data_3LIX # _model_server_result.job_id IQm2F67D44bfmDjwJXj3zA _model_server_result.datetime_utc '2024-11-17 00:25:32' _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 3lix # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":117}' # _entry.id 3LIX # _exptl.entry_id 3LIX _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 795.043 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-{(1S,2S)-1-benzyl-3-[(4R)-5,5-dimethyl-4-{[(1R)-1,2,2-trimethylpropyl]carbamoyl}-1,3-thiazolidin-3-yl]-2-hydroxy-3-oxopropyl}-3-methyl-N~2~-{(2S)-2-[(morpholin-4-ylacetyl)amino]-2-phenylacetyl}-L-valinamide _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 120 _cell.entry_id 3LIX _cell.length_a 77.376 _cell.length_b 77.376 _cell.length_c 159.327 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3LIX _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 63 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dodecameric 12 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F 1 1 A,B,C,D,E,F 2 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 77.376 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 38.688 67.009582 0 4 'crystal symmetry operation' 10_665 -y+1,-x+1,-z+1/2 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 38.688 67.009582 79.6635 5 'crystal symmetry operation' 11_655 -x+y+1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 77.376 0 79.6635 6 'crystal symmetry operation' 12_555 x,x-y,-z+1/2 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 79.6635 # _struct_asym.details ? _struct_asym.entity_id 3 _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 metalc ? metalc1 A OD2 ASP 65 A ASP 65 1_555 C ZN ZN . A ZN 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.096 ? metalc ? metalc2 A OD1 ASP 65 A ASP 65 1_555 C ZN ZN . A ZN 117 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.645 ? # _chem_comp.formula 'C42 H62 N6 O7 S' _chem_comp.formula_weight 795.043 _chem_comp.id E17 _chem_comp.mon_nstd_flag . _chem_comp.name N-{(1S,2S)-1-benzyl-3-[(4R)-5,5-dimethyl-4-{[(1R)-1,2,2-trimethylpropyl]carbamoyl}-1,3-thiazolidin-3-yl]-2-hydroxy-3-oxopropyl}-3-methyl-N~2~-{(2S)-2-[(morpholin-4-ylacetyl)amino]-2-phenylacetyl}-L-valinamide _chem_comp.type peptide-like _chem_comp.pdbx_synonyms KNI-10729 # 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 CB1 CB0 E17 sing 83 n n CB1 OA1 E17 doub 84 n n CB0 NB1 E17 sing 85 n n NB1 CA2 E17 sing 86 n n OA4 CA3 E17 sing 87 n n CA2 CA3 E17 sing 88 n n CA6 NB1 E17 sing 89 n n CA6 CA5 E17 sing 90 n n CA5 OA4 E17 sing 91 n n CB0 HB0 E17 sing 92 n n CB0 HB0A E17 sing 93 n n CA2 HA2 E17 sing 94 n n CA2 HA2A E17 sing 95 n n CA6 HA6 E17 sing 96 n n CA6 HA6A E17 sing 97 n n CA3 HA3 E17 sing 98 n n CA3 HA3A E17 sing 99 n n CA5 HA5 E17 sing 100 n n CA5 HA5A E17 sing 101 n n CBF OAK E17 doub 102 n n NAJ HNAJ E17 sing 103 n n CBM CBF E17 sing 104 n n CBM NAJ E17 sing 105 n n CBM CBK E17 sing 106 n n CBM HBM E17 sing 107 n n CBK CAX E17 sing 108 n y CAQ CAT E17 sing 109 n y CAQ HAQ E17 sing 110 n n CAT HAT E17 sing 111 n n CAU CAQ E17 doub 112 n y CAU HAU E17 sing 113 n n CAX CAT E17 doub 114 n y CAX HAX E17 sing 115 n n CAY CBK E17 doub 116 n y CAY CAU E17 sing 117 n y CAY HAY E17 sing 118 n n N CA E17 sing 119 n n N HN E17 sing 120 n n CA CB E17 sing 121 n n CA C E17 sing 122 n n CA HA E17 sing 123 n n CB CAG E17 sing 124 n n CB CG1 E17 sing 125 n n CB CG2 E17 sing 126 n n CAG HAG E17 sing 127 n n CAG HAGA E17 sing 128 n n CAG HAGB E17 sing 129 n n CG1 HG1 E17 sing 130 n n CG1 HG1A E17 sing 131 n n CG1 HG1B E17 sing 132 n n CG2 HG2 E17 sing 133 n n CG2 HG2A E17 sing 134 n n CG2 HG2B E17 sing 135 n n C O E17 doub 136 n n CBI CBN E17 sing 137 n n CBI OAN E17 doub 138 n n NBC CBO E17 sing 139 n n NBC HNBC E17 sing 140 n n CBN OAO E17 sing 141 n n CBN HBN E17 sing 142 n n CBJ CBA E17 sing 143 n n CBA HBA E17 sing 144 n n CBA HBAA E17 sing 145 n n CAP CAR E17 doub 146 n y CAP CAS E17 sing 147 n y CAP HAP E17 sing 148 n n CBO CBN E17 sing 149 n n CBO CBA E17 sing 150 n n CBO HBO E17 sing 151 n n OAO HOAO E17 sing 152 n n CAV CBJ E17 doub 153 n y CAV HAV E17 sing 154 n n CAW CBJ E17 sing 155 n y CAW HAW E17 sing 156 n n CAR CAV E17 sing 157 n y CAR HAR E17 sing 158 n n CAS CAW E17 doub 159 n y CAS HAS E17 sing 160 n n CBH CBQ E17 sing 161 n n OAM CBH E17 doub 162 n n CBQ NBR E17 sing 163 n n CBQ HBQ E17 sing 164 n n CBU CBQ E17 sing 165 n n CBU CAI E17 sing 166 n n CAZ NBR E17 sing 167 n n CAZ HAZ E17 sing 168 n n CAZ HAZA E17 sing 169 n n CAH CBU E17 sing 170 n n CAH HAH E17 sing 171 n n CAH HAHA E17 sing 172 n n CAH HAHB E17 sing 173 n n CAI HAI E17 sing 174 n n CAI HAIA E17 sing 175 n n CAI HAIB E17 sing 176 n n SBE CBU E17 sing 177 n n SBE CAZ E17 sing 178 n n NBB CBL E17 sing 179 n n NBB HNBB E17 sing 180 n n CBS CBL E17 sing 181 n n CBL CAA E17 sing 182 n n CBL HBL E17 sing 183 n n CAC CBS E17 sing 184 n n CAB CBS E17 sing 185 n n CBS CAD E17 sing 186 n n CAA HAA E17 sing 187 n n CAA HAAA E17 sing 188 n n CAA HAAB E17 sing 189 n n CAB HAB E17 sing 190 n n CAB HABA E17 sing 191 n n CAB HABB E17 sing 192 n n CAC HAC E17 sing 193 n n CAC HACA E17 sing 194 n n CAC HACB E17 sing 195 n n CAD HAD E17 sing 196 n n CAD HADA E17 sing 197 n n CAD HADB E17 sing 198 n n CB1 NAJ E17 sing 199 n n CBF N E17 sing 200 n n C NBC E17 sing 201 n n CBI NBR E17 sing 202 n n CBH NBB E17 sing 203 n n # _atom_sites.entry_id 3LIX _atom_sites.fract_transf_matrix[1][1] 0.012924 _atom_sites.fract_transf_matrix[1][2] 0.007462 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014923 _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] 0.006276 _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 ZN A 1 117 1 ZN ZN . D 3 E17 B 1 117 1 E17 DRG . E 4 HOH A 1 118 1 HOH HOH . E 4 HOH A 2 119 2 HOH HOH . E 4 HOH A 3 120 3 HOH HOH . E 4 HOH A 4 121 8 HOH HOH . E 4 HOH A 5 122 11 HOH HOH . E 4 HOH A 6 123 12 HOH HOH . E 4 HOH A 7 124 13 HOH HOH . E 4 HOH A 8 125 14 HOH HOH . E 4 HOH A 9 126 18 HOH HOH . E 4 HOH A 10 127 20 HOH HOH . E 4 HOH A 11 128 21 HOH HOH . E 4 HOH A 12 129 23 HOH HOH . E 4 HOH A 13 130 24 HOH HOH . E 4 HOH A 14 131 25 HOH HOH . E 4 HOH A 15 132 28 HOH HOH . E 4 HOH A 16 133 30 HOH HOH . E 4 HOH A 17 134 32 HOH HOH . E 4 HOH A 18 135 33 HOH HOH . E 4 HOH A 19 136 34 HOH HOH . E 4 HOH A 20 138 44 HOH HOH . E 4 HOH A 21 139 48 HOH HOH . E 4 HOH A 22 140 52 HOH HOH . E 4 HOH A 23 141 53 HOH HOH . E 4 HOH A 24 142 58 HOH HOH . E 4 HOH A 25 143 59 HOH HOH . E 4 HOH A 26 144 60 HOH HOH . E 4 HOH A 27 145 62 HOH HOH . F 4 HOH B 1 118 6 HOH HOH . F 4 HOH B 2 119 9 HOH HOH . F 4 HOH B 3 120 10 HOH HOH . F 4 HOH B 4 121 15 HOH HOH . F 4 HOH B 5 122 16 HOH HOH . F 4 HOH B 6 123 17 HOH HOH . F 4 HOH B 7 124 19 HOH HOH . F 4 HOH B 8 125 22 HOH HOH . F 4 HOH B 9 126 26 HOH HOH . F 4 HOH B 10 127 27 HOH HOH . F 4 HOH B 11 128 29 HOH HOH . F 4 HOH B 12 129 36 HOH HOH . F 4 HOH B 13 130 38 HOH HOH . F 4 HOH B 14 131 39 HOH HOH . F 4 HOH B 15 132 40 HOH HOH . F 4 HOH B 16 133 42 HOH HOH . F 4 HOH B 17 134 43 HOH HOH . F 4 HOH B 18 135 45 HOH HOH . F 4 HOH B 19 136 46 HOH HOH . F 4 HOH B 20 137 37 HOH HOH . F 4 HOH B 21 138 50 HOH HOH . F 4 HOH B 22 139 51 HOH HOH . F 4 HOH B 23 140 54 HOH HOH . F 4 HOH B 24 141 55 HOH HOH . F 4 HOH B 25 142 56 HOH HOH . F 4 HOH B 26 143 57 HOH HOH . F 4 HOH B 27 144 61 HOH HOH . F 4 HOH B 28 145 47 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 CB1 E17 . . . D 3 25.692 27.292 28.552 1 82.34 ? CB1 E17 117 B 1 HETATM 2 O OA1 E17 . . . D 3 24.979 27.855 29.664 1 88.79 ? OA1 E17 117 B 1 HETATM 3 C CB0 E17 . . . D 3 26.453 26.104 29.153 1 86.05 ? CB0 E17 117 B 1 HETATM 4 N NB1 E17 . . . D 3 27.755 26.65 29.782 1 88.91 ? NB1 E17 117 B 1 HETATM 5 O OA4 E17 . . . D 3 28.884 29.358 30.505 1 90.02 ? OA4 E17 117 B 1 HETATM 6 C CA2 E17 . . . D 3 28.49 27.543 28.749 1 90.27 ? CA2 E17 117 B 1 HETATM 7 C CA6 E17 . . . D 3 27.46 27.348 31.124 1 87.2 ? CA6 E17 117 B 1 HETATM 8 C CA3 E17 . . . D 3 29.416 28.661 29.252 1 90.4 ? CA3 E17 117 B 1 HETATM 9 C CA5 E17 . . . D 3 28.539 28.334 31.587 1 89.93 ? CA5 E17 117 B 1 HETATM 10 C CBF E17 . . . D 3 23.634 29.273 26.035 1 45.4 ? CBF E17 117 B 1 HETATM 11 N NAJ E17 . . . D 3 25.562 27.967 27.231 1 72.08 ? NAJ E17 117 B 1 HETATM 12 O OAK E17 . . . D 3 23.76 28.945 24.896 1 32.56 ? OAK E17 117 B 1 HETATM 13 C CBM E17 . . . D 3 24.735 29.194 27.111 1 57.12 ? CBM E17 117 B 1 HETATM 14 C CBK E17 . . . D 3 25.686 30.389 26.817 1 50.92 ? CBK E17 117 B 1 HETATM 15 C CAQ E17 . . . D 3 27.557 32.791 26.261 1 53.85 ? CAQ E17 117 B 1 HETATM 16 C CAT E17 . . . D 3 26.48 32.389 25.219 1 52.74 ? CAT E17 117 B 1 HETATM 17 C CAU E17 . . . D 3 27.698 31.99 27.583 1 56.87 ? CAU E17 117 B 1 HETATM 18 C CAX E17 . . . D 3 25.544 31.192 25.502 1 44.57 ? CAX E17 117 B 1 HETATM 19 C CAY E17 . . . D 3 26.764 30.793 27.862 1 53.98 ? CAY E17 117 B 1 HETATM 20 N N E17 . . . D 3 22.411 29.878 26.522 1 35.17 ? N E17 117 B 1 HETATM 21 C CA E17 . . . D 3 21.346 30 25.561 1 37.98 ? CA E17 117 B 1 HETATM 22 C CB E17 . . . D 3 20.328 28.913 25.997 1 38.02 ? CB E17 117 B 1 HETATM 23 C CAG E17 . . . D 3 20.778 27.587 25.334 1 37.04 ? CAG E17 117 B 1 HETATM 24 C CG1 E17 . . . D 3 20.324 28.763 27.54 1 36.37 ? CG1 E17 117 B 1 HETATM 25 C CG2 E17 . . . D 3 18.904 29.269 25.515 1 35.51 ? CG2 E17 117 B 1 HETATM 26 C C E17 . . . D 3 20.751 31.411 25.623 1 38.3 ? C E17 117 B 1 HETATM 27 O O E17 . . . D 3 20.225 31.834 26.594 1 41.23 ? O E17 117 B 1 HETATM 28 C CBI E17 . . . D 3 18.152 34.241 23.268 1 33.61 ? CBI E17 117 B 1 HETATM 29 N NBC E17 . . . D 3 20.875 32.203 24.418 1 32.75 ? NBC E17 117 B 1 HETATM 30 O OAN E17 . . . D 3 18.176 35.298 22.738 1 36.05 ? OAN E17 117 B 1 HETATM 31 C CBN E17 . . . D 3 19.344 33.301 23.154 1 32.42 ? CBN E17 117 B 1 HETATM 32 C CBJ E17 . . . D 3 22.069 34.793 25.403 1 25.63 ? CBJ E17 117 B 1 HETATM 33 C CBA E17 . . . D 3 21.261 34.621 24.131 1 28.75 ? CBA E17 117 B 1 HETATM 34 C CAP E17 . . . D 3 23.681 35.184 27.973 1 38.22 ? CAP E17 117 B 1 HETATM 35 C CBO E17 . . . D 3 20.255 33.507 24.382 1 29.84 ? CBO E17 117 B 1 HETATM 36 O OAO E17 . . . D 3 20.042 33.548 21.966 1 39.43 ? OAO E17 117 B 1 HETATM 37 C CAV E17 . . . D 3 21.588 35.79 26.464 1 32.33 ? CAV E17 117 B 1 HETATM 38 C CAW E17 . . . D 3 23.34 33.975 25.593 1 28.03 ? CAW E17 117 B 1 HETATM 39 C CAR E17 . . . D 3 22.393 35.992 27.753 1 38.12 ? CAR E17 117 B 1 HETATM 40 C CAS E17 . . . D 3 24.141 34.187 26.888 1 37.24 ? CAS E17 117 B 1 HETATM 41 C CBH E17 . . . D 3 16.325 36 25.061 1 37.47 ? CBH E17 117 B 1 HETATM 42 N NBR E17 . . . D 3 16.964 33.866 24.023 1 36.96 ? NBR E17 117 B 1 HETATM 43 O OAM E17 . . . D 3 17.2 35.741 25.838 1 29.01 ? OAM E17 117 B 1 HETATM 44 C CBQ E17 . . . D 3 15.786 34.914 24.121 1 36.97 ? CBQ E17 117 B 1 HETATM 45 C CBU E17 . . . D 3 14.551 34.196 24.735 1 39.38 ? CBU E17 117 B 1 HETATM 46 C CAZ E17 . . . D 3 16.678 32.57 24.814 1 40.94 ? CAZ E17 117 B 1 HETATM 47 C CAH E17 . . . D 3 13.685 35.172 25.571 1 33.25 ? CAH E17 117 B 1 HETATM 48 C CAI E17 . . . D 3 13.741 33.751 23.513 1 37.77 ? CAI E17 117 B 1 HETATM 49 S SBE E17 . . . D 3 15.264 32.842 25.69 1 45.3 ? SBE E17 117 B 1 HETATM 50 N NBB E17 . . . D 3 15.76 37.348 24.981 1 38.45 ? NBB E17 117 B 1 HETATM 51 C CBL E17 . . . D 3 16.27 38.378 25.885 1 36.76 ? CBL E17 117 B 1 HETATM 52 C CBS E17 . . . D 3 17.451 39.179 25.258 1 36.93 ? CBS E17 117 B 1 HETATM 53 C CAA E17 . . . D 3 15.099 39.304 26.282 1 43.54 ? CAA E17 117 B 1 HETATM 54 C CAB E17 . . . D 3 18.489 38.318 24.512 1 34.85 ? CAB E17 117 B 1 HETATM 55 C CAC E17 . . . D 3 16.944 40.23 24.229 1 32 ? CAC E17 117 B 1 HETATM 56 C CAD E17 . . . D 3 18.193 39.772 26.471 1 39.44 ? CAD E17 117 B 1 # _model_server_stats.io_time_ms 29 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 409 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 56 #