data_3RIR # _model_server_result.job_id OHR6Q5X6AUU8a8Z7gR0XLA _model_server_result.datetime_utc '2025-01-26 00:59:18' _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 3rir # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 3RIR # _exptl.entry_id 3RIR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 573.517 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description BIOTINYL-5-AMP _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 3RIR _cell.length_a 93.564 _cell.length_b 93.564 _cell.length_c 130.65 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3RIR _symmetry.cell_setting ? _symmetry.Int_Tables_number 94 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 42 21 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 93.564 0 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 'C20 H28 N7 O9 P S' _chem_comp.formula_weight 573.517 _chem_comp.id BT5 _chem_comp.mon_nstd_flag . _chem_comp.name BIOTINYL-5-AMP _chem_comp.type 'rna linking' _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 CBB OBB BT5 sing 70 n n CBB OCB BT5 doub 71 n n CBB CAB BT5 sing 72 n n OBB P BT5 sing 73 n n CAB C9B BT5 sing 74 n n CAB H101 BT5 sing 75 n n CAB H102 BT5 sing 76 n n C9B C8B BT5 sing 77 n n C9B H9B1 BT5 sing 78 n n C9B H9B2 BT5 sing 79 n n C8B C7B BT5 sing 80 n n C8B H8B1 BT5 sing 81 n n C8B H8B2 BT5 sing 82 n n C7B C2B BT5 sing 83 n n C7B H7B1 BT5 sing 84 n n C7B H7B2 BT5 sing 85 n n C2B S1B BT5 sing 86 n n C2B C4B BT5 sing 87 n n C2B H2B BT5 sing 88 n n S1B C6B BT5 sing 89 n n C6B C5B BT5 sing 90 n n C6B H6B1 BT5 sing 91 n n C6B H6B2 BT5 sing 92 n n C5B N1B BT5 sing 93 n n C5B C4B BT5 sing 94 n n C5B H5B BT5 sing 95 n n N1B C3B BT5 sing 96 n n N1B H1B BT5 sing 97 n n C3B O3B BT5 doub 98 n n C3B N2B BT5 sing 99 n n N2B C4B BT5 sing 100 n n N2B H4 BT5 sing 101 n n C4B H4B BT5 sing 102 n n P OP1 BT5 doub 103 n n P OP2 BT5 sing 104 n n P O5' BT5 sing 105 n n OP2 H2P BT5 sing 106 n n O5' C5' BT5 sing 107 n n C5' C4' BT5 sing 108 n n C5' H5' BT5 sing 109 n n C5' "H5''" BT5 sing 110 n n C4' O4' BT5 sing 111 n n C4' C3' BT5 sing 112 n n C4' H4' BT5 sing 113 n n O4' C1' BT5 sing 114 n n C3' O3' BT5 sing 115 n n C3' C2' BT5 sing 116 n n C3' H3' BT5 sing 117 n n O3' H2 BT5 sing 118 n n C2' O2' BT5 sing 119 n n C2' C1' BT5 sing 120 n n C2' H1 BT5 sing 121 n n O2' H2' BT5 sing 122 n n C1' N9 BT5 sing 123 n n C1' H1' BT5 sing 124 n n N9 C8 BT5 sing 125 n y N9 C4 BT5 sing 126 n y C8 N7 BT5 doub 127 n y C8 H8 BT5 sing 128 n n N7 C5 BT5 sing 129 n y C5 C6 BT5 doub 130 n y C5 C4 BT5 sing 131 n y C6 N6 BT5 sing 132 n n C6 N1 BT5 sing 133 n y N6 HN61 BT5 sing 134 n n N6 HN62 BT5 sing 135 n n N1 C2 BT5 doub 136 n y C2 N3 BT5 sing 137 n y C2 H3 BT5 sing 138 n n N3 C4 BT5 doub 139 n y # _atom_sites.entry_id 3RIR _atom_sites.fract_transf_matrix[1][1] 0.010688 _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] 0.010688 _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] 0.007654 _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 BT5 A 1 500 500 BT5 BT5 . C 3 HOH A 1 324 1 HOH HOH . C 3 HOH A 2 325 2 HOH HOH . C 3 HOH A 3 326 3 HOH HOH . C 3 HOH A 4 327 4 HOH HOH . C 3 HOH A 5 328 5 HOH HOH . C 3 HOH A 6 329 6 HOH HOH . C 3 HOH A 7 330 7 HOH HOH . C 3 HOH A 8 331 8 HOH HOH . C 3 HOH A 9 332 9 HOH HOH . C 3 HOH A 10 333 10 HOH HOH . C 3 HOH A 11 334 11 HOH HOH . C 3 HOH A 12 335 12 HOH HOH . C 3 HOH A 13 336 13 HOH HOH . C 3 HOH A 14 337 14 HOH HOH . C 3 HOH A 15 338 15 HOH HOH . C 3 HOH A 16 339 16 HOH HOH . C 3 HOH A 17 340 17 HOH HOH . C 3 HOH A 18 341 18 HOH HOH . C 3 HOH A 19 342 19 HOH HOH . C 3 HOH A 20 343 20 HOH HOH . C 3 HOH A 21 344 21 HOH HOH . C 3 HOH A 22 345 22 HOH HOH . C 3 HOH A 23 346 23 HOH HOH . C 3 HOH A 24 347 24 HOH HOH . C 3 HOH A 25 348 25 HOH HOH . C 3 HOH A 26 349 26 HOH HOH . C 3 HOH A 27 350 27 HOH HOH . C 3 HOH A 28 351 28 HOH HOH . C 3 HOH A 29 352 29 HOH HOH . C 3 HOH A 30 353 30 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 C CBB BT5 . . . B 2 50.389 17.444 18.386 0.16 63.18 ? CBB BT5 500 A 1 HETATM 2 O OBB BT5 . . . B 2 51.569 16.998 17.787 1 56.68 ? OBB BT5 500 A 1 HETATM 3 O OCB BT5 . . . B 2 50.163 18.489 17.805 1 54.25 ? OCB BT5 500 A 1 HETATM 4 C CAB BT5 . . . B 2 49.167 17.153 18.979 1 62.25 ? CAB BT5 500 A 1 HETATM 5 C C9B BT5 . . . B 2 49.055 16.845 20.308 1 46.63 ? C9B BT5 500 A 1 HETATM 6 C C8B BT5 . . . B 2 47.74 16.926 21.005 0.44 61.83 ? C8B BT5 500 A 1 HETATM 7 C C7B BT5 . . . B 2 47.729 17.103 22.532 1 49.49 ? C7B BT5 500 A 1 HETATM 8 C C2B BT5 . . . B 2 46.576 16.548 23.217 0.53 53.49 ? C2B BT5 500 A 1 HETATM 9 S S1B BT5 . . . B 2 46.479 17.171 24.795 1 34.78 ? S1B BT5 500 A 1 HETATM 10 C C6B BT5 . . . B 2 45.26 15.997 25.06 0.57 49.94 ? C6B BT5 500 A 1 HETATM 11 C C5B BT5 . . . B 2 46.317 14.965 24.916 1 47.84 ? C5B BT5 500 A 1 HETATM 12 N N1B BT5 . . . B 2 47.03 14.275 25.664 1 47.5 ? N1B BT5 500 A 1 HETATM 13 C C3B BT5 . . . B 2 48.207 14.111 25.04 0.99 39.61 ? C3B BT5 500 A 1 HETATM 14 O O3B BT5 . . . B 2 49.328 13.845 25.739 1 34.21 ? O3B BT5 500 A 1 HETATM 15 N N2B BT5 . . . B 2 48.288 14.755 23.775 0.94 46.48 ? N2B BT5 500 A 1 HETATM 16 C C4B BT5 . . . B 2 47.055 15.28 23.739 1 50.23 ? C4B BT5 500 A 1 HETATM 17 P P BT5 . . . B 2 52.892 17.714 17.238 0.02 83.62 ? P BT5 500 A 1 HETATM 18 O OP1 BT5 . . . B 2 52.562 18.489 15.962 1 66.47 ? OP1 BT5 500 A 1 HETATM 19 O OP2 BT5 . . . B 2 53.778 16.516 17.137 0.4 85.4 ? OP2 BT5 500 A 1 HETATM 20 O O5' BT5 . . . B 2 53.475 18.695 18.349 1 49.15 ? O5' BT5 500 A 1 HETATM 21 C C5' BT5 . . . B 2 52.907 19.96 18.578 0.32 49.34 ? C5' BT5 500 A 1 HETATM 22 C C4' BT5 . . . B 2 53.793 21.053 18.076 0.43 50.76 ? C4' BT5 500 A 1 HETATM 23 O O4' BT5 . . . B 2 53.408 22.276 18.733 0.81 45.86 ? O4' BT5 500 A 1 HETATM 24 C C3' BT5 . . . B 2 55.271 20.885 18.404 0.67 58.61 ? C3' BT5 500 A 1 HETATM 25 O O3' BT5 . . . B 2 56.041 21.757 17.563 0.68 58.54 ? O3' BT5 500 A 1 HETATM 26 C C2' BT5 . . . B 2 55.33 21.42 19.808 0.43 64.94 ? C2' BT5 500 A 1 HETATM 27 O O2' BT5 . . . B 2 56.631 21.776 20.227 0.59 72.7 ? O2' BT5 500 A 1 HETATM 28 C C1' BT5 . . . B 2 54.41 22.641 19.674 0.74 56.22 ? C1' BT5 500 A 1 HETATM 29 N N9 BT5 . . . B 2 53.729 23.022 20.903 0.25 62.41 ? N9 BT5 500 A 1 HETATM 30 C C8 BT5 . . . B 2 53.798 22.567 22.164 0.61 54.61 ? C8 BT5 500 A 1 HETATM 31 N N7 BT5 . . . B 2 52.766 23.114 22.82 0.78 49.06 ? N7 BT5 500 A 1 HETATM 32 C C5 BT5 . . . B 2 52.046 23.906 21.952 0.53 56.16 ? C5 BT5 500 A 1 HETATM 33 C C6 BT5 . . . B 2 50.892 24.712 22.082 0.77 56.81 ? C6 BT5 500 A 1 HETATM 34 N N6 BT5 . . . B 2 50.234 24.781 23.386 0.49 54.92 ? N6 BT5 500 A 1 HETATM 35 N N1 BT5 . . . B 2 50.423 25.376 20.958 0.96 56.79 ? N1 BT5 500 A 1 HETATM 36 C C2 BT5 . . . B 2 51.047 25.297 19.764 0.28 55.71 ? C2 BT5 500 A 1 HETATM 37 N N3 BT5 . . . B 2 52.153 24.539 19.634 0.84 61.83 ? N3 BT5 500 A 1 HETATM 38 C C4 BT5 . . . B 2 52.665 23.832 20.695 0.45 63.32 ? C4 BT5 500 A 1 # _model_server_stats.io_time_ms 22 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 38 #