data_8DP7 # _model_server_result.job_id j7j0CaaLzA5qmSNAeOgI0g _model_server_result.datetime_utc '2025-01-12 08:09:11' _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 8dp7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":601}' # _entry.id 8DP7 # _exptl.entry_id 8DP7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 230.307 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description trimethyl-[(2S)-1-oxidanyl-1-oxidanylidene-3-(2-sulfanylidene-1,3-dihydroimidazol-4-yl)propan-2-yl]azanium _entity.pdbx_number_of_molecules 5 _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 8DP7 _cell.length_a 134.716 _cell.length_b 137.751 _cell.length_c 190.496 _cell.Z_PDB 40 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8DP7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall 'I 2 2' _symmetry.space_group_name_H-M 'I 2 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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 ? monomeric 1 author_defined_assembly 5 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,F 1 1 B,G 2 1 C,H 3 1 D,I 4 1 E,J 5 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 F N N ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N # _chem_comp.formula 'C9 H16 N3 O2 S 1' _chem_comp.formula_weight 230.307 _chem_comp.id LW8 _chem_comp.mon_nstd_flag . _chem_comp.name trimethyl-[(2S)-1-oxidanyl-1-oxidanylidene-3-(2-sulfanylidene-1,3-dihydroimidazol-4-yl)propan-2-yl]azanium _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 C12 C10 LW8 doub 179 n n C12 N13 LW8 sing 180 n n C09 C10 LW8 sing 181 n n C09 C04 LW8 sing 182 n n C08 N05 LW8 sing 183 n n C10 N11 LW8 sing 184 n n N13 C14 LW8 sing 185 n n O03 C02 LW8 doub 186 n n N11 C14 LW8 sing 187 n n C14 S15 LW8 doub 188 n n N05 C04 LW8 sing 189 n n N05 C06 LW8 sing 190 n n N05 C07 LW8 sing 191 n n C04 C02 LW8 sing 192 n n C02 O01 LW8 sing 193 n n O01 H1 LW8 sing 194 n n C04 H2 LW8 sing 195 n n C06 H3 LW8 sing 196 n n C06 H4 LW8 sing 197 n n C06 H5 LW8 sing 198 n n C07 H6 LW8 sing 199 n n C07 H7 LW8 sing 200 n n C07 H8 LW8 sing 201 n n C08 H9 LW8 sing 202 n n C08 H10 LW8 sing 203 n n C08 H11 LW8 sing 204 n n C09 H12 LW8 sing 205 n n C09 H13 LW8 sing 206 n n C12 H14 LW8 sing 207 n n N11 H15 LW8 sing 208 n n N13 H16 LW8 sing 209 n n # _atom_sites.entry_id 8DP7 _atom_sites.fract_transf_matrix[1][1] 0.007423 _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] 0.007259 _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] 0.005249 _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 F 2 LW8 A 1 601 581 LW8 LIG . G 2 LW8 B 1 601 581 LW8 LIG . H 2 LW8 C 1 601 581 LW8 LIG . I 2 LW8 D 1 601 581 LW8 LIG . J 2 LW8 E 1 601 581 LW8 LIG . # 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 O O01 LW8 . . . H 2 7.059 57.513 58.018 1 83.59 -1 O01 LW8 601 C 1 HETATM 2 C C02 LW8 . . . H 2 7.453 56.796 57.048 1 76.62 ? C02 LW8 601 C 1 HETATM 3 O O03 LW8 . . . H 2 6.894 55.694 56.754 1 77.48 ? O03 LW8 601 C 1 HETATM 4 C C04 LW8 . . . H 2 8.654 57.293 56.208 1 73.48 ? C04 LW8 601 C 1 HETATM 5 N N05 LW8 . . . H 2 9.836 56.421 56.381 1 69.26 ? N05 LW8 601 C 1 HETATM 6 C C06 LW8 . . . H 2 9.817 55.681 57.63 1 80.38 ? C06 LW8 601 C 1 HETATM 7 C C07 LW8 . . . H 2 11.051 57.209 56.382 1 76.51 ? C07 LW8 601 C 1 HETATM 8 C C08 LW8 . . . H 2 10.031 55.414 55.363 1 78.17 ? C08 LW8 601 C 1 HETATM 9 C C09 LW8 . . . H 2 8.231 57.489 54.743 1 70.56 ? C09 LW8 601 C 1 HETATM 10 C C10 LW8 . . . H 2 6.914 58.257 54.615 1 64.65 ? C10 LW8 601 C 1 HETATM 11 N N11 LW8 . . . H 2 6.019 58.129 53.659 1 66.61 ? N11 LW8 601 C 1 HETATM 12 C C14 LW8 . . . H 2 5.016 58.966 53.907 1 74.14 ? C14 LW8 601 C 1 HETATM 13 S S15 LW8 . . . H 2 3.695 59.183 53.044 1 117.9 ? S15 LW8 601 C 1 HETATM 14 N N13 LW8 . . . H 2 5.28 59.625 55.02 1 76.12 ? N13 LW8 601 C 1 HETATM 15 C C12 LW8 . . . H 2 6.441 59.22 55.484 1 72.44 ? C12 LW8 601 C 1 HETATM 16 H H2 LW8 . . . H 2 8.967 58.265 56.571 1 88.17 ? H2 LW8 601 C 1 HETATM 17 H H3 LW8 . . . H 2 9.542 56.349 58.443 1 96.46 ? H3 LW8 601 C 1 HETATM 18 H H4 LW8 . . . H 2 9.091 54.874 57.562 1 96.46 ? H4 LW8 601 C 1 HETATM 19 H H5 LW8 . . . H 2 10.804 55.265 57.82 1 96.46 ? H5 LW8 601 C 1 HETATM 20 H H6 LW8 . . . H 2 11.741 56.813 55.638 1 91.82 ? H6 LW8 601 C 1 HETATM 21 H H7 LW8 . . . H 2 11.514 57.163 57.366 1 91.82 ? H7 LW8 601 C 1 HETATM 22 H H8 LW8 . . . H 2 10.813 58.244 56.141 1 91.82 ? H8 LW8 601 C 1 HETATM 23 H H9 LW8 . . . H 2 10.317 55.894 54.427 1 93.8 ? H9 LW8 601 C 1 HETATM 24 H H10 LW8 . . . H 2 9.105 54.858 55.218 1 93.8 ? H10 LW8 601 C 1 HETATM 25 H H11 LW8 . . . H 2 10.82 54.729 55.675 1 93.8 ? H11 LW8 601 C 1 HETATM 26 H H12 LW8 . . . H 2 9.008 58.037 54.223 1 84.67 ? H12 LW8 601 C 1 HETATM 27 H H13 LW8 . . . H 2 8.116 56.516 54.278 1 84.67 ? H13 LW8 601 C 1 HETATM 28 H H14 LW8 . . . H 2 6.934 59.575 56.38 1 86.93 ? H14 LW8 601 C 1 HETATM 29 H H15 LW8 . . . H 2 6.083 57.508 52.879 1 79.94 ? H15 LW8 601 C 1 HETATM 30 H H16 LW8 . . . H 2 4.693 60.318 55.442 1 91.34 ? H16 LW8 601 C 1 # _model_server_stats.io_time_ms 40 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 1077 _model_server_stats.encode_time_ms 22 _model_server_stats.element_count 30 #