data_5CYR # _model_server_result.job_id WHt-Bq1ROR1ZFvAy1p0JMw _model_server_result.datetime_utc '2024-11-05 00:41:12' _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 5cyr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 5CYR # _exptl.entry_id 5CYR _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 1 _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 5CYR _cell.length_a 142.513 _cell.length_b 158.339 _cell.length_c 217.096 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CYR _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 5CYR _atom_sites.fract_transf_matrix[1][1] 0.007017 _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] 0.006316 _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] 0.004606 _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 B 1 701 1 ATP ATP . D 3 SO4 B 1 702 2 SO4 SO4 . E 4 PO4 B 1 703 4 PO4 PO4 . F 5 MG A 1 701 1 MG MG . G 3 SO4 A 1 702 1 SO4 SO4 . H 4 PO4 A 1 703 1 PO4 PO4 . I 4 PO4 A 1 704 2 PO4 PO4 . J 4 PO4 A 1 705 3 PO4 PO4 . # 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 . . . C 2 55.936 20.281 35.332 1 99.79 ? PG ATP 701 B 1 HETATM 2 O O1G ATP . . . C 2 56.152 19.091 34.434 1 95.54 ? O1G ATP 701 B 1 HETATM 3 O O2G ATP . . . C 2 56.479 20.081 36.727 1 73.67 ? O2G ATP 701 B 1 HETATM 4 O O3G ATP . . . C 2 54.537 20.848 35.282 1 79.35 ? O3G ATP 701 B 1 HETATM 5 P PB ATP . . . C 2 57.954 21.262 33.557 1 164.52 ? PB ATP 701 B 1 HETATM 6 O O1B ATP . . . C 2 57.449 20.315 32.496 1 140.33 ? O1B ATP 701 B 1 HETATM 7 O O2B ATP . . . C 2 59.289 21.003 34.213 1 111.04 ? O2B ATP 701 B 1 HETATM 8 O O3B ATP . . . C 2 56.866 21.459 34.735 1 117.23 ? O3B ATP 701 B 1 HETATM 9 P PA ATP . . . C 2 57.898 22.888 31.294 1 168.49 ? PA ATP 701 B 1 HETATM 10 O O1A ATP . . . C 2 59.121 22.259 30.668 1 132.61 ? O1A ATP 701 B 1 HETATM 11 O O2A ATP . . . C 2 56.521 22.426 30.88 1 131.91 ? O2A ATP 701 B 1 HETATM 12 O O3A ATP . . . C 2 58.004 22.731 32.895 1 158.49 ? O3A ATP 701 B 1 HETATM 13 O O5' ATP . . . C 2 57.957 24.481 31.062 1 115.62 ? O5' ATP 701 B 1 HETATM 14 C C5' ATP . . . C 2 58.207 25.002 29.758 1 94.67 ? C5' ATP 701 B 1 HETATM 15 C C4' ATP . . . C 2 57.237 26.135 29.446 1 86.1 ? C4' ATP 701 B 1 HETATM 16 O O4' ATP . . . C 2 57.678 26.851 28.291 1 72.87 ? O4' ATP 701 B 1 HETATM 17 C C3' ATP . . . C 2 55.842 25.607 29.148 1 101.14 ? C3' ATP 701 B 1 HETATM 18 O O3' ATP . . . C 2 54.947 25.876 30.231 1 98.32 ? O3' ATP 701 B 1 HETATM 19 C C2' ATP . . . C 2 55.388 26.334 27.9 1 87.9 ? C2' ATP 701 B 1 HETATM 20 O O2' ATP . . . C 2 54.417 27.331 28.235 1 63.23 ? O2' ATP 701 B 1 HETATM 21 C C1' ATP . . . C 2 56.628 27.003 27.332 1 79.72 ? C1' ATP 701 B 1 HETATM 22 N N9 ATP . . . C 2 57.032 26.298 26.088 1 79.22 ? N9 ATP 701 B 1 HETATM 23 C C8 ATP . . . C 2 58.227 25.71 25.883 1 69.09 ? C8 ATP 701 B 1 HETATM 24 N N7 ATP . . . C 2 58.296 25.151 24.648 1 65.01 ? N7 ATP 701 B 1 HETATM 25 C C5 ATP . . . C 2 57.12 25.382 24.033 1 66.88 ? C5 ATP 701 B 1 HETATM 26 C C6 ATP . . . C 2 56.526 25.064 22.71 1 58.99 ? C6 ATP 701 B 1 HETATM 27 N N6 ATP . . . C 2 57.225 24.37 21.776 1 48.19 ? N6 ATP 701 B 1 HETATM 28 N N1 ATP . . . C 2 55.265 25.491 22.468 1 48.86 ? N1 ATP 701 B 1 HETATM 29 C C2 ATP . . . C 2 54.562 26.18 23.387 1 51.78 ? C2 ATP 701 B 1 HETATM 30 N N3 ATP . . . C 2 55.038 26.501 24.605 1 64.05 ? N3 ATP 701 B 1 HETATM 31 C C4 ATP . . . C 2 56.29 26.141 24.984 1 71.43 ? C4 ATP 701 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 41 _model_server_stats.query_time_ms 336 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 31 #