data_5FTM # _model_server_result.job_id 1mLNS29VElOJhScHvLqOXw _model_server_result.datetime_utc '2024-11-22 09:52:35' _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 5ftm # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":901}' # _entry.id 5FTM # _exptl.entry_id 5FTM _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.247 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 6 _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 5FTM _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FTM _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 hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 J N N ? 2 M N N ? 2 P N N ? 2 S N N ? 2 V 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 OG1 THR 525 A THR 525 1_555 I MG MG . A MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc2 G O3B AGS . A AGS 901 1_555 I MG MG . A MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc3 G O1A AGS . A AGS 901 1_555 I MG MG . A MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.561 ? metalc ? metalc4 B OG1 THR 525 B THR 525 1_555 L MG MG . B MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc5 J O1A AGS . B AGS 901 1_555 L MG MG . B MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc6 J O3B AGS . B AGS 901 1_555 L MG MG . B MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc7 C OG1 THR 525 C THR 525 1_555 O MG MG . C MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc8 M O1A AGS . C AGS 901 1_555 O MG MG . C MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.562 ? metalc ? metalc9 M O3B AGS . C AGS 901 1_555 O MG MG . C MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc10 D OG1 THR 525 D THR 525 1_555 R MG MG . D MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc11 P O3B AGS . D AGS 901 1_555 R MG MG . D MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.473 ? metalc ? metalc12 P O1A AGS . D AGS 901 1_555 R MG MG . D MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.56 ? metalc ? metalc13 E OG1 THR 525 E THR 525 1_555 U MG MG . E MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc14 S O1A AGS . E AGS 901 1_555 U MG MG . E MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.561 ? metalc ? metalc15 S O3B AGS . E AGS 901 1_555 U MG MG . E MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? metalc ? metalc16 F OG1 THR 525 F THR 525 1_555 X MG MG . F MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? metalc ? metalc17 V O1A AGS . F AGS 901 1_555 X MG MG . F MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.561 ? metalc ? metalc18 V O3B AGS . F AGS 901 1_555 X MG MG . F MG 903 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.474 ? # _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 5FTM _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 G 2 AGS A 1 901 901 AGS AGS . H 3 ADP A 1 902 902 ADP ADP . I 4 MG A 1 903 903 MG MG . J 2 AGS B 1 901 901 AGS AGS . K 3 ADP B 1 902 902 ADP ADP . L 4 MG B 1 903 903 MG MG . M 2 AGS C 1 901 901 AGS AGS . N 3 ADP C 1 902 902 ADP ADP . O 4 MG C 1 903 903 MG MG . P 2 AGS D 1 901 901 AGS AGS . Q 3 ADP D 1 902 902 ADP ADP . R 4 MG D 1 903 903 MG MG . S 2 AGS E 1 901 901 AGS AGS . T 3 ADP E 1 902 902 ADP ADP . U 4 MG E 1 903 903 MG MG . V 2 AGS F 1 901 901 AGS AGS . W 3 ADP F 1 902 902 ADP ADP . X 4 MG F 1 903 903 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 PG AGS . . . G 2 64.586 106.179 124.071 1 60.52 ? PG AGS 901 A 1 HETATM 2 S S1G AGS . . . G 2 66.455 105.95 124.938 1 49.91 ? S1G AGS 901 A 1 HETATM 3 O O2G AGS . . . G 2 63.438 105.993 125.181 1 60.37 ? O2G AGS 901 A 1 HETATM 4 O O3G AGS . . . G 2 64.399 105.163 123.015 1 47.6 ? O3G AGS 901 A 1 HETATM 5 P PB AGS . . . G 2 64.668 108.97 124.314 1 41.87 ? PB AGS 901 A 1 HETATM 6 O O1B AGS . . . G 2 65.499 109.958 123.537 1 39.12 ? O1B AGS 901 A 1 HETATM 7 O O2B AGS . . . G 2 65.098 108.556 125.697 1 42.96 ? O2B AGS 901 A 1 HETATM 8 O O3B AGS . . . G 2 64.49 107.646 123.418 1 46.28 ? O3B AGS 901 A 1 HETATM 9 P PA AGS . . . G 2 62.244 109.601 123.079 1 44.61 ? PA AGS 901 A 1 HETATM 10 O O1A AGS . . . G 2 63.05 109.111 121.904 1 46.14 ? O1A AGS 901 A 1 HETATM 11 O O2A AGS . . . G 2 61.599 110.961 123.025 1 32.86 ? O2A AGS 901 A 1 HETATM 12 O O3A AGS . . . G 2 63.166 109.535 124.395 1 41.38 ? O3A AGS 901 A 1 HETATM 13 O O5' AGS . . . G 2 61.096 108.521 123.392 1 47.07 ? O5' AGS 901 A 1 HETATM 14 C C5' AGS . . . G 2 60.07 108.27 122.436 1 42.34 ? C5' AGS 901 A 1 HETATM 15 C C4' AGS . . . G 2 58.829 107.721 123.129 1 36.74 ? C4' AGS 901 A 1 HETATM 16 O O4' AGS . . . G 2 58.866 108.015 124.527 1 36.44 ? O4' AGS 901 A 1 HETATM 17 C C3' AGS . . . G 2 57.565 108.345 122.562 1 35.23 ? C3' AGS 901 A 1 HETATM 18 O O3' AGS . . . G 2 56.79 107.353 121.885 1 34.98 ? O3' AGS 901 A 1 HETATM 19 C C2' AGS . . . G 2 56.794 108.89 123.747 1 38.23 ? C2' AGS 901 A 1 HETATM 20 O O2' AGS . . . G 2 55.547 108.204 123.875 1 45.15 ? O2' AGS 901 A 1 HETATM 21 C C1' AGS . . . G 2 57.65 108.622 124.971 1 40.59 ? C1' AGS 901 A 1 HETATM 22 N N9 AGS . . . G 2 57.944 109.9 125.666 1 35.44 ? N9 AGS 901 A 1 HETATM 23 C C8 AGS . . . G 2 59.011 110.138 126.448 1 33.85 ? C8 AGS 901 A 1 HETATM 24 N N7 AGS . . . G 2 58.988 111.403 126.935 1 31.3 ? N7 AGS 901 A 1 HETATM 25 C C5 AGS . . . G 2 57.881 111.999 126.46 1 31.39 ? C5 AGS 901 A 1 HETATM 26 C C6 AGS . . . G 2 57.251 113.333 126.583 1 37.64 ? C6 AGS 901 A 1 HETATM 27 N N6 AGS . . . G 2 57.819 114.306 127.334 1 34.96 ? N6 AGS 901 A 1 HETATM 28 N N1 AGS . . . G 2 56.094 113.546 125.922 1 44.18 ? N1 AGS 901 A 1 HETATM 29 C C2 AGS . . . G 2 55.522 112.587 125.174 1 46.45 ? C2 AGS 901 A 1 HETATM 30 N N3 AGS . . . G 2 56.038 111.355 125.018 1 36.17 ? N3 AGS 901 A 1 HETATM 31 C C4 AGS . . . G 2 57.196 111.004 125.624 1 33.27 ? C4 AGS 901 A 1 # _model_server_stats.io_time_ms 192 _model_server_stats.parse_time_ms 178 _model_server_stats.create_model_time_ms 127 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #