data_6MDN # _model_server_result.job_id R6yBeKukf9-uwJwmnS4oNw _model_server_result.datetime_utc '2024-12-26 20:41:37' _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 6mdn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":801}' # _entry.id 6MDN # _exptl.entry_id 6MDN _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 507.181 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 9 _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 6MDN _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MDN _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details undecameric _pdbx_struct_assembly.oligomeric_count 11 _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 _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 ? 6 L N N ? 6 N N N ? 6 O N N ? 6 P N N ? 6 Q N N ? 6 R N N ? 6 S N N ? 6 T N N ? 6 V N N # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 O1G ATP doub 114 n n PG O2G ATP sing 115 n n PG O3G ATP sing 116 n n PG O3B ATP sing 117 n n O2G HOG2 ATP sing 118 n n O3G HOG3 ATP sing 119 n n PB O1B ATP doub 120 n n PB O2B ATP sing 121 n n PB O3B ATP sing 122 n n PB O3A ATP sing 123 n n O2B HOB2 ATP sing 124 n n PA O1A ATP doub 125 n n PA O2A ATP sing 126 n n PA O3A ATP sing 127 n n PA O5' ATP sing 128 n n O2A HOA2 ATP sing 129 n n O5' C5' ATP sing 130 n n C5' C4' ATP sing 131 n n C5' "H5'1" ATP sing 132 n n C5' "H5'2" ATP sing 133 n n C4' O4' ATP sing 134 n n C4' C3' ATP sing 135 n n C4' H4' ATP sing 136 n n O4' C1' ATP sing 137 n n C3' O3' ATP sing 138 n n C3' C2' ATP sing 139 n n C3' H3' ATP sing 140 n n O3' HO3' ATP sing 141 n n C2' O2' ATP sing 142 n n C2' C1' ATP sing 143 n n C2' H2' ATP sing 144 n n O2' HO2' ATP sing 145 n n C1' N9 ATP sing 146 n n C1' H1' ATP sing 147 n n N9 C8 ATP sing 148 n y N9 C4 ATP sing 149 n y C8 N7 ATP doub 150 n y C8 H8 ATP sing 151 n n N7 C5 ATP sing 152 n y C5 C6 ATP sing 153 n y C5 C4 ATP doub 154 n y C6 N6 ATP sing 155 n n C6 N1 ATP doub 156 n y N6 HN61 ATP sing 157 n n N6 HN62 ATP sing 158 n n N1 C2 ATP sing 159 n y C2 N3 ATP doub 160 n y C2 H2 ATP sing 161 n n N3 C4 ATP sing 162 n y # _atom_sites.entry_id 6MDN _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 L 6 ATP A 1 801 9 ATP ATP . M 7 ADP A 1 802 11 ADP ADP . N 6 ATP B 1 801 1 ATP ATP . O 6 ATP B 1 802 3 ATP ATP . P 6 ATP C 1 801 2 ATP ATP . Q 6 ATP C 1 802 4 ATP ATP . R 6 ATP D 1 801 5 ATP ATP . S 6 ATP D 1 802 6 ATP ATP . T 6 ATP E 1 801 7 ATP ATP . U 7 ADP E 1 802 10 ADP ADP . V 6 ATP F 1 801 8 ATP ATP . # 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 ATP . . . V 6 154.555 122.635 209.713 1 83.54 ? PG ATP 801 F 1 HETATM 2 O O1G ATP . . . V 6 153.845 123.458 208.669 1 83.54 ? O1G ATP 801 F 1 HETATM 3 O O2G ATP . . . V 6 153.683 121.71 210.524 1 83.54 ? O2G ATP 801 F 1 HETATM 4 O O3G ATP . . . V 6 155.641 123.307 210.513 1 83.54 ? O3G ATP 801 F 1 HETATM 5 P PB ATP . . . V 6 154.636 120.238 208.627 1 83.54 ? PB ATP 801 F 1 HETATM 6 O O1B ATP . . . V 6 153.224 120.487 208.181 1 83.54 ? O1B ATP 801 F 1 HETATM 7 O O2B ATP . . . V 6 154.948 119.432 209.846 1 83.54 ? O2B ATP 801 F 1 HETATM 8 O O3B ATP . . . V 6 155.4 121.607 208.858 1 83.54 ? O3B ATP 801 F 1 HETATM 9 P PA ATP . . . V 6 154.893 118.666 206.409 1 83.54 ? PA ATP 801 F 1 HETATM 10 O O1A ATP . . . V 6 154.62 119.328 205.086 1 83.54 ? O1A ATP 801 F 1 HETATM 11 O O2A ATP . . . V 6 153.844 118.054 207.295 1 83.54 ? O2A ATP 801 F 1 HETATM 12 O O3A ATP . . . V 6 155.523 119.721 207.41 1 83.54 ? O3A ATP 801 F 1 HETATM 13 O O5' ATP . . . V 6 156.226 117.779 206.406 1 83.54 ? O5' ATP 801 F 1 HETATM 14 C C5' ATP . . . V 6 156.269 116.776 207.397 1 83.54 ? C5' ATP 801 F 1 HETATM 15 C C4' ATP . . . V 6 157.464 115.847 207.309 1 83.54 ? C4' ATP 801 F 1 HETATM 16 O O4' ATP . . . V 6 157.411 114.902 208.373 1 83.54 ? O4' ATP 801 F 1 HETATM 17 C C3' ATP . . . V 6 157.484 115.041 206.018 1 83.54 ? C3' ATP 801 F 1 HETATM 18 O O3' ATP . . . V 6 158.564 115.426 205.175 1 83.54 ? O3' ATP 801 F 1 HETATM 19 C C2' ATP . . . V 6 157.669 113.589 206.419 1 83.54 ? C2' ATP 801 F 1 HETATM 20 O O2' ATP . . . V 6 158.793 113.006 205.775 1 83.54 ? O2' ATP 801 F 1 HETATM 21 C C1' ATP . . . V 6 157.94 113.67 207.895 1 83.54 ? C1' ATP 801 F 1 HETATM 22 N N9 ATP . . . V 6 157.451 112.503 208.637 1 83.54 ? N9 ATP 801 F 1 HETATM 23 C C8 ATP . . . V 6 157.785 111.24 208.372 1 83.54 ? C8 ATP 801 F 1 HETATM 24 N N7 ATP . . . V 6 157.221 110.414 209.277 1 83.54 ? N7 ATP 801 F 1 HETATM 25 C C5 ATP . . . V 6 156.523 111.162 210.13 1 83.54 ? C5 ATP 801 F 1 HETATM 26 C C6 ATP . . . V 6 155.687 110.912 211.303 1 83.54 ? C6 ATP 801 F 1 HETATM 27 N N6 ATP . . . V 6 155.5 109.65 211.716 1 83.54 ? N6 ATP 801 F 1 HETATM 28 N N1 ATP . . . V 6 155.138 111.964 211.928 1 83.54 ? N1 ATP 801 F 1 HETATM 29 C C2 ATP . . . V 6 155.342 113.216 211.491 1 83.54 ? C2 ATP 801 F 1 HETATM 30 N N3 ATP . . . V 6 156.094 113.51 210.424 1 83.54 ? N3 ATP 801 F 1 HETATM 31 C C4 ATP . . . V 6 156.698 112.543 209.716 1 83.54 ? C4 ATP 801 F 1 HETATM 32 H "H5'1" ATP . . . V 6 156.276 117.293 208.354 1 83.54 ? "H5'1" ATP 801 F 1 HETATM 33 H "H5'2" ATP . . . V 6 155.368 116.174 207.331 1 83.54 ? "H5'2" ATP 801 F 1 HETATM 34 H H4' ATP . . . V 6 158.378 116.447 207.373 1 83.54 ? H4' ATP 801 F 1 HETATM 35 H H3' ATP . . . V 6 156.526 115.157 205.502 1 83.54 ? H3' ATP 801 F 1 HETATM 36 H HO3' ATP . . . V 6 158.304 115.279 204.257 1 83.54 ? HO3' ATP 801 F 1 HETATM 37 H H2' ATP . . . V 6 156.763 113.002 206.24 1 83.54 ? H2' ATP 801 F 1 HETATM 38 H HO2' ATP . . . V 6 158.595 112.95 204.84 1 83.54 ? HO2' ATP 801 F 1 HETATM 39 H H1' ATP . . . V 6 159.025 113.681 208.001 1 83.54 ? H1' ATP 801 F 1 HETATM 40 H H8 ATP . . . V 6 158.415 110.936 207.551 1 83.54 ? H8 ATP 801 F 1 HETATM 41 H HN61 ATP . . . V 6 154.932 109.452 212.524 1 83.54 ? HN61 ATP 801 F 1 HETATM 42 H HN62 ATP . . . V 6 155.938 108.913 211.201 1 83.54 ? HN62 ATP 801 F 1 HETATM 43 H H2 ATP . . . V 6 154.879 114.03 212.027 1 83.54 ? H2 ATP 801 F 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 95 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #