data_9MOD # _model_server_result.job_id lyp7q5jS6olcYVaNzJUE0Q _model_server_result.datetime_utc '2025-07-05 08:47:39' _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 9mod # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":401}' # _entry.id 9MOD # _exptl.entry_id 9MOD _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentadecameric _pdbx_struct_assembly.oligomeric_count 15 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 6 P N N ? 6 R N N ? 6 T N N ? 6 V N N ? 6 X N N ? 6 Z N N ? 6 BA N 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 OE1 GLN 139 A GLN 137 1_555 Q MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc2 P O1B ADP . A ADP 401 1_555 Q MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc3 B OE1 GLN 139 B GLN 137 1_555 S MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? metalc ? metalc4 R O1B ADP . B ADP 401 1_555 S MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? metalc ? metalc5 C OE1 GLN 139 C GLN 137 1_555 U MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc6 T O1B ADP . C ADP 401 1_555 U MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc7 D OE1 GLN 139 D GLN 137 1_555 W MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc8 V O1B ADP . D ADP 401 1_555 W MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.969 ? metalc ? metalc9 E OE1 GLN 139 E GLN 137 1_555 Y MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc10 X O1B ADP . E ADP 401 1_555 Y MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.968 ? metalc ? metalc11 F OE1 GLN 139 F GLN 137 1_555 AA MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc12 Z O1B ADP . F ADP 401 1_555 AA MG MG . F MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? metalc ? metalc13 G OE1 GLN 139 G GLN 137 1_555 CA MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? metalc ? metalc14 BA O1B ADP . G ADP 401 1_555 CA MG MG . G MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.966 ? # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 9MOD _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 P 6 ADP A 1 401 401 ADP ADP . Q 7 MG A 1 402 402 MG MG . R 6 ADP B 1 401 401 ADP ADP . S 7 MG B 1 402 402 MG MG . T 6 ADP C 1 401 401 ADP ADP . U 7 MG C 1 402 402 MG MG . V 6 ADP D 1 401 401 ADP ADP . W 7 MG D 1 402 402 MG MG . X 6 ADP E 1 401 401 ADP ADP . Y 7 MG E 1 402 402 MG MG . Z 6 ADP F 1 401 401 ADP ADP . AA 7 MG F 1 402 402 MG MG . BA 6 ADP G 1 401 401 ADP ADP . CA 7 MG G 1 402 402 MG MG . # 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 PB ADP . . . T 6 216.163 235.07 158.222 1 11.99 ? PB ADP 401 C 1 HETATM 2 O O1B ADP . . . T 6 216.473 234.758 156.784 1 11.99 ? O1B ADP 401 C 1 HETATM 3 O O2B ADP . . . T 6 215.902 236.522 158.499 1 11.99 ? O2B ADP 401 C 1 HETATM 4 O O3B ADP . . . T 6 215.204 234.125 158.888 1 11.99 ? O3B ADP 401 C 1 HETATM 5 P PA ADP . . . T 6 218.555 235.994 159.284 1 11.99 ? PA ADP 401 C 1 HETATM 6 O O1A ADP . . . T 6 219.11 236.508 157.989 1 11.99 ? O1A ADP 401 C 1 HETATM 7 O O2A ADP . . . T 6 217.918 236.915 160.273 1 11.99 ? O2A ADP 401 C 1 HETATM 8 O O3A ADP . . . T 6 217.535 234.797 158.994 1 11.99 ? O3A ADP 401 C 1 HETATM 9 O O5' ADP . . . T 6 219.703 235.195 160.046 1 11.99 ? O5' ADP 401 C 1 HETATM 10 C C5' ADP . . . T 6 219.937 235.409 161.426 1 11.99 ? C5' ADP 401 C 1 HETATM 11 C C4' ADP . . . T 6 220.89 234.317 161.863 1 11.99 ? C4' ADP 401 C 1 HETATM 12 O O4' ADP . . . T 6 222.158 234.565 161.277 1 11.99 ? O4' ADP 401 C 1 HETATM 13 C C3' ADP . . . T 6 221.086 234.281 163.356 1 11.99 ? C3' ADP 401 C 1 HETATM 14 O O3' ADP . . . T 6 220.385 233.158 163.879 1 11.99 ? O3' ADP 401 C 1 HETATM 15 C C2' ADP . . . T 6 222.569 234.089 163.547 1 11.99 ? C2' ADP 401 C 1 HETATM 16 O O2' ADP . . . T 6 222.813 232.723 163.861 1 11.99 ? O2' ADP 401 C 1 HETATM 17 C C1' ADP . . . T 6 223.209 234.392 162.216 1 11.99 ? C1' ADP 401 C 1 HETATM 18 N N9 ADP . . . T 6 223.909 235.68 162.338 1 11.99 ? N9 ADP 401 C 1 HETATM 19 C C8 ADP . . . T 6 223.31 236.872 162.423 1 11.99 ? C8 ADP 401 C 1 HETATM 20 N N7 ADP . . . T 6 224.212 237.872 162.531 1 11.99 ? N7 ADP 401 C 1 HETATM 21 C C5 ADP . . . T 6 225.425 237.307 162.513 1 11.99 ? C5 ADP 401 C 1 HETATM 22 C C6 ADP . . . T 6 226.808 237.799 162.592 1 11.99 ? C6 ADP 401 C 1 HETATM 23 N N6 ADP . . . T 6 227.076 239.118 162.714 1 11.99 ? N6 ADP 401 C 1 HETATM 24 N N1 ADP . . . T 6 227.793 236.889 162.544 1 11.99 ? N1 ADP 401 C 1 HETATM 25 C C2 ADP . . . T 6 227.528 235.583 162.427 1 11.99 ? C2 ADP 401 C 1 HETATM 26 N N3 ADP . . . T 6 226.295 235.062 162.348 1 11.99 ? N3 ADP 401 C 1 HETATM 27 C C4 ADP . . . T 6 225.222 235.867 162.389 1 11.99 ? C4 ADP 401 C 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 47 _model_server_stats.query_time_ms 396 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #