data_9DW8 # _model_server_result.job_id 7aeM_p9h-WSLbVEc0VS7cA _model_server_result.datetime_utc '2024-12-01 03:10:33' _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 9dw8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":403}' # _entry.id 9DW8 # _exptl.entry_id 9DW8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 506.196 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 9DW8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 9DW8 _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 ? _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,E,F,G,H,I _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 5 _struct_asym.id I _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 covale ? covale1 B C TRP 197 G TRP 197 1_555 B N TPO 198 G TPO 198 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale2 B C TPO 198 G TPO 198 1_555 B N LEU 199 G LEU 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? metalc ? metalc1 A OG1 THR 465 A THR 465 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.809 ? metalc ? metalc2 A OE1 GLN 493 A GLN 493 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc3 A OE1 GLN 1291 A GLN 1291 1_555 F MG MG . A MG 1504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc4 C O13 B44 . A B44 1501 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.657 ? metalc ? metalc5 C O10 B44 . A B44 1501 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.69 ? metalc ? metalc6 C O9 B44 . A B44 1501 1_555 E MG MG . A MG 1503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3 ? metalc ? metalc7 D O13 B44 . A B44 1502 1_555 F MG MG . A MG 1504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.465 ? metalc ? metalc8 D O9 B44 . A B44 1502 1_555 F MG MG . A MG 1504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.884 ? metalc ? metalc9 B O GLY 53 G GLY 53 1_555 G MG MG . G MG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.867 ? metalc ? metalc10 B OD1 ASP 185 G ASP 185 1_555 H MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.309 ? metalc ? metalc11 G MG MG . G MG 401 1_555 I O3G ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.921 ? metalc ? metalc12 G MG MG . G MG 401 1_555 I O2B ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.967 ? metalc ? metalc13 H MG MG . G MG 402 1_555 I O1A ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc14 H MG MG . G MG 402 1_555 I O1G ANP . G ANP 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 9DW8 _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 C 3 B44 A 1 1501 1501 B44 ATP . D 3 B44 A 1 1502 1601 B44 ATP . E 4 MG A 1 1503 1 MG MG . F 4 MG A 1 1504 2 MG MG . G 4 MG G 1 401 1 MG MG . H 4 MG G 1 402 2 MG MG . I 5 ANP G 1 403 401 ANP AMP . # 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 P PG ANP . . . I 5 140.894 188.112 103.914 1 100.13 ? PG ANP 403 G 1 HETATM 2 O O1G ANP . . . I 5 141.173 186.836 104.574 1 100.13 ? O1G ANP 403 G 1 HETATM 3 O O2G ANP . . . I 5 140.685 189.053 105.012 1 100.13 ? O2G ANP 403 G 1 HETATM 4 O O3G ANP . . . I 5 139.566 187.939 103.329 1 100.13 ? O3G ANP 403 G 1 HETATM 5 P PB ANP . . . I 5 142.061 190.221 102.246 1 100.13 ? PB ANP 403 G 1 HETATM 6 O O1B ANP . . . I 5 142.151 191.154 103.362 1 100.13 ? O1B ANP 403 G 1 HETATM 7 O O2B ANP . . . I 5 140.748 190.555 101.717 1 100.13 ? O2B ANP 403 G 1 HETATM 8 N N3B ANP . . . I 5 142.088 188.614 102.81 1 100.13 ? N3B ANP 403 G 1 HETATM 9 P PA ANP . . . I 5 144.606 189.512 101.104 1 100.13 ? PA ANP 403 G 1 HETATM 10 O O1A ANP . . . I 5 144.575 188.471 102.13 1 100.13 ? O1A ANP 403 G 1 HETATM 11 O O2A ANP . . . I 5 145.77 190.285 101.509 1 100.13 ? O2A ANP 403 G 1 HETATM 12 O O3A ANP . . . I 5 143.249 190.453 101.135 1 100.13 ? O3A ANP 403 G 1 HETATM 13 O O5' ANP . . . I 5 144.823 188.868 99.602 1 100.13 ? O5' ANP 403 G 1 HETATM 14 C C5' ANP . . . I 5 143.872 187.937 99.171 1 100.13 ? C5' ANP 403 G 1 HETATM 15 C C4' ANP . . . I 5 144.546 186.856 98.367 1 100.13 ? C4' ANP 403 G 1 HETATM 16 O O4' ANP . . . I 5 145.494 187.427 97.444 1 100.13 ? O4' ANP 403 G 1 HETATM 17 C C3' ANP . . . I 5 145.322 185.942 99.269 1 100.13 ? C3' ANP 403 G 1 HETATM 18 O O3' ANP . . . I 5 144.629 184.715 99.453 1 100.13 ? O3' ANP 403 G 1 HETATM 19 C C2' ANP . . . I 5 146.619 185.689 98.59 1 100.13 ? C2' ANP 403 G 1 HETATM 20 O O2' ANP . . . I 5 146.613 184.398 97.996 1 100.13 ? O2' ANP 403 G 1 HETATM 21 C C1' ANP . . . I 5 146.761 186.739 97.527 1 100.13 ? C1' ANP 403 G 1 HETATM 22 N N9 ANP . . . I 5 147.806 187.652 97.878 1 100.13 ? N9 ANP 403 G 1 HETATM 23 C C8 ANP . . . I 5 147.73 188.339 98.958 1 100.13 ? C8 ANP 403 G 1 HETATM 24 N N7 ANP . . . I 5 148.822 189.123 99.084 1 100.13 ? N7 ANP 403 G 1 HETATM 25 C C5 ANP . . . I 5 149.588 188.756 97.831 1 100.13 ? C5 ANP 403 G 1 HETATM 26 C C6 ANP . . . I 5 150.779 189.149 97.289 1 100.13 ? C6 ANP 403 G 1 HETATM 27 N N6 ANP . . . I 5 151.602 190.133 97.96 1 100.13 ? N6 ANP 403 G 1 HETATM 28 N N1 ANP . . . I 5 151.175 188.616 96.137 1 100.13 ? N1 ANP 403 G 1 HETATM 29 C C2 ANP . . . I 5 150.369 187.706 95.562 1 100.13 ? C2 ANP 403 G 1 HETATM 30 N N3 ANP . . . I 5 149.189 187.236 95.982 1 100.13 ? N3 ANP 403 G 1 HETATM 31 C C4 ANP . . . I 5 148.835 187.784 97.115 1 100.13 ? C4 ANP 403 G 1 # _model_server_stats.io_time_ms 50 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 31 #