data_5FTN # _model_server_result.job_id od4DVllU_PgwV9RGdJvbjg _model_server_result.datetime_utc '2024-11-08 04:33:37' _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 5ftn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"W","auth_seq_id":901}' # _entry.id 5FTN # _exptl.entry_id 5FTN _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 12 _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 5FTN _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5FTN _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 PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA _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 H N N ? 2 K N N ? 2 L N N ? 2 O N N ? 2 P N N ? 2 S N N ? 2 T N N ? 2 W N N ? 2 X N N ? 2 AA N N ? 2 BA N N # _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 1 n n PG O2G AGS sing 2 n n PG O3G AGS sing 3 n n PG O3B AGS sing 4 n n PB O1B AGS doub 5 n n PB O2B AGS sing 6 n n PB O3B AGS sing 7 n n PB O3A AGS sing 8 n n PA O1A AGS doub 9 n n PA O2A AGS sing 10 n n PA O3A AGS sing 11 n n PA O5' AGS sing 12 n n O5' C5' AGS sing 13 n n C5' C4' AGS sing 14 n n C4' O4' AGS sing 15 n n C4' C3' AGS sing 16 n n O4' C1' AGS sing 17 n n C3' O3' AGS sing 18 n n C3' C2' AGS sing 19 n n C2' O2' AGS sing 20 n n C2' C1' AGS sing 21 n n C1' N9 AGS sing 22 n n N9 C8 AGS sing 23 n y N9 C4 AGS sing 24 n y C8 N7 AGS doub 25 n y N7 C5 AGS sing 26 n y C5 C6 AGS sing 27 n y C5 C4 AGS doub 28 n y C6 N6 AGS sing 29 n n C6 N1 AGS doub 30 n y N1 C2 AGS sing 31 n y C2 N3 AGS doub 32 n y N3 C4 AGS sing 33 n y O2G HOG2 AGS sing 34 n n O3G H21 AGS sing 35 n n O2B HOB2 AGS sing 36 n n O2A HOA2 AGS sing 37 n n C5' "H5'1" AGS sing 38 n n C5' "H5'2" AGS sing 39 n n C4' H4' AGS sing 40 n n C3' H3' AGS sing 41 n n O3' HO3' AGS sing 42 n n C2' H2' AGS sing 43 n n O2' HO2' AGS sing 44 n n C1' H1' AGS sing 45 n n C8 H8 AGS sing 46 n n N6 HN61 AGS sing 47 n n N6 HN62 AGS sing 48 n n C2 H2 AGS sing 49 n n # _atom_sites.entry_id 5FTN _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 2 AGS A 1 902 902 AGS AGS . I 3 MG A 1 903 903 MG MG . J 3 MG A 1 904 904 MG MG . K 2 AGS B 1 901 901 AGS AGS . L 2 AGS B 1 902 902 AGS AGS . M 3 MG B 1 903 903 MG MG . N 3 MG B 1 904 904 MG MG . O 2 AGS C 1 901 901 AGS AGS . P 2 AGS C 1 902 902 AGS AGS . Q 3 MG C 1 903 903 MG MG . R 3 MG C 1 904 904 MG MG . S 2 AGS D 1 901 901 AGS AGS . T 2 AGS D 1 902 902 AGS AGS . U 3 MG D 1 903 903 MG MG . V 3 MG D 1 904 904 MG MG . W 2 AGS E 1 901 901 AGS AGS . X 2 AGS E 1 902 902 AGS AGS . Y 3 MG E 1 903 903 MG MG . Z 3 MG E 1 904 904 MG MG . AA 2 AGS F 1 901 901 AGS AGS . BA 2 AGS F 1 902 902 AGS AGS . CA 3 MG F 1 903 903 MG MG . DA 3 MG F 1 904 904 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 . . . W 2 95.884 62.843 86.817 1 7.31 ? PG AGS 901 E 1 HETATM 2 S S1G AGS . . . W 2 94.31 64.131 87.21 1 21.26 ? S1G AGS 901 E 1 HETATM 3 O O2G AGS . . . W 2 97.243 63.467 87.405 1 7.12 ? O2G AGS 901 E 1 HETATM 4 O O3G AGS . . . W 2 96.025 62.674 85.357 1 8.18 ? O3G AGS 901 E 1 HETATM 5 P PB AGS . . . W 2 94.829 60.228 86.749 1 6.87 ? PB AGS 901 E 1 HETATM 6 O O1B AGS . . . W 2 93.866 60.814 85.746 1 7.25 ? O1B AGS 901 E 1 HETATM 7 O O2B AGS . . . W 2 94.327 59.255 87.782 1 2.85 ? O2B AGS 901 E 1 HETATM 8 O O3B AGS . . . W 2 95.58 61.425 87.518 1 3.75 ? O3B AGS 901 E 1 HETATM 9 P PA AGS . . . W 2 96.04 57.956 85.631 1 5.84 ? PA AGS 901 E 1 HETATM 10 O O1A AGS . . . W 2 95.686 57.753 84.18 1 1.35 ? O1A AGS 901 E 1 HETATM 11 O O2A AGS . . . W 2 95.242 57.257 86.701 1 3.3 ? O2A AGS 901 E 1 HETATM 12 O O3A AGS . . . W 2 96.035 59.533 85.94 1 4.63 ? O3A AGS 901 E 1 HETATM 13 O O5' AGS . . . W 2 97.589 57.57 85.822 1 1.9 ? O5' AGS 901 E 1 HETATM 14 C C5' AGS . . . W 2 97.994 56.743 86.908 1 2.35 ? C5' AGS 901 E 1 HETATM 15 C C4' AGS . . . W 2 98.88 55.614 86.401 1 1.71 ? C4' AGS 901 E 1 HETATM 16 O O4' AGS . . . W 2 99.078 54.669 87.453 1 2.58 ? O4' AGS 901 E 1 HETATM 17 C C3' AGS . . . W 2 98.231 54.871 85.247 1 2.68 ? C3' AGS 901 E 1 HETATM 18 O O3' AGS . . . W 2 99.115 54.842 84.125 1 6.75 ? O3' AGS 901 E 1 HETATM 19 C C2' AGS . . . W 2 97.989 53.46 85.735 1 3.33 ? C2' AGS 901 E 1 HETATM 20 O O2' AGS . . . W 2 98.81 52.553 84.999 1 9.08 ? O2' AGS 901 E 1 HETATM 21 C C1' AGS . . . W 2 98.398 53.443 87.195 1 2.12 ? C1' AGS 901 E 1 HETATM 22 N N9 AGS . . . W 2 97.183 53.362 88.04 1 0.54 ? N9 AGS 901 E 1 HETATM 23 C C8 AGS . . . W 2 96.574 54.401 88.635 1 1.66 ? C8 AGS 901 E 1 HETATM 24 N N7 AGS . . . W 2 95.486 53.996 89.336 1 0.75 ? N7 AGS 901 E 1 HETATM 25 C C5 AGS . . . W 2 95.388 52.664 89.193 1 0 ? C5 AGS 901 E 1 HETATM 26 C C6 AGS . . . W 2 94.47 51.606 89.67 1 1.36 ? C6 AGS 901 E 1 HETATM 27 N N6 AGS . . . W 2 93.414 51.902 90.462 1 3.39 ? N6 AGS 901 E 1 HETATM 28 N N1 AGS . . . W 2 94.722 50.338 89.288 1 2.74 ? N1 AGS 901 E 1 HETATM 29 C C2 AGS . . . W 2 95.768 50.032 88.502 1 7.17 ? C2 AGS 901 E 1 HETATM 30 N N3 AGS . . . W 2 96.641 50.939 88.032 1 3.5 ? N3 AGS 901 E 1 HETATM 31 C C4 AGS . . . W 2 96.508 52.25 88.337 1 0.67 ? C4 AGS 901 E 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 62 _model_server_stats.query_time_ms 299 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #