data_3AY0 # _model_server_result.job_id lCcdyI6dzJTV3XN-Tt-rXg _model_server_result.datetime_utc '2025-07-19 18:15:00' _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 3ay0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 3AY0 # _exptl.entry_id 3AY0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 267.241 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE _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 93.75 _cell.angle_gamma 90 _cell.entry_id 3AY0 _cell.length_a 61.49 _cell.length_b 67.127 _cell.length_c 92.239 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3AY0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,F,J 1 1 B,G,H,I,K 2 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 ? 3 F N N ? 3 I N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 307 A CYS 307 1_555 A SG CYS 309 A CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc1 A ND1 HIS 11 A HIS 11 1_555 E ZN ZN . A ZN 339 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? metalc ? metalc2 A OE1 GLU 111 A GLU 111 1_555 C ZN ZN . A ZN 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.186 ? metalc ? metalc3 A OE2 GLU 111 A GLU 111 1_555 C ZN ZN . A ZN 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.644 ? metalc ? metalc4 A ND1 HIS 227 A HIS 227 1_555 D ZN ZN . A ZN 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc5 A OE2 GLU 230 A GLU 230 1_555 D ZN ZN . A ZN 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc6 C ZN ZN . A ZN 337 1_555 B NE2 HIS 271 B HIS 271 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.511 ? metalc ? metalc7 D ZN ZN . A ZN 338 1_555 J O HOH . A HOH 346 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.554 ? metalc ? metalc8 E ZN ZN . A ZN 339 1_555 J O HOH . A HOH 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? metalc ? metalc9 B ND1 HIS 227 B HIS 227 1_555 G ZN ZN . B ZN 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.573 ? metalc ? metalc10 B OE1 GLU 230 B GLU 230 1_555 G ZN ZN . B ZN 337 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.169 ? metalc ? metalc11 B ND1 HIS 243 B HIS 243 1_555 H ZN ZN . B ZN 338 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.419 ? metalc ? metalc12 H ZN ZN . B ZN 338 1_555 K O HOH . B HOH 340 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? # _chem_comp.formula 'C10 H13 N5 O4' _chem_comp.formula_weight 267.241 _chem_comp.id ADN _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE _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 O5' C5' ADN sing 1 n n O5' HO5' ADN sing 2 n n C5' C4' ADN sing 3 n n C5' "H5'1" ADN sing 4 n n C5' "H5'2" ADN sing 5 n n C4' O4' ADN sing 6 n n C4' C3' ADN sing 7 n n C4' H4' ADN sing 8 n n O4' C1' ADN sing 9 n n C3' O3' ADN sing 10 n n C3' C2' ADN sing 11 n n C3' H3' ADN sing 12 n n O3' HO3' ADN sing 13 n n C2' O2' ADN sing 14 n n C2' C1' ADN sing 15 n n C2' H2' ADN sing 16 n n O2' HO2' ADN sing 17 n n C1' N9 ADN sing 18 n n C1' H1' ADN sing 19 n n N9 C8 ADN sing 20 n y N9 C4 ADN sing 21 n y C8 N7 ADN doub 22 n y C8 H8 ADN sing 23 n n N7 C5 ADN sing 24 n y C5 C6 ADN sing 25 n y C5 C4 ADN doub 26 n y C6 N6 ADN sing 27 n n C6 N1 ADN doub 28 n y N6 HN61 ADN sing 29 n n N6 HN62 ADN sing 30 n n N1 C2 ADN sing 31 n y C2 N3 ADN doub 32 n y C2 H2 ADN sing 33 n n N3 C4 ADN sing 34 n y # _atom_sites.entry_id 3AY0 _atom_sites.fract_transf_matrix[1][1] 0.016263 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001066 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014897 _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] 0.010865 _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 ZN A 1 337 1 ZN ZN . D 2 ZN A 1 338 4 ZN ZN . E 2 ZN A 1 339 5 ZN ZN . F 3 ADN A 1 401 401 ADN ADN . G 2 ZN B 1 337 2 ZN ZN . H 2 ZN B 1 338 3 ZN ZN . I 3 ADN B 1 402 402 ADN ADN . J 4 HOH A 1 340 1 HOH HOH . J 4 HOH A 2 341 3 HOH HOH . J 4 HOH A 3 342 4 HOH HOH . J 4 HOH A 4 343 5 HOH HOH . J 4 HOH A 5 344 6 HOH HOH . J 4 HOH A 6 345 7 HOH HOH . J 4 HOH A 7 346 8 HOH HOH . J 4 HOH A 8 347 9 HOH HOH . J 4 HOH A 9 348 11 HOH HOH . J 4 HOH A 10 349 12 HOH HOH . J 4 HOH A 11 350 13 HOH HOH . K 4 HOH B 1 339 2 HOH HOH . K 4 HOH B 2 340 10 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 O O5' ADN . . . F 3 -53.156 -6.846 -39.059 1 60.16 ? O5' ADN 401 A 1 HETATM 2 C C5' ADN . . . F 3 -52.763 -5.49 -39.284 1 58.21 ? C5' ADN 401 A 1 HETATM 3 C C4' ADN . . . F 3 -53.907 -4.74 -39.968 1 57.73 ? C4' ADN 401 A 1 HETATM 4 O O4' ADN . . . F 3 -55.06 -4.713 -39.109 1 56.76 ? O4' ADN 401 A 1 HETATM 5 C C3' ADN . . . F 3 -53.498 -3.278 -40.171 1 57.76 ? C3' ADN 401 A 1 HETATM 6 O O3' ADN . . . F 3 -53.571 -2.925 -41.554 1 57.48 ? O3' ADN 401 A 1 HETATM 7 C C2' ADN . . . F 3 -54.555 -2.508 -39.382 1 57.25 ? C2' ADN 401 A 1 HETATM 8 O O2' ADN . . . F 3 -54.844 -1.24 -39.976 1 58.78 ? O2' ADN 401 A 1 HETATM 9 C C1' ADN . . . F 3 -55.727 -3.485 -39.437 1 56.69 ? C1' ADN 401 A 1 HETATM 10 N N9 ADN . . . F 3 -56.781 -3.125 -38.461 1 57.48 ? N9 ADN 401 A 1 HETATM 11 C C8 ADN . . . F 3 -56.616 -2.963 -37.149 1 56.75 ? C8 ADN 401 A 1 HETATM 12 N N7 ADN . . . F 3 -57.78 -2.664 -36.578 1 53.82 ? N7 ADN 401 A 1 HETATM 13 C C5 ADN . . . F 3 -58.702 -2.633 -37.537 1 54.95 ? C5 ADN 401 A 1 HETATM 14 C C6 ADN . . . F 3 -60.068 -2.388 -37.557 1 54.18 ? C6 ADN 401 A 1 HETATM 15 N N6 ADN . . . F 3 -60.725 -2.115 -36.433 1 54.71 ? N6 ADN 401 A 1 HETATM 16 N N1 ADN . . . F 3 -60.72 -2.442 -38.726 1 54.18 ? N1 ADN 401 A 1 HETATM 17 C C2 ADN . . . F 3 -60.082 -2.724 -39.848 1 55.2 ? C2 ADN 401 A 1 HETATM 18 N N3 ADN . . . F 3 -58.783 -2.963 -39.867 1 55.69 ? N3 ADN 401 A 1 HETATM 19 C C4 ADN . . . F 3 -58.067 -2.926 -38.735 1 56.16 ? C4 ADN 401 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 19 #