data_8W7M # _model_server_result.job_id BIuf9EglQjHjk6rja8DQOg _model_server_result.datetime_utc '2024-12-18 01:58:32' _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 8w7m # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":901}' # _entry.id 8W7M # _exptl.entry_id 8W7M _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 15 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _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 ? 15 Q N N ? 15 T 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 SG CYS 341 2 CYS 341 1_555 S ZN ZN . 2 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc2 A SG CYS 344 2 CYS 344 1_555 S ZN ZN . 2 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc3 A SG CYS 364 2 CYS 364 1_555 S ZN ZN . 2 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc4 A SG CYS 367 2 CYS 367 1_555 S ZN ZN . 2 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc5 Q O1B ADP . 2 ADP 901 1_555 R MG MG . 2 MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc6 Q O2B ADP . 2 ADP 901 1_555 R MG MG . 2 MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc7 Q O1A ADP . 2 ADP 901 1_555 R MG MG . 2 MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc8 Q O2A ADP . 2 ADP 901 1_555 R MG MG . 2 MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc9 Q O3A ADP . 2 ADP 901 1_555 R MG MG . 2 MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.597 ? metalc ? metalc10 T O1B ADP . 3 ADP 1001 1_555 U MG MG . 3 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc11 T O3B ADP . 3 ADP 1001 1_555 U MG MG . 3 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.914 ? metalc ? metalc12 T O1A ADP . 3 ADP 1001 1_555 U MG MG . 3 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc13 T O2A ADP . 3 ADP 1001 1_555 U MG MG . 3 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc14 T O3A ADP . 3 ADP 1001 1_555 U MG MG . 3 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc15 C SG CYS 349 4 CYS 349 1_555 X ZN ZN . 4 ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc16 C SG CYS 352 4 CYS 352 1_555 X ZN ZN . 4 ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc17 C SG CYS 371 4 CYS 371 1_555 X ZN ZN . 4 ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc18 C SG CYS 376 4 CYS 376 1_555 X ZN ZN . 4 ZN 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc19 V O3G AGS . 4 AGS 1001 1_555 W MG MG . 4 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.911 ? metalc ? metalc20 V O1B AGS . 4 AGS 1001 1_555 W MG MG . 4 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.822 ? metalc ? metalc21 V O1A AGS . 4 AGS 1001 1_555 W MG MG . 4 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc22 V O2A AGS . 4 AGS 1001 1_555 W MG MG . 4 MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.847 ? metalc ? metalc23 D SG CYS 183 5 CYS 183 1_555 Y ZN ZN . 5 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.317 ? metalc ? metalc24 D SG CYS 186 5 CYS 186 1_555 Y ZN ZN . 5 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc25 D SG CYS 211 5 CYS 211 1_555 Y ZN ZN . 5 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc26 D SG CYS 236 5 CYS 236 1_555 Y ZN ZN . 5 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.325 ? metalc ? metalc27 E SG CYS 311 6 CYS 311 1_555 Z ZN ZN . 6 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc28 E SG CYS 314 6 CYS 314 1_555 Z ZN ZN . 6 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.311 ? metalc ? metalc29 E SG CYS 333 6 CYS 333 1_555 Z ZN ZN . 6 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.321 ? metalc ? metalc30 E SG CYS 338 6 CYS 338 1_555 Z ZN ZN . 6 ZN 1600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc31 F SG CYS 262 7 CYS 262 1_555 CA ZN ZN . 7 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc32 F SG CYS 265 7 CYS 265 1_555 CA ZN ZN . 7 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc33 F SG CYS 284 7 CYS 284 1_555 CA ZN ZN . 7 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc34 F SG CYS 289 7 CYS 289 1_555 CA ZN ZN . 7 ZN 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc35 F OG SER 467 7 SER 467 1_555 AA MG MG . 7 MG 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.986 ? metalc ? metalc36 AA MG MG . 7 MG 901 1_555 BA O3B AGS . 7 AGS 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc37 AA MG MG . 7 MG 901 1_555 BA O3A AGS . 7 AGS 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.9 ? # _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 8W7M _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 Q 15 ADP 2 1 901 901 ADP ADP . R 16 MG 2 1 902 902 MG MG . S 17 ZN 2 1 903 903 ZN ZN . T 15 ADP 3 1 1001 1001 ADP ADP . U 16 MG 3 1 1002 1002 MG MG . V 18 AGS 4 1 1001 1001 AGS AGS . W 16 MG 4 1 1002 1002 MG MG . X 17 ZN 4 1 1003 1003 ZN ZN . Y 17 ZN 5 1 1600 1600 ZN ZN . Z 17 ZN 6 1 1600 1600 ZN ZN . AA 16 MG 7 1 901 901 MG MG . BA 18 AGS 7 1 902 902 AGS AGS . CA 17 ZN 7 1 903 903 ZN ZN . # 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 . . . Q 15 262.322 210.958 260.454 1 289.44 ? PB ADP 901 2 1 HETATM 2 O O1B ADP . . . Q 15 262.048 212.19 259.626 1 289.44 ? O1B ADP 901 2 1 HETATM 3 O O2B ADP . . . Q 15 262.164 211.159 261.941 1 289.44 -1 O2B ADP 901 2 1 HETATM 4 O O3B ADP . . . Q 15 261.713 209.68 259.94 1 289.44 ? O3B ADP 901 2 1 HETATM 5 P PA ADP . . . Q 15 264.966 211.707 260.896 1 289.44 ? PA ADP 901 2 1 HETATM 6 O O1A ADP . . . Q 15 265.23 212.825 259.917 1 289.44 -1 O1A ADP 901 2 1 HETATM 7 O O2A ADP . . . Q 15 264.52 212.005 262.305 1 289.44 ? O2A ADP 901 2 1 HETATM 8 O O3A ADP . . . Q 15 263.894 210.703 260.25 1 289.44 ? O3A ADP 901 2 1 HETATM 9 O O5' ADP . . . Q 15 266.256 210.75 260.969 1 289.44 ? O5' ADP 901 2 1 HETATM 10 C C5' ADP . . . Q 15 266.807 210.393 262.231 1 289.44 ? C5' ADP 901 2 1 HETATM 11 C C4' ADP . . . Q 15 268.272 210.018 262.064 1 289.44 ? C4' ADP 901 2 1 HETATM 12 O O4' ADP . . . Q 15 268.453 208.905 261.184 1 289.44 ? O4' ADP 901 2 1 HETATM 13 C C3' ADP . . . Q 15 269.043 211.169 261.448 1 289.44 ? C3' ADP 901 2 1 HETATM 14 O O3' ADP . . . Q 15 269.812 211.839 262.449 1 289.44 ? O3' ADP 901 2 1 HETATM 15 C C2' ADP . . . Q 15 269.96 210.545 260.418 1 289.44 ? C2' ADP 901 2 1 HETATM 16 O O2' ADP . . . Q 15 271.324 210.839 260.728 1 289.44 ? O2' ADP 901 2 1 HETATM 17 C C1' ADP . . . Q 15 269.713 209.053 260.524 1 289.44 ? C1' ADP 901 2 1 HETATM 18 N N9 ADP . . . Q 15 269.713 208.446 259.172 1 289.44 ? N9 ADP 901 2 1 HETATM 19 C C8 ADP . . . Q 15 268.739 207.694 258.627 1 289.44 ? C8 ADP 901 2 1 HETATM 20 N N7 ADP . . . Q 15 269.077 207.299 257.372 1 289.44 ? N7 ADP 901 2 1 HETATM 21 C C5 ADP . . . Q 15 270.297 207.799 257.102 1 289.44 ? C5 ADP 901 2 1 HETATM 22 C C6 ADP . . . Q 15 271.245 207.765 255.963 1 289.44 ? C6 ADP 901 2 1 HETATM 23 N N6 ADP . . . Q 15 270.951 207.098 254.822 1 289.44 ? N6 ADP 901 2 1 HETATM 24 N N1 ADP . . . Q 15 272.415 208.425 256.097 1 289.44 ? N1 ADP 901 2 1 HETATM 25 C C2 ADP . . . Q 15 272.725 209.094 257.221 1 289.44 ? C2 ADP 901 2 1 HETATM 26 N N3 ADP . . . Q 15 271.915 209.167 258.292 1 289.44 ? N3 ADP 901 2 1 HETATM 27 C C4 ADP . . . Q 15 270.712 208.55 258.295 1 289.44 ? C4 ADP 901 2 1 # _model_server_stats.io_time_ms 34 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 72 _model_server_stats.query_time_ms 429 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #