data_5IRL # _model_server_result.job_id ZjwviTxjNTo9TF_DDV_2Uw _model_server_result.datetime_utc '2024-12-21 12:30:21' _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 5irl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1101}' # _entry.id 5IRL # _exptl.entry_id 5IRL _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _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 5IRL _cell.length_a 77.9 _cell.length_b 107.845 _cell.length_c 185.365 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IRL _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id ADP _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-5'-DIPHOSPHATE" _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 PB O1B ADP doub 1 n n PB O2B ADP sing 2 n n PB O3B ADP sing 3 n n PB O3A ADP sing 4 n n O2B HOB2 ADP sing 5 n n O3B HOB3 ADP sing 6 n n PA O1A ADP doub 7 n n PA O2A ADP sing 8 n n PA O3A ADP sing 9 n n PA O5' ADP sing 10 n n O2A HOA2 ADP sing 11 n n O5' C5' ADP sing 12 n n C5' C4' ADP sing 13 n n C5' "H5'1" ADP sing 14 n n C5' "H5'2" ADP sing 15 n n C4' O4' ADP sing 16 n n C4' C3' ADP sing 17 n n C4' H4' ADP sing 18 n n O4' C1' ADP sing 19 n n C3' O3' ADP sing 20 n n C3' C2' ADP sing 21 n n C3' H3' ADP sing 22 n n O3' HO3' ADP sing 23 n n C2' O2' ADP sing 24 n n C2' C1' ADP sing 25 n n C2' H2' ADP sing 26 n n O2' HO2' ADP sing 27 n n C1' N9 ADP sing 28 n n C1' H1' ADP sing 29 n n N9 C8 ADP sing 30 n y N9 C4 ADP sing 31 n y C8 N7 ADP doub 32 n y C8 H8 ADP sing 33 n n N7 C5 ADP sing 34 n y C5 C6 ADP sing 35 n y C5 C4 ADP doub 36 n y C6 N6 ADP sing 37 n n C6 N1 ADP doub 38 n y N6 HN61 ADP sing 39 n n N6 HN62 ADP sing 40 n n N1 C2 ADP sing 41 n y C2 N3 ADP doub 42 n y C2 H2 ADP sing 43 n n N3 C4 ADP sing 44 n y # _atom_sites.entry_id 5IRL _atom_sites.fract_transf_matrix[1][1] 0.012837 _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] 0.009273 _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] 0.005395 _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 B 2 ADP A 1 1101 1 ADP ADP . C 3 HOH A 1 1201 5 HOH HOH . C 3 HOH A 2 1202 3 HOH HOH . C 3 HOH A 3 1203 1 HOH HOH . C 3 HOH A 4 1204 2 HOH HOH . C 3 HOH A 5 1205 4 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 PB ADP . . . B 2 -10.223 43.187 -22.463 1 47.76 ? PB ADP 1101 A 1 HETATM 2 O O1B ADP . . . B 2 -9.967 44.14 -23.595 1 47.97 ? O1B ADP 1101 A 1 HETATM 3 O O2B ADP . . . B 2 -10.461 41.773 -22.909 1 44.23 ? O2B ADP 1101 A 1 HETATM 4 O O3B ADP . . . B 2 -11.241 43.66 -21.453 1 45.47 ? O3B ADP 1101 A 1 HETATM 5 P PA ADP . . . B 2 -7.765 44.367 -21.801 1 47.04 ? PA ADP 1101 A 1 HETATM 6 O O1A ADP . . . B 2 -6.847 44.093 -22.957 1 49.26 ? O1A ADP 1101 A 1 HETATM 7 O O2A ADP . . . B 2 -8.562 45.656 -21.826 1 45.87 ? O2A ADP 1101 A 1 HETATM 8 O O3A ADP . . . B 2 -8.807 43.146 -21.683 1 46.78 ? O3A ADP 1101 A 1 HETATM 9 O O5' ADP . . . B 2 -6.868 44.239 -20.47 1 45.88 ? O5' ADP 1101 A 1 HETATM 10 C C5' ADP . . . B 2 -6.798 45.326 -19.54 1 48.46 ? C5' ADP 1101 A 1 HETATM 11 C C4' ADP . . . B 2 -5.405 45.457 -18.949 1 47.31 ? C4' ADP 1101 A 1 HETATM 12 O O4' ADP . . . B 2 -4.916 44.166 -18.649 1 43.86 ? O4' ADP 1101 A 1 HETATM 13 C C3' ADP . . . B 2 -4.386 46.013 -19.925 1 49.72 ? C3' ADP 1101 A 1 HETATM 14 O O3' ADP . . . B 2 -4.368 47.437 -19.968 1 57.23 ? O3' ADP 1101 A 1 HETATM 15 C C2' ADP . . . B 2 -3.088 45.425 -19.42 1 47.54 ? C2' ADP 1101 A 1 HETATM 16 O O2' ADP . . . B 2 -2.582 45.997 -18.213 1 47.66 ? O2' ADP 1101 A 1 HETATM 17 C C1' ADP . . . B 2 -3.535 44.073 -18.979 1 43.37 ? C1' ADP 1101 A 1 HETATM 18 N N9 ADP . . . B 2 -3.287 43.047 -19.994 1 38.81 ? N9 ADP 1101 A 1 HETATM 19 C C8 ADP . . . B 2 -4.188 42.384 -20.733 1 39.39 ? C8 ADP 1101 A 1 HETATM 20 N N7 ADP . . . B 2 -3.581 41.458 -21.539 1 37.71 ? N7 ADP 1101 A 1 HETATM 21 C C5 ADP . . . B 2 -2.275 41.553 -21.281 1 36.82 ? C5 ADP 1101 A 1 HETATM 22 C C6 ADP . . . B 2 -1.077 40.867 -21.761 1 38.59 ? C6 ADP 1101 A 1 HETATM 23 N N6 ADP . . . B 2 -1.264 39.908 -22.689 1 42.47 ? N6 ADP 1101 A 1 HETATM 24 N N1 ADP . . . B 2 0.138 41.224 -21.281 1 36.02 ? N1 ADP 1101 A 1 HETATM 25 C C2 ADP . . . B 2 0.228 42.197 -20.354 1 36.69 ? C2 ADP 1101 A 1 HETATM 26 N N3 ADP . . . B 2 -0.837 42.872 -19.85 1 35.69 ? N3 ADP 1101 A 1 HETATM 27 C C4 ADP . . . B 2 -2.083 42.59 -20.273 1 36.62 ? C4 ADP 1101 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #