data_6Q0J # _model_server_result.job_id QifQjMg5mcxtFIEWGE4jcg _model_server_result.datetime_utc '2024-11-12 22:58:55' _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 6q0j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":403}' # _entry.id 6Q0J # _exptl.entry_id 6Q0J _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.247 _entity.id 6 _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 ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 6Q0J _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 6Q0J _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 _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 ? 6 I N N ? 6 L 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 covale ? covale1 A C ALA 755 A ALA 728 1_555 A N SEP 756 A SEP 729 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.336 ? covale ? covale2 A C SEP 756 A SEP 729 1_555 A N GLU 757 A GLU 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale3 B C ALA 755 B ALA 728 1_555 B N SEP 756 B SEP 729 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale4 B C SEP 756 B SEP 729 1_555 B N GLU 757 B GLU 730 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.384 ? metalc ? metalc1 G MG MG . C MG 401 1_555 H O03 LCJ . C LCJ 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.916 ? metalc ? metalc2 G MG MG . C MG 401 1_555 I O3B AGS . C AGS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc3 G MG MG . C MG 401 1_555 I O3A AGS . C AGS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? metalc ? metalc4 J MG MG . D MG 401 1_555 L O1B AGS . D AGS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.263 ? metalc ? metalc5 J MG MG . D MG 401 1_555 L O3A AGS . D AGS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.841 ? metalc ? metalc6 J MG MG . D MG 401 1_555 L O1A AGS . D AGS 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.229 ? # _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 6Q0J _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 4 MG C 1 401 902 MG MG . H 5 LCJ C 1 402 1101 LCJ GDC . I 6 AGS C 1 403 1201 AGS AGS . J 4 MG D 1 401 902 MG MG . K 5 LCJ D 1 402 1101 LCJ GDC . L 6 AGS D 1 403 1201 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 . . . L 6 136.978 181.295 132.106 1 20 ? PG AGS 403 D 1 HETATM 2 S S1G AGS . . . L 6 137.636 180.025 133.609 1 20 ? S1G AGS 403 D 1 HETATM 3 O O2G AGS . . . L 6 136.086 180.465 131.055 1 20 ? O2G AGS 403 D 1 HETATM 4 O O3G AGS . . . L 6 138.145 181.88 131.409 1 20 ? O3G AGS 403 D 1 HETATM 5 P PB AGS . . . L 6 134.906 183.162 131.905 1 20 ? PB AGS 403 D 1 HETATM 6 O O1B AGS . . . L 6 135.087 184.66 131.967 1 20 ? O1B AGS 403 D 1 HETATM 7 O O2B AGS . . . L 6 134.816 182.468 130.567 1 20 ? O2B AGS 403 D 1 HETATM 8 O O3B AGS . . . L 6 136.092 182.475 132.75 1 20 ? O3B AGS 403 D 1 HETATM 9 P PA AGS . . . L 6 132.338 183.781 132.822 1 20 ? PA AGS 403 D 1 HETATM 10 O O1A AGS . . . L 6 132.848 185.162 133.158 1 20 ? O1A AGS 403 D 1 HETATM 11 O O2A AGS . . . L 6 131.269 183.144 133.676 1 20 ? O2A AGS 403 D 1 HETATM 12 O O3A AGS . . . L 6 133.596 182.779 132.76 1 20 ? O3A AGS 403 D 1 HETATM 13 O O5' AGS . . . L 6 131.822 183.796 131.297 1 20 ? O5' AGS 403 D 1 HETATM 14 C C5' AGS . . . L 6 131.048 182.715 130.781 1 20 ? C5' AGS 403 D 1 HETATM 15 C C4' AGS . . . L 6 129.86 183.243 129.983 1 20 ? C4' AGS 403 D 1 HETATM 16 O O4' AGS . . . L 6 128.67 183.166 130.775 1 20 ? O4' AGS 403 D 1 HETATM 17 C C3' AGS . . . L 6 130.047 184.695 129.565 1 20 ? C3' AGS 403 D 1 HETATM 18 O O3' AGS . . . L 6 130.165 184.776 128.138 1 20 ? O3' AGS 403 D 1 HETATM 19 C C2' AGS . . . L 6 128.836 185.448 130.1 1 20 ? C2' AGS 403 D 1 HETATM 20 O O2' AGS . . . L 6 128.091 186.108 129.068 1 20 ? O2' AGS 403 D 1 HETATM 21 C C1' AGS . . . L 6 127.961 184.408 130.783 1 20 ? C1' AGS 403 D 1 HETATM 22 N N9 AGS . . . L 6 127.68 184.823 132.18 1 20 ? N9 AGS 403 D 1 HETATM 23 C C8 AGS . . . L 6 128.388 184.464 133.267 1 20 ? C8 AGS 403 D 1 HETATM 24 N N7 AGS . . . L 6 127.869 185.014 134.395 1 20 ? N7 AGS 403 D 1 HETATM 25 C C5 AGS . . . L 6 126.8 185.746 134.031 1 20 ? C5 AGS 403 D 1 HETATM 26 C C6 AGS . . . L 6 125.795 186.588 134.724 1 20 ? C6 AGS 403 D 1 HETATM 27 N N6 AGS . . . L 6 125.833 186.761 136.067 1 20 ? N6 AGS 403 D 1 HETATM 28 N N1 AGS . . . L 6 124.841 187.178 133.97 1 20 ? N1 AGS 403 D 1 HETATM 29 C C2 AGS . . . L 6 124.793 187.014 132.635 1 20 ? C2 AGS 403 D 1 HETATM 30 N N3 AGS . . . L 6 125.67 186.266 131.942 1 20 ? N3 AGS 403 D 1 HETATM 31 C C4 AGS . . . L 6 126.679 185.617 132.571 1 20 ? C4 AGS 403 D 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 31 #