data_3TDB # _model_server_result.job_id 1vMXV9d3SlvHvy8a6I6A-g _model_server_result.datetime_utc '2024-12-23 07:37:12' _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 3tdb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1}' # _entry.id 3TDB # _exptl.entry_id 3TDB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 567.575 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description N-[(1E,2R)-1-[(2R)-2-{[(2S)-1-amino-5-carbamimidamido-1-oxopentan-2-yl]carbamoyl}cyclopentylidene]-3-(phosphonooxy)propan-2-yl]-L-phenylalaninamide _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 3TDB _cell.length_a 69.273 _cell.length_b 69.273 _cell.length_c 79.657 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TDB _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C24 H38 N7 O7 P' _chem_comp.formula_weight 567.575 _chem_comp.id 3TB _chem_comp.mon_nstd_flag . _chem_comp.name N-[(1E,2R)-1-[(2R)-2-{[(2S)-1-amino-5-carbamimidamido-1-oxopentan-2-yl]carbamoyl}cyclopentylidene]-3-(phosphonooxy)propan-2-yl]-L-phenylalaninamide _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 N C23 3TB sing 1 n n N HN 3TB sing 2 n n N HNA 3TB sing 3 n n O2P P 3TB doub 4 n n O4P P 3TB sing 5 n n O1P P 3TB sing 6 n n P O3P 3TB sing 7 n n C22 N0 3TB sing 8 n n N0 C20 3TB sing 9 n n N0 HN0 3TB sing 10 n n O0 C22 3TB doub 11 n n C20 C1 3TB sing 12 n n C1 C2 3TB doub 13 e n C1 H1 3TB sing 14 n n C9 N1 3TB sing 15 n n N1 C7 3TB sing 16 n n N1 HN1 3TB sing 17 n n C6 C2 3TB sing 18 n n C2 C3 3TB sing 19 n n N2 C10 3TB sing 20 n n N2 HN2 3TB sing 21 n n N2 HN2A 3TB sing 22 n n C7 O2 3TB doub 23 n n C4 C3 3TB sing 24 n n C3 C7 3TB sing 25 n n C3 H3 3TB sing 26 n n N3 C13 3TB sing 27 n n N3 C14 3TB sing 28 n n N3 HN3 3TB sing 29 n n O3 C10 3TB doub 30 n n C5 C4 3TB sing 31 n n C4 H4 3TB sing 32 n n C4 H4A 3TB sing 33 n n N4 C14 3TB doub 34 n n N4 HN4 3TB sing 35 n n C6 C5 3TB sing 36 n n C5 H5 3TB sing 37 n n C5 H5A 3TB sing 38 n n C14 N5 3TB sing 39 n n N5 HN5 3TB sing 40 n n N5 HN5A 3TB sing 41 n n C6 H6 3TB sing 42 n n C6 H6A 3TB sing 43 n n C10 C9 3TB sing 44 n n C9 C11 3TB sing 45 n n C9 H9 3TB sing 46 n n C11 C12 3TB sing 47 n n C11 H11 3TB sing 48 n n C11 H11A 3TB sing 49 n n C12 C13 3TB sing 50 n n C12 H12 3TB sing 51 n n C12 H12A 3TB sing 52 n n C13 H13 3TB sing 53 n n C13 H13A 3TB sing 54 n n O1P HO1P 3TB sing 55 n n C20 C21 3TB sing 56 n n C20 H20 3TB sing 57 n n C21 O4P 3TB sing 58 n n C21 H21 3TB sing 59 n n C21 H21A 3TB sing 60 n n C23 C22 3TB sing 61 n n C23 C31 3TB sing 62 n n C23 H23 3TB sing 63 n n C31 C32 3TB sing 64 n n C31 H31 3TB sing 65 n n C31 H31A 3TB sing 66 n n C33 C32 3TB doub 67 n y C32 C37 3TB sing 68 n y C33 C34 3TB sing 69 n y C33 H33 3TB sing 70 n n C34 C35 3TB doub 71 n y C34 H34 3TB sing 72 n n C35 C36 3TB sing 73 n y C35 H35 3TB sing 74 n n C37 C36 3TB doub 75 n y C36 H36 3TB sing 76 n n C37 H37 3TB sing 77 n n O3P HO3P 3TB sing 78 n n # _atom_sites.entry_id 3TDB _atom_sites.fract_transf_matrix[1][1] 0.014436 _atom_sites.fract_transf_matrix[1][2] 0.008334 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016669 _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] 0.012554 _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 B 2 3TB A 1 1 1 3TB 3TB . C 3 PE4 A 1 300 300 PE4 PE4 . D 4 HOH A 1 2 2 HOH HOH . D 4 HOH A 2 3 3 HOH HOH . D 4 HOH A 3 4 4 HOH HOH . D 4 HOH A 4 5 5 HOH HOH . D 4 HOH A 5 164 1 HOH HOH . D 4 HOH A 6 165 6 HOH HOH . D 4 HOH A 7 166 7 HOH HOH . D 4 HOH A 8 167 8 HOH HOH . D 4 HOH A 9 168 9 HOH HOH . D 4 HOH A 10 169 10 HOH HOH . D 4 HOH A 11 170 11 HOH HOH . D 4 HOH A 12 171 12 HOH HOH . D 4 HOH A 13 172 13 HOH HOH . D 4 HOH A 14 173 14 HOH HOH . D 4 HOH A 15 174 15 HOH HOH . D 4 HOH A 16 175 16 HOH HOH . D 4 HOH A 17 176 17 HOH HOH . D 4 HOH A 18 177 18 HOH HOH . D 4 HOH A 19 178 19 HOH HOH . D 4 HOH A 20 179 20 HOH HOH . D 4 HOH A 21 180 21 HOH HOH . D 4 HOH A 22 181 22 HOH HOH . D 4 HOH A 23 182 23 HOH HOH . D 4 HOH A 24 183 24 HOH HOH . D 4 HOH A 25 184 25 HOH HOH . D 4 HOH A 26 185 26 HOH HOH . D 4 HOH A 27 186 27 HOH HOH . D 4 HOH A 28 187 28 HOH HOH . D 4 HOH A 29 188 29 HOH HOH . D 4 HOH A 30 189 30 HOH HOH . D 4 HOH A 31 190 31 HOH HOH . D 4 HOH A 32 191 32 HOH HOH . D 4 HOH A 33 192 33 HOH HOH . D 4 HOH A 34 193 34 HOH HOH . D 4 HOH A 35 194 35 HOH HOH . D 4 HOH A 36 195 36 HOH HOH . D 4 HOH A 37 196 37 HOH HOH . D 4 HOH A 38 197 38 HOH HOH . D 4 HOH A 39 198 39 HOH HOH . D 4 HOH A 40 199 40 HOH HOH . D 4 HOH A 41 200 41 HOH HOH . D 4 HOH A 42 201 42 HOH HOH . D 4 HOH A 43 202 43 HOH HOH . D 4 HOH A 44 203 44 HOH HOH . D 4 HOH A 45 204 45 HOH HOH . D 4 HOH A 46 205 46 HOH HOH . D 4 HOH A 47 206 47 HOH HOH . D 4 HOH A 48 207 48 HOH HOH . D 4 HOH A 49 208 49 HOH HOH . D 4 HOH A 50 209 50 HOH HOH . D 4 HOH A 51 210 51 HOH HOH . D 4 HOH A 52 211 52 HOH HOH . D 4 HOH A 53 212 53 HOH HOH . D 4 HOH A 54 213 54 HOH HOH . D 4 HOH A 55 214 55 HOH HOH . D 4 HOH A 56 215 56 HOH HOH . D 4 HOH A 57 216 58 HOH HOH . D 4 HOH A 58 217 59 HOH HOH . D 4 HOH A 59 218 60 HOH HOH . D 4 HOH A 60 219 61 HOH HOH . D 4 HOH A 61 220 62 HOH HOH . D 4 HOH A 62 221 63 HOH HOH . D 4 HOH A 63 222 65 HOH HOH . D 4 HOH A 64 223 66 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 N N 3TB . . . B 2 7.117 45.996 7.281 1 60.79 ? N 3TB 1 A 1 HETATM 2 P P 3TB . . . B 2 5.816 47.117 12.929 1 46.01 ? P 3TB 1 A 1 HETATM 3 N N0 3TB . . . B 2 5.474 43.874 9.516 1 56.16 ? N0 3TB 1 A 1 HETATM 4 O O0 3TB . . . B 2 5.914 43.429 7.383 1 58.57 ? O0 3TB 1 A 1 HETATM 5 C C1 3TB . . . B 2 5.695 43.402 11.963 1 52.25 ? C1 3TB 1 A 1 HETATM 6 N N1 3TB . . . B 2 7.842 41.732 12.832 1 52.69 ? N1 3TB 1 A 1 HETATM 7 C C2 3TB . . . B 2 5.261 42.109 11.998 1 50.77 ? C2 3TB 1 A 1 HETATM 8 N N2 3TB . . . B 2 11.088 40.788 11.31 1 58.43 ? N2 3TB 1 A 1 HETATM 9 O O2 3TB . . . B 2 7.282 39.695 13.691 1 48.75 ? O2 3TB 1 A 1 HETATM 10 C C3 3TB . . . B 2 5.514 41.228 13.198 1 51.56 ? C3 3TB 1 A 1 HETATM 11 N N3 3TB . . . B 2 12.902 39.564 15.368 1 56.98 ? N3 3TB 1 A 1 HETATM 12 O O3 3TB . . . B 2 8.972 40.101 11.047 1 58.87 ? O3 3TB 1 A 1 HETATM 13 C C4 3TB . . . B 2 4.62 40.014 12.968 1 49.32 ? C4 3TB 1 A 1 HETATM 14 N N4 3TB . . . B 2 13.9 37.675 16.238 1 56 ? N4 3TB 1 A 1 HETATM 15 C C5 3TB . . . B 2 4.469 39.9 11.428 1 49.85 ? C5 3TB 1 A 1 HETATM 16 N N5 3TB . . . B 2 12.325 38.822 17.484 1 56.02 ? N5 3TB 1 A 1 HETATM 17 C C6 3TB . . . B 2 4.516 41.38 10.908 1 50.2 ? C6 3TB 1 A 1 HETATM 18 C C7 3TB . . . B 2 6.969 40.805 13.266 1 51.09 ? C7 3TB 1 A 1 HETATM 19 C C9 3TB . . . B 2 9.32 41.707 12.737 1 55.91 ? C9 3TB 1 A 1 HETATM 20 C C10 3TB . . . B 2 9.792 40.782 11.637 1 57.38 ? C10 3TB 1 A 1 HETATM 21 C C11 3TB . . . B 2 9.941 41.512 14.139 1 54.44 ? C11 3TB 1 A 1 HETATM 22 C C12 3TB . . . B 2 11.009 40.431 14.271 1 55.32 ? C12 3TB 1 A 1 HETATM 23 C C13 3TB . . . B 2 11.961 40.683 15.445 1 56.6 ? C13 3TB 1 A 1 HETATM 24 C C14 3TB . . . B 2 13.04 38.688 16.365 1 56.72 ? C14 3TB 1 A 1 HETATM 25 O O1P 3TB . . . B 2 7.185 46.526 12.673 1 45.59 ? O1P 3TB 1 A 1 HETATM 26 C C20 3TB . . . B 2 5.615 44.457 10.86 1 52.6 ? C20 3TB 1 A 1 HETATM 27 C C21 3TB . . . B 2 4.598 45.575 11.164 1 49.93 ? C21 3TB 1 A 1 HETATM 28 C C22 3TB . . . B 2 6.217 44.044 8.399 1 59.41 ? C22 3TB 1 A 1 HETATM 29 C C23 3TB . . . B 2 7.414 44.977 8.282 1 61.09 ? C23 3TB 1 A 1 HETATM 30 O O2P 3TB . . . B 2 5.583 48.403 12.176 1 44.58 ? O2P 3TB 1 A 1 HETATM 31 C C31 3TB . . . B 2 7.874 45.658 9.582 1 63.03 ? C31 3TB 1 A 1 HETATM 32 C C32 3TB . . . B 2 9.374 45.534 9.78 1 65.41 ? C32 3TB 1 A 1 HETATM 33 C C33 3TB . . . B 2 10.242 46.483 9.22 1 66.22 ? C33 3TB 1 A 1 HETATM 34 C C34 3TB . . . B 2 11.624 46.37 9.405 1 66.79 ? C34 3TB 1 A 1 HETATM 35 C C35 3TB . . . B 2 12.139 45.304 10.15 1 65.89 ? C35 3TB 1 A 1 HETATM 36 C C36 3TB . . . B 2 11.276 44.356 10.708 1 66.35 ? C36 3TB 1 A 1 HETATM 37 C C37 3TB . . . B 2 9.895 44.471 10.526 1 65.77 ? C37 3TB 1 A 1 HETATM 38 O O3P 3TB . . . B 2 5.683 47.404 14.406 1 46.09 ? O3P 3TB 1 A 1 HETATM 39 O O4P 3TB . . . B 2 4.684 46.009 12.532 1 47.79 ? O4P 3TB 1 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 39 #