data_8W7M # _model_server_result.job_id 1yCSi7Ueeo39Qzb2tVXi6w _model_server_result.datetime_utc '2024-12-18 01:46:25' _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":"BA","auth_seq_id":902}' # _entry.id 8W7M # _exptl.entry_id 8W7M _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.247 _entity.id 18 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _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 ? 18 V N N ? 18 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 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 H16 N5 O12 P3 S' _chem_comp.formula_weight 523.247 _chem_comp.id AGS _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "ATP-GAMMA-S;ADENOSINE 5'-(3-THIOTRIPHOSPHATE);ADENOSINE 5'-(GAMMA-THIOTRIPHOSPHATE);ADENOSINE-5'-DIPHOSPHATE MONOTHIOPHOSPHATE" # 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 S1G AGS doub 45 n n PG O2G AGS sing 46 n n PG O3G AGS sing 47 n n PG O3B AGS sing 48 n n PB O1B AGS doub 49 n n PB O2B AGS sing 50 n n PB O3B AGS sing 51 n n PB O3A AGS sing 52 n n PA O1A AGS doub 53 n n PA O2A AGS sing 54 n n PA O3A AGS sing 55 n n PA O5' AGS sing 56 n n O5' C5' AGS sing 57 n n C5' C4' AGS sing 58 n n C4' O4' AGS sing 59 n n C4' C3' AGS sing 60 n n O4' C1' AGS sing 61 n n C3' O3' AGS sing 62 n n C3' C2' AGS sing 63 n n C2' O2' AGS sing 64 n n C2' C1' AGS sing 65 n n C1' N9 AGS sing 66 n n N9 C8 AGS sing 67 n y N9 C4 AGS sing 68 n y C8 N7 AGS doub 69 n y N7 C5 AGS sing 70 n y C5 C6 AGS sing 71 n y C5 C4 AGS doub 72 n y C6 N6 AGS sing 73 n n C6 N1 AGS doub 74 n y N1 C2 AGS sing 75 n y C2 N3 AGS doub 76 n y N3 C4 AGS sing 77 n y O2G HOG2 AGS sing 78 n n O3G H21 AGS sing 79 n n O2B HOB2 AGS sing 80 n n O2A HOA2 AGS sing 81 n n C5' "H5'1" AGS sing 82 n n C5' "H5'2" AGS sing 83 n n C4' H4' AGS sing 84 n n C3' H3' AGS sing 85 n n O3' HO3' AGS sing 86 n n C2' H2' AGS sing 87 n n O2' HO2' AGS sing 88 n n C1' H1' AGS sing 89 n n C8 H8 AGS sing 90 n n N6 HN61 AGS sing 91 n n N6 HN62 AGS sing 92 n n C2 H2 AGS sing 93 n n # _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 PG AGS . . . BA 18 205.327 208.086 284.584 1 285.78 ? PG AGS 902 7 1 HETATM 2 S S1G AGS . . . BA 18 205.558 209.279 283.061 1 285.78 ? S1G AGS 902 7 1 HETATM 3 O O2G AGS . . . BA 18 205.69 206.632 284.165 1 285.78 ? O2G AGS 902 7 1 HETATM 4 O O3G AGS . . . BA 18 206.248 208.543 285.752 1 285.78 ? O3G AGS 902 7 1 HETATM 5 P PB AGS . . . BA 18 202.73 207.926 283.964 1 285.78 ? PB AGS 902 7 1 HETATM 6 O O1B AGS . . . BA 18 201.501 207.387 284.58 1 285.78 -1 O1B AGS 902 7 1 HETATM 7 O O2B AGS . . . BA 18 203.348 207.02 282.898 1 285.78 ? O2B AGS 902 7 1 HETATM 8 O O3B AGS . . . BA 18 203.846 208.117 285.052 1 285.78 ? O3B AGS 902 7 1 HETATM 9 P PA AGS . . . BA 18 200.962 209.685 282.877 1 285.78 ? PA AGS 902 7 1 HETATM 10 O O1A AGS . . . BA 18 200.198 210.086 284.077 1 285.78 -1 O1A AGS 902 7 1 HETATM 11 O O2A AGS . . . BA 18 201.034 210.748 281.778 1 285.78 ? O2A AGS 902 7 1 HETATM 12 O O3A AGS . . . BA 18 202.449 209.31 283.255 1 285.78 ? O3A AGS 902 7 1 HETATM 13 O O5' AGS . . . BA 18 200.353 208.333 282.336 1 285.78 ? O5' AGS 902 7 1 HETATM 14 C C5' AGS . . . BA 18 199.168 207.76 282.915 1 285.78 ? C5' AGS 902 7 1 HETATM 15 C C4' AGS . . . BA 18 197.962 208.361 282.24 1 285.78 ? C4' AGS 902 7 1 HETATM 16 O O4' AGS . . . BA 18 196.788 207.612 282.609 1 285.78 ? O4' AGS 902 7 1 HETATM 17 C C3' AGS . . . BA 18 197.649 209.798 282.636 1 285.78 ? C3' AGS 902 7 1 HETATM 18 O O3' AGS . . . BA 18 196.924 210.459 281.607 1 285.78 ? O3' AGS 902 7 1 HETATM 19 C C2' AGS . . . BA 18 196.807 209.613 283.899 1 285.78 ? C2' AGS 902 7 1 HETATM 20 O O2' AGS . . . BA 18 195.885 210.68 284.083 1 285.78 ? O2' AGS 902 7 1 HETATM 21 C C1' AGS . . . BA 18 196.058 208.308 283.603 1 285.78 ? C1' AGS 902 7 1 HETATM 22 N N9 AGS . . . BA 18 195.918 207.434 284.762 1 285.78 ? N9 AGS 902 7 1 HETATM 23 C C8 AGS . . . BA 18 196.571 206.25 284.99 1 285.78 ? C8 AGS 902 7 1 HETATM 24 N N7 AGS . . . BA 18 196.25 205.676 286.123 1 285.78 ? N7 AGS 902 7 1 HETATM 25 C C5 AGS . . . BA 18 195.323 206.542 286.683 1 285.78 ? C5 AGS 902 7 1 HETATM 26 C C6 AGS . . . BA 18 194.6 206.509 287.889 1 285.78 ? C6 AGS 902 7 1 HETATM 27 N N6 AGS . . . BA 18 194.698 205.526 288.787 1 285.78 ? N6 AGS 902 7 1 HETATM 28 N N1 AGS . . . BA 18 193.758 207.534 288.143 1 285.78 ? N1 AGS 902 7 1 HETATM 29 C C2 AGS . . . BA 18 193.655 208.52 287.248 1 285.78 ? C2 AGS 902 7 1 HETATM 30 N N3 AGS . . . BA 18 194.286 208.661 286.081 1 285.78 ? N3 AGS 902 7 1 HETATM 31 C C4 AGS . . . BA 18 195.111 207.632 285.854 1 285.78 ? C4 AGS 902 7 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 196 _model_server_stats.query_time_ms 581 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 31 #