data_8PRV # _model_server_result.job_id BIVPgVW3wssU36tBP4jBBg _model_server_result.datetime_utc '2024-12-26 16:27:35' _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 8prv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":1901}' # _entry.id 8PRV # _exptl.entry_id 8PRV _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 442.422 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] 3-oxidanylidenebutanethioate' _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 8PRV _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8PRV _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,E,F,G,H _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 ? _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 4 _struct_asym.id E _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 disulf ? disulf1 A SG CYS 1246 A CYS 1246 1_555 A SG CYS 1327 A CYS 1327 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? covale ? covale1 B CB SER 180 B SER 180 1_555 E O23 A5S . B A5S 1901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.422 ? covale ? covale2 C C HIS 1807 G HIS 1807 1_555 C N J8W 1808 G J8W 1808 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale3 C C J8W 1808 G J8W 1808 1_555 C N LEU 1809 G LEU 1809 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _chem_comp.formula 'C15 H27 N2 O9 P S' _chem_comp.formula_weight 442.422 _chem_comp.id A5S _chem_comp.mon_nstd_flag . _chem_comp.name '~{S}-[2-[3-[[(2~{R})-3,3-dimethyl-2-oxidanyl-4-phosphonooxy-butanoyl]amino]propanoylamino]ethyl] 3-oxidanylidenebutanethioate' _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 O25 P24 A5S doub 1 n n O23 P24 A5S sing 2 n n O26 P24 A5S sing 3 n n P24 O27 A5S sing 4 n n O27 C28 A5S sing 5 n n C28 C29 A5S sing 6 n n C31 C29 A5S sing 7 n n C29 C30 A5S sing 8 n n C29 C32 A5S sing 9 n n C32 O33 A5S sing 10 n n C32 C34 A5S sing 11 n n O35 C34 A5S doub 12 n n C34 N36 A5S sing 13 n n N36 C37 A5S sing 14 n n C37 C38 A5S sing 15 n n C38 C39 A5S sing 16 n n O40 C39 A5S doub 17 n n C39 N41 A5S sing 18 n n N41 C42 A5S sing 19 n n C42 C43 A5S sing 20 n n C43 S44 A5S sing 21 n n S44 C1 A5S sing 22 n n O5 C1 A5S doub 23 n n C1 C2 A5S sing 24 n n C4 C3 A5S sing 25 n n C2 C3 A5S sing 26 n n C3 O1 A5S doub 27 n n C2 H1 A5S sing 28 n n C2 H2 A5S sing 29 n n C4 H3 A5S sing 30 n n C4 H4 A5S sing 31 n n C4 H5 A5S sing 32 n n N41 H6 A5S sing 33 n n C42 H7 A5S sing 34 n n C42 H8 A5S sing 35 n n C43 H9 A5S sing 36 n n C43 H10 A5S sing 37 n n C38 H11 A5S sing 38 n n C38 H12 A5S sing 39 n n C37 H13 A5S sing 40 n n C37 H14 A5S sing 41 n n N36 H15 A5S sing 42 n n C32 H16 A5S sing 43 n n O33 H17 A5S sing 44 n n C31 H18 A5S sing 45 n n C31 H19 A5S sing 46 n n C31 H20 A5S sing 47 n n C30 H21 A5S sing 48 n n C30 H22 A5S sing 49 n n C30 H23 A5S sing 50 n n C28 H24 A5S sing 51 n n C28 H25 A5S sing 52 n n O23 H26 A5S sing 53 n n O26 H27 A5S sing 54 n n # _atom_sites.entry_id 8PRV _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 D 3 NAP A 1 1901 1901 NAP NAP . E 4 A5S B 1 1901 180 A5S PKR . F 5 FMN G 1 2101 2101 FMN FMN . G 3 NAP G 1 2102 2201 NAP NAP . H 6 COA G 1 2103 2301 COA COA . # 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 A5S . . . E 4 126.206 163.477 166.192 1 52.26 ? C1 A5S 1901 B 1 HETATM 2 C C2 A5S . . . E 4 127.512 163.562 166.955 1 51.63 ? C2 A5S 1901 B 1 HETATM 3 C C3 A5S . . . E 4 127.745 164.995 167.38 1 62.56 ? C3 A5S 1901 B 1 HETATM 4 C C4 A5S . . . E 4 128.526 165.934 166.488 1 64.32 ? C4 A5S 1901 B 1 HETATM 5 O O1 A5S . . . E 4 127.282 165.36 168.447 1 61.59 ? O1 A5S 1901 B 1 HETATM 6 O O5 A5S . . . E 4 125.551 164.495 165.99 1 49.32 ? O5 A5S 1901 B 1 HETATM 7 O O40 A5S . . . E 4 124.513 162.748 160.638 1 47.75 ? O40 A5S 1901 B 1 HETATM 8 C C39 A5S . . . E 4 123.508 163.056 161.259 1 50.01 ? C39 A5S 1901 B 1 HETATM 9 N N41 A5S . . . E 4 123.437 163.177 162.578 1 50.98 ? N41 A5S 1901 B 1 HETATM 10 C C42 A5S . . . E 4 124.577 162.882 163.427 1 56.09 ? C42 A5S 1901 B 1 HETATM 11 C C43 A5S . . . E 4 124.194 162.09 164.684 1 54.77 ? C43 A5S 1901 B 1 HETATM 12 S S44 A5S . . . E 4 125.652 161.979 165.646 1 51.93 ? S44 A5S 1901 B 1 HETATM 13 C C38 A5S . . . E 4 122.221 163.226 160.513 1 54.04 ? C38 A5S 1901 B 1 HETATM 14 C C37 A5S . . . E 4 121.663 161.803 160.366 1 57.87 ? C37 A5S 1901 B 1 HETATM 15 N N36 A5S . . . E 4 122.22 161.115 159.204 1 58.45 ? N36 A5S 1901 B 1 HETATM 16 C C34 A5S . . . E 4 121.599 161.07 158.022 1 57.54 ? C34 A5S 1901 B 1 HETATM 17 O O35 A5S . . . E 4 120.486 161.544 157.815 1 63.99 ? O35 A5S 1901 B 1 HETATM 18 C C32 A5S . . . E 4 122.318 160.447 156.858 1 59.05 ? C32 A5S 1901 B 1 HETATM 19 O O33 A5S . . . E 4 123.081 159.293 157.311 1 53.34 ? O33 A5S 1901 B 1 HETATM 20 C C29 A5S . . . E 4 123.139 161.514 156.047 1 59.13 ? C29 A5S 1901 B 1 HETATM 21 C C31 A5S . . . E 4 122.377 162.831 155.797 1 56.96 ? C31 A5S 1901 B 1 HETATM 22 C C30 A5S . . . E 4 124.465 161.819 156.745 1 59.38 ? C30 A5S 1901 B 1 HETATM 23 C C28 A5S . . . E 4 123.359 160.954 154.639 1 62.8 ? C28 A5S 1901 B 1 HETATM 24 O O27 A5S . . . E 4 123.709 159.553 154.576 1 60.84 ? O27 A5S 1901 B 1 HETATM 25 P P24 A5S . . . E 4 123.877 158.907 153.107 1 59.65 ? P24 A5S 1901 B 1 HETATM 26 O O23 A5S . . . E 4 122.668 157.97 152.71 1 66.87 ? O23 A5S 1901 B 1 HETATM 27 O O25 A5S . . . E 4 123.765 160.004 152.042 1 65.08 ? O25 A5S 1901 B 1 HETATM 28 O O26 A5S . . . E 4 125.178 158.141 153.074 1 54.66 ? O26 A5S 1901 B 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 61 _model_server_stats.query_time_ms 317 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 28 #