data_7L9P # _model_server_result.job_id hcyy5Q7PpKynQlYm-mhFtw _model_server_result.datetime_utc '2024-11-04 20:11:44' _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 7l9p # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":901}' # _entry.id 7L9P # _exptl.entry_id 7L9P _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.247 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER' _entity.pdbx_number_of_molecules 5 _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 7L9P _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7L9P _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 dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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 _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 ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q 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 7L9P _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 M 4 AGS A 1 901 901 AGS AGS . N 4 AGS B 1 901 901 AGS AGS . O 4 AGS C 1 901 901 AGS AGS . P 4 AGS D 1 901 901 AGS AGS . Q 4 AGS E 1 901 901 AGS AGS . # 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 . . . M 4 123.581 149.981 99.496 1 72.11 ? PG AGS 901 A 1 HETATM 2 S S1G AGS . . . M 4 125.063 149.222 98.534 1 72.11 ? S1G AGS 901 A 1 HETATM 3 O O2G AGS . . . M 4 124.137 150.908 100.736 1 72.11 ? O2G AGS 901 A 1 HETATM 4 O O3G AGS . . . M 4 122.621 148.745 100.101 1 72.11 ? O3G AGS 901 A 1 HETATM 5 P PB AGS . . . M 4 122.748 152.595 98.58 1 72.11 ? PB AGS 901 A 1 HETATM 6 O O1B AGS . . . M 4 123.836 152.988 99.498 1 72.11 ? O1B AGS 901 A 1 HETATM 7 O O2B AGS . . . M 4 121.485 153.113 99.093 1 72.11 ? O2B AGS 901 A 1 HETATM 8 O O3B AGS . . . M 4 122.695 150.952 98.474 1 72.11 ? O3B AGS 901 A 1 HETATM 9 P PA AGS . . . M 4 123.428 154.805 96.813 1 72.11 ? PA AGS 901 A 1 HETATM 10 O O1A AGS . . . M 4 124.066 155.368 98.047 1 72.11 ? O1A AGS 901 A 1 HETATM 11 O O2A AGS . . . M 4 122.168 155.61 96.484 1 72.11 ? O2A AGS 901 A 1 HETATM 12 O O3A AGS . . . M 4 123.01 153.223 97.074 1 72.11 ? O3A AGS 901 A 1 HETATM 13 O O5' AGS . . . M 4 124.508 154.908 95.528 1 72.11 ? O5' AGS 901 A 1 HETATM 14 C C5' AGS . . . M 4 123.989 154.809 94.199 1 72.11 ? C5' AGS 901 A 1 HETATM 15 C C4' AGS . . . M 4 124.301 156.049 93.456 1 72.11 ? C4' AGS 901 A 1 HETATM 16 O O4' AGS . . . M 4 123.467 156.079 92.061 1 72.11 ? O4' AGS 901 A 1 HETATM 17 C C3' AGS . . . M 4 123.92 157.102 94.152 1 72.11 ? C3' AGS 901 A 1 HETATM 18 O O3' AGS . . . M 4 124.777 158.283 93.824 1 72.11 ? O3' AGS 901 A 1 HETATM 19 C C2' AGS . . . M 4 122.469 157.361 93.694 1 72.11 ? C2' AGS 901 A 1 HETATM 20 O O2' AGS . . . M 4 122.204 158.665 93.767 1 72.11 ? O2' AGS 901 A 1 HETATM 21 C C1' AGS . . . M 4 122.435 156.884 92.217 1 72.11 ? C1' AGS 901 A 1 HETATM 22 N N9 AGS . . . M 4 121.178 156.139 91.935 1 72.11 ? N9 AGS 901 A 1 HETATM 23 C C8 AGS . . . M 4 121.197 154.899 92.411 1 72.11 ? C8 AGS 901 A 1 HETATM 24 N N7 AGS . . . M 4 120.032 154.344 92.102 1 72.11 ? N7 AGS 901 A 1 HETATM 25 C C5 AGS . . . M 4 119.315 155.225 91.441 1 72.11 ? C5 AGS 901 A 1 HETATM 26 C C6 AGS . . . M 4 118.048 155.16 90.895 1 72.11 ? C6 AGS 901 A 1 HETATM 27 N N6 AGS . . . M 4 116.965 154.19 90.774 1 72.11 ? N6 AGS 901 A 1 HETATM 28 N N1 AGS . . . M 4 117.532 156.22 90.26 1 72.11 ? N1 AGS 901 A 1 HETATM 29 C C2 AGS . . . M 4 118.258 157.358 90.152 1 72.11 ? C2 AGS 901 A 1 HETATM 30 N N3 AGS . . . M 4 119.508 157.429 90.691 1 72.11 ? N3 AGS 901 A 1 HETATM 31 C C4 AGS . . . M 4 120.029 156.353 91.336 1 72.11 ? C4 AGS 901 A 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 58 _model_server_stats.query_time_ms 268 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #