data_8CGY # _model_server_result.job_id HwoVH-Ay5Q7jwg15cwl5Fg _model_server_result.datetime_utc '2024-10-10 18:26:36' _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 8cgy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 8CGY # _exptl.entry_id 8CGY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _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 8CGY _cell.length_a 207.1 _cell.length_b 207.1 _cell.length_c 92.5 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CGY _symmetry.cell_setting ? _symmetry.Int_Tables_number 90 _symmetry.space_group_name_Hall 'P 4ab 2ab' _symmetry.space_group_name_H-M 'P 4 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_545 -x,-y-1,z -1 0 0 0 -1 0 0 0 1 0 -207.1 0 3 'crystal symmetry operation' 3_445 -y-1/2,x-1/2,z 0 -1 0 1 0 0 0 0 1 -103.55 -103.55 0 4 'crystal symmetry operation' 4_545 y+1/2,-x-1/2,z 0 1 0 -1 0 0 0 0 1 103.55 -103.55 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F 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 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 8CGY _atom_sites.fract_transf_matrix[1][1] 0.004829 _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] 0.004829 _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] 0.010811 _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 C 2 ATP A 1 601 501 ATP ATP . D 3 GDP A 1 602 502 GDP GDP . E 4 PO4 A 1 603 2 PO4 PO4 . F 2 ATP B 1 601 501 ATP ATP . G 3 GDP B 1 602 502 GDP GDP . H 4 PO4 B 1 603 1 PO4 PO4 . I 5 HOH A 1 701 1 HOH HOH . I 5 HOH A 2 702 2 HOH HOH . # 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 . A . C 2 -30.517 -55.28 39.357 0.47 67.76 ? PG ATP 601 A 1 HETATM 2 P PG ATP . B . C 2 -33.151 -55.776 38.622 0.53 37.83 ? PG ATP 601 A 1 HETATM 3 O O1G ATP . A . C 2 -29.133 -55.75 38.937 0.47 67.34 ? O1G ATP 601 A 1 HETATM 4 O O1G ATP . B . C 2 -32.601 -55.15 37.351 0.53 48.36 ? O1G ATP 601 A 1 HETATM 5 O O2G ATP . A . C 2 -31.471 -56.485 39.39 0.47 52.38 -1 O2G ATP 601 A 1 HETATM 6 O O2G ATP . B . C 2 -34.684 -55.85 38.532 0.53 48.38 -1 O2G ATP 601 A 1 HETATM 7 O O3G ATP . A . C 2 -30.384 -54.687 40.806 0.47 64.61 -1 O3G ATP 601 A 1 HETATM 8 O O3G ATP . B . C 2 -32.628 -57.249 38.797 0.53 39.52 -1 O3G ATP 601 A 1 HETATM 9 P PB ATP . A . C 2 -32.623 -53.605 38.192 0.47 25.37 ? PB ATP 601 A 1 HETATM 10 P PB ATP . B . C 2 -31.351 -53.859 39.915 0.53 78.59 ? PB ATP 601 A 1 HETATM 11 O O1B ATP . A . C 2 -33.19 -53.473 39.648 0.47 62.17 ? O1B ATP 601 A 1 HETATM 12 O O1B ATP . B . C 2 -30.533 -54.139 41.236 0.53 67.65 ? O1B ATP 601 A 1 HETATM 13 O O2B ATP . A . C 2 -33.473 -54.606 37.417 0.47 39.93 -1 O2B ATP 601 A 1 HETATM 14 O O2B ATP . B . C 2 -30.49 -54.113 38.694 0.53 67.38 -1 O2B ATP 601 A 1 HETATM 15 O O3B ATP . A . C 2 -31.061 -54.154 38.294 0.47 62.11 ? O3B ATP 601 A 1 HETATM 16 O O3B ATP . B . C 2 -32.688 -54.846 39.886 0.53 63.87 ? O3B ATP 601 A 1 HETATM 17 P PA ATP . A . C 2 -33.459 -50.772 38.143 0.47 50.79 ? PA ATP 601 A 1 HETATM 18 P PA ATP . B . C 2 -33.446 -51.963 39.829 0.53 68.19 ? PA ATP 601 A 1 HETATM 19 O O1A ATP . A . C 2 -32.625 -49.522 37.9 0.47 46.48 ? O1A ATP 601 A 1 HETATM 20 O O1A ATP . B . C 2 -33.954 -52.89 38.739 0.53 58.04 ? O1A ATP 601 A 1 HETATM 21 O O2A ATP . A . C 2 -34.792 -50.582 37.467 0.47 41.51 -1 O2A ATP 601 A 1 HETATM 22 O O2A ATP . B . C 2 -34.006 -52.378 41.167 0.53 24.58 -1 O2A ATP 601 A 1 HETATM 23 O O3A ATP . A . C 2 -32.712 -52.092 37.452 0.47 38.07 ? O3A ATP 601 A 1 HETATM 24 O O3A ATP . B . C 2 -31.826 -52.251 39.906 0.53 66.6 ? O3A ATP 601 A 1 HETATM 25 O O5' ATP . A . C 2 -33.707 -51.051 39.774 0.47 66.1 ? O5' ATP 601 A 1 HETATM 26 O O5' ATP . B . C 2 -33.869 -50.424 39.309 0.53 66.64 ? O5' ATP 601 A 1 HETATM 27 C C5' ATP . A . C 2 -33.919 -49.931 40.646 0.47 60.43 ? C5' ATP 601 A 1 HETATM 28 C C5' ATP . B . C 2 -33.869 -49.164 40.001 0.53 63.38 ? C5' ATP 601 A 1 HETATM 29 C C4' ATP . A . C 2 -35.344 -49.304 40.654 0.47 49.25 ? C4' ATP 601 A 1 HETATM 30 C C4' ATP . B . C 2 -35.243 -48.723 40.591 0.53 49.62 ? C4' ATP 601 A 1 HETATM 31 O O4' ATP . A . C 2 -35.628 -49.108 39.451 0.47 51.8 ? O4' ATP 601 A 1 HETATM 32 O O4' ATP . B . C 2 -35.894 -48.243 39.631 0.53 47.35 ? O4' ATP 601 A 1 HETATM 33 C C3' ATP . A . C 2 -36.502 -50.215 41.219 0.47 45.41 ? C3' ATP 601 A 1 HETATM 34 C C3' ATP . B . C 2 -36.079 -49.935 41.139 0.53 45.61 ? C3' ATP 601 A 1 HETATM 35 O O3' ATP . A . C 2 -37.097 -49.611 42.323 0.47 42.78 ? O3' ATP 601 A 1 HETATM 36 O O3' ATP . B . C 2 -36.819 -49.569 42.261 0.53 42.5 ? O3' ATP 601 A 1 HETATM 37 C C2' ATP . A . C 2 -37.487 -50.304 40.09 0.47 52.5 ? C2' ATP 601 A 1 HETATM 38 C C2' ATP . B . C 2 -37.011 -50.267 40.016 0.53 52.52 ? C2' ATP 601 A 1 HETATM 39 O O2' ATP . A . C 2 -38.942 -50.271 40.647 0.47 50.5 ? O2' ATP 601 A 1 HETATM 40 O O2' ATP . B . C 2 -38.338 -50.855 40.599 0.53 50.88 ? O2' ATP 601 A 1 HETATM 41 C C1' ATP . A . C 2 -37.244 -49.222 39.378 0.47 52.96 ? C1' ATP 601 A 1 HETATM 42 C C1' ATP . B . C 2 -37.26 -49.11 39.445 0.53 52.89 ? C1' ATP 601 A 1 HETATM 43 N N9 ATP . A . C 2 -37.647 -49.253 38.013 0.47 57.33 ? N9 ATP 601 A 1 HETATM 44 N N9 ATP . B . C 2 -37.585 -49.162 38.042 0.53 57.27 ? N9 ATP 601 A 1 HETATM 45 C C8 ATP . A . C 2 -37.565 -50.254 37.166 0.47 52.7 ? C8 ATP 601 A 1 HETATM 46 C C8 ATP . B . C 2 -37.353 -50.138 37.184 0.53 53.1 ? C8 ATP 601 A 1 HETATM 47 N N7 ATP . A . C 2 -38.057 -49.884 35.975 0.47 49.82 ? N7 ATP 601 A 1 HETATM 48 N N7 ATP . B . C 2 -37.811 -49.811 35.969 0.53 49.5 ? N7 ATP 601 A 1 HETATM 49 C C5 ATP . A . C 2 -38.46 -48.589 36.075 0.47 56.4 ? C5 ATP 601 A 1 HETATM 50 C C5 ATP . B . C 2 -38.359 -48.572 36.057 0.53 56.24 ? C5 ATP 601 A 1 HETATM 51 C C6 ATP . A . C 2 -39.047 -47.671 35.166 0.47 59.03 ? C6 ATP 601 A 1 HETATM 52 C C6 ATP . B . C 2 -38.989 -47.718 35.117 0.53 61.06 ? C6 ATP 601 A 1 HETATM 53 N N6 ATP . A . C 2 -39.333 -48.067 33.8 0.47 60.43 ? N6 ATP 601 A 1 HETATM 54 N N6 ATP . B . C 2 -39.146 -48.138 33.737 0.53 60.55 ? N6 ATP 601 A 1 HETATM 55 N N1 ATP . A . C 2 -39.326 -46.446 35.592 0.47 58.93 ? N1 ATP 601 A 1 HETATM 56 N N1 ATP . B . C 2 -39.428 -46.536 35.53 0.53 58.88 ? N1 ATP 601 A 1 HETATM 57 C C2 ATP . A . C 2 -39.068 -46.066 36.846 0.47 60.42 ? C2 ATP 601 A 1 HETATM 58 C C2 ATP . B . C 2 -39.287 -46.144 36.798 0.53 60.28 ? C2 ATP 601 A 1 HETATM 59 N N3 ATP . A . C 2 -38.522 -46.899 37.716 0.47 62.46 ? N3 ATP 601 A 1 HETATM 60 N N3 ATP . B . C 2 -38.703 -46.919 37.698 0.53 62.32 ? N3 ATP 601 A 1 HETATM 61 C C4 ATP . A . C 2 -38.204 -48.172 37.362 0.47 63.96 ? C4 ATP 601 A 1 HETATM 62 C C4 ATP . B . C 2 -38.224 -48.146 37.361 0.53 61.48 ? C4 ATP 601 A 1 HETATM 63 H "H5'1" ATP . A . C 2 -33.261 -49.201 40.371 0.47 72.61 ? "H5'1" ATP 601 A 1 HETATM 64 H "H5'1" ATP . B . C 2 -33.564 -48.446 39.342 0.53 76.15 ? "H5'1" ATP 601 A 1 HETATM 65 H "H5'2" ATP . A . C 2 -33.713 -50.241 41.597 0.47 72.61 ? "H5'2" ATP 601 A 1 HETATM 66 H "H5'2" ATP . B . C 2 -33.202 -49.231 40.771 0.53 76.15 ? "H5'2" ATP 601 A 1 HETATM 67 H H4' ATP . A . C 2 -35.353 -48.411 41.285 0.47 59.19 ? H4' ATP 601 A 1 HETATM 68 H H4' ATP . B . C 2 -35.127 -48.018 41.418 0.53 59.64 ? H4' ATP 601 A 1 HETATM 69 H H3' ATP . A . C 2 -36.113 -51.221 41.495 0.47 54.58 ? H3' ATP 601 A 1 HETATM 70 H H3' ATP . B . C 2 -35.403 -50.785 41.389 0.53 54.82 ? H3' ATP 601 A 1 HETATM 71 H HO3' ATP . A . C 2 -38.018 -49.521 42.17 0.47 51.43 ? HO3' ATP 601 A 1 HETATM 72 H HO3' ATP . B . C 2 -37.727 -49.758 42.107 0.53 51.09 ? HO3' ATP 601 A 1 HETATM 73 H H2' ATP . A . C 2 -37.331 -51.232 39.483 0.47 63.09 ? H2' ATP 601 A 1 HETATM 74 H H2' ATP . B . C 2 -36.536 -50.981 39.296 0.53 63.12 ? H2' ATP 601 A 1 HETATM 75 H HO2' ATP . A . C 2 -39.202 -51.137 40.852 0.47 60.7 ? HO2' ATP 601 A 1 HETATM 76 H HO2' ATP . B . C 2 -38.939 -50.98 39.906 0.53 61.15 ? HO2' ATP 601 A 1 HETATM 77 H H1' ATP . A . C 2 -37.769 -48.416 39.825 0.47 63.64 ? H1' ATP 601 A 1 HETATM 78 H H1' ATP . B . C 2 -38.09 -48.694 39.957 0.53 63.56 ? H1' ATP 601 A 1 HETATM 79 H H8 ATP . A . C 2 -37.159 -51.239 37.397 0.47 63.33 ? H8 ATP 601 A 1 HETATM 80 H H8 ATP . B . C 2 -36.857 -51.077 37.429 0.53 63.82 ? H8 ATP 601 A 1 HETATM 81 H HN61 ATP . A . C 2 -40.168 -48.295 33.566 0.47 72.61 ? HN61 ATP 601 A 1 HETATM 82 H HN61 ATP . B . C 2 -39.925 -48.487 33.464 0.53 72.75 ? HN61 ATP 601 A 1 HETATM 83 H HN62 ATP . A . C 2 -38.617 -48.087 33.141 0.47 72.61 ? HN62 ATP 601 A 1 HETATM 84 H HN62 ATP . B . C 2 -38.405 -48.049 33.111 0.53 72.75 ? HN62 ATP 601 A 1 HETATM 85 H H2 ATP . A . C 2 -39.318 -45.028 37.164 0.47 72.6 ? H2 ATP 601 A 1 HETATM 86 H H2 ATP . B . C 2 -39.67 -45.143 37.104 0.53 72.43 ? H2 ATP 601 A 1 # _model_server_stats.io_time_ms 47 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 16 _model_server_stats.element_count 86 #