . . C 2 9.436 -2.719 16.319 1 25 ? H95 A76 800 B 1 HETATM 97 H H96 A76 . . . C 2 8.51 -2.527 14.832 1 25 ? H96 A76 800 B 1 HETATM 98 H H1 A76 . . . C 2 6.758 -8.809 16.349 1 25 ? H1 A76 800 B 1 HETATM 99 H H10 A76 . . . C 2 5.203 -7.981 16.276 1 25 ? H10 A76 800 B 1 HETATM 100 H H11 A76 . . . C 2 5.392 -9.411 17.284 1 25 ? H11 A76 800 B 1 HETATM 101 H H2 A76 . . . C 2 6.27 -9.235 19.458 1 25 ? H2 A76 800 B 1 HETATM 102 H H3 A76 . . . C 2 6.808 -7.721 20.122 1 25 ? H3 A76 800 B 1 HETATM 103 H H4 A76 . . . C 2 3.859 -9.659 19.095 1 25 ? H4 A76 800 B 1 HETATM 104 H H5 A76 . . . C 2 1.537 -9.105 19.894 1 25 ? H5 A76 800 B 1 HETATM 105 H H6 A76 . . . C 2 3.119 -5.449 21.488 1 25 ? H6 A76 800 B 1 HETATM 106 H H7 A76 . . . C 2 1.193 -6.941 21.108 1 25 ? H7 A76 800 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 256 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 106 #