data_6OTT # _model_server_result.job_id zT3aAzh7MEEH60WWFEiwIQ _model_server_result.datetime_utc '2025-03-11 19:35:26' _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 6ott # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":602}' # _entry.id 6OTT # _exptl.entry_id 6OTT _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 587.161 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "adenosine 3',5'-bis(trihydrogen diphosphate)" _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 6OTT _cell.length_a 115.23 _cell.length_b 156.83 _cell.length_c 107.48 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6OTT _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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' 3_654 -x+1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 115.23 0 -53.74 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F 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 metalc ? metalc1 C MG MG . A MG 601 1_555 D O13 N7Y . A N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc2 C MG MG . A MG 601 1_555 D O12 N7Y . A N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc3 C MG MG . A MG 601 1_555 D O6 N7Y . A N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? metalc ? metalc4 C MG MG . A MG 601 1_555 D O7 N7Y . A N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc5 C MG MG . A MG 601 1_555 D O13 N7Y . A N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.8 ? metalc ? metalc6 C MG MG . A MG 601 1_555 D O3 N7Y . A N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc7 C MG MG . A MG 601 1_555 D O7 N7Y . A N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc8 C MG MG . A MG 601 1_555 D O4 N7Y . A N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc9 C MG MG . A MG 601 1_555 D O6 N7Y . A N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc10 C MG MG . A MG 601 1_555 D O1 N7Y . A N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc11 E MG MG . B MG 601 1_555 F O6 N7Y . B N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.387 ? metalc ? metalc12 E MG MG . B MG 601 1_555 F O12 N7Y . B N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc13 E MG MG . B MG 601 1_555 F O13 N7Y . B N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc14 E MG MG . B MG 601 1_555 F O7 N7Y . B N7Y 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.501 ? metalc ? metalc15 E MG MG . B MG 601 1_555 F O3 N7Y . B N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? metalc ? metalc16 E MG MG . B MG 601 1_555 F O4 N7Y . B N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.408 ? metalc ? metalc17 E MG MG . B MG 601 1_555 F O7 N7Y . B N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.411 ? metalc ? metalc18 E MG MG . B MG 601 1_555 F O1 N7Y . B N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? metalc ? metalc19 E MG MG . B MG 601 1_555 F O6 N7Y . B N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc20 E MG MG . B MG 601 1_555 F O13 N7Y . B N7Y 602 3_654 ? ? ? ? ? ? ? ? ? ? ? ? 2.82 ? # _chem_comp.formula 'C10 H17 N5 O16 P4' _chem_comp.formula_weight 587.161 _chem_comp.id N7Y _chem_comp.mon_nstd_flag . _chem_comp.name "adenosine 3',5'-bis(trihydrogen 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 N1 C1 N7Y doub 235 n y N1 C N7Y sing 236 n y C1 N2 N7Y sing 237 n y N C N7Y sing 238 n n C C3 N7Y doub 239 n y N2 C2 N7Y doub 240 n y C2 C3 N7Y sing 241 n y C2 N4 N7Y sing 242 n y C3 N3 N7Y sing 243 n y N4 C5 N7Y sing 244 n n N4 C4 N7Y sing 245 n y N3 C4 N7Y doub 246 n y C5 O15 N7Y sing 247 n n C5 C6 N7Y sing 248 n n O15 C8 N7Y sing 249 n n O C6 N7Y sing 250 n n C6 C7 N7Y sing 251 n n O1 C7 N7Y sing 252 n n O1 P N7Y sing 253 n n O2 P N7Y doub 254 n n C8 C7 N7Y sing 255 n n C8 C9 N7Y sing 256 n n C9 O8 N7Y sing 257 n n P O3 N7Y sing 258 n n P O7 N7Y sing 259 n n O4 P1 N7Y doub 260 n n O3 P1 N7Y sing 261 n n P1 O5 N7Y sing 262 n n P1 O6 N7Y sing 263 n n O8 P2 N7Y sing 264 n n O13 P2 N7Y doub 265 n n P2 O14 N7Y sing 266 n n P2 O9 N7Y sing 267 n n O10 P3 N7Y doub 268 n n O9 P3 N7Y sing 269 n n O12 P3 N7Y sing 270 n n P3 O11 N7Y sing 271 n n C4 H7 N7Y sing 272 n n C5 H N7Y sing 273 n n C6 H1 N7Y sing 274 n n C7 H2 N7Y sing 275 n n C8 H3 N7Y sing 276 n n C9 H9 N7Y sing 277 n n C9 H10 N7Y sing 278 n n O5 H11 N7Y sing 279 n n O6 H12 N7Y sing 280 n n O7 H13 N7Y sing 281 n n N H5 N7Y sing 282 n n N H4 N7Y sing 283 n n O H8 N7Y sing 284 n n C1 H6 N7Y sing 285 n n O11 H14 N7Y sing 286 n n O12 H15 N7Y sing 287 n n O14 H16 N7Y sing 288 n n # _atom_sites.entry_id 6OTT _atom_sites.fract_transf_matrix[1][1] 0.008678 _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] 0.006376 _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] 0.009304 _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 MG A 1 601 501 MG MG . D 3 N7Y A 1 602 502 N7Y XXX . E 2 MG B 1 601 501 MG MG . F 3 N7Y B 1 602 502 N7Y XXX . # 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 O3 N7Y . . . D 3 57.869 32.33 -28.76 0.5 62.95 ? O3 N7Y 602 A 1 HETATM 2 C C4 N7Y . . . D 3 55.797 25.64 -31.417 0.5 62.95 ? C4 N7Y 602 A 1 HETATM 3 C C5 N7Y . . . D 3 57.126 27.788 -31.634 0.5 62.95 ? C5 N7Y 602 A 1 HETATM 4 O O4 N7Y . . . D 3 55.197 31.641 -28.885 0.5 62.95 -1 O4 N7Y 602 A 1 HETATM 5 C C6 N7Y . . . D 3 56.431 28.534 -30.485 0.5 62.95 ? C6 N7Y 602 A 1 HETATM 6 N N1 N7Y . . . D 3 55.263 25.385 -35.795 0.5 62.95 ? N1 N7Y 602 A 1 HETATM 7 C C7 N7Y . . . D 3 57.614 28.834 -29.567 0.5 62.95 ? C7 N7Y 602 A 1 HETATM 8 C C8 N7Y . . . D 3 58.484 27.599 -29.737 0.5 62.95 ? C8 N7Y 602 A 1 HETATM 9 N N2 N7Y . . . D 3 56.426 27.079 -34.54 0.5 62.95 ? N2 N7Y 602 A 1 HETATM 10 C C9 N7Y . . . D 3 58.043 26.397 -28.94 0.5 62.95 ? C9 N7Y 602 A 1 HETATM 11 O O5 N7Y . . . D 3 55.905 33.854 -27.906 0.5 62.95 -1 O5 N7Y 602 A 1 HETATM 12 O O6 N7Y . . . D 3 56.317 31.722 -26.628 0.5 62.95 ? O6 N7Y 602 A 1 HETATM 13 N N3 N7Y . . . D 3 55.171 24.746 -32.144 0.5 62.95 ? N3 N7Y 602 A 1 HETATM 14 O O7 N7Y . . . D 3 59.445 30.704 -27.625 0.5 62.95 ? O7 N7Y 602 A 1 HETATM 15 O O8 N7Y . . . D 3 58.493 26.529 -27.574 0.5 62.95 ? O8 N7Y 602 A 1 HETATM 16 N N4 N7Y . . . D 3 56.364 26.651 -32.149 0.5 62.95 ? N4 N7Y 602 A 1 HETATM 17 N N N7Y . . . D 3 54.196 23.585 -34.834 0.5 62.95 ? N N7Y 602 A 1 HETATM 18 C C N7Y . . . D 3 54.918 24.694 -34.687 0.5 62.95 ? C N7Y 602 A 1 HETATM 19 O O N7Y . . . D 3 55.841 29.741 -30.957 0.5 62.95 ? O N7Y 602 A 1 HETATM 20 C C1 N7Y . . . D 3 55.976 26.505 -35.658 0.5 62.95 ? C1 N7Y 602 A 1 HETATM 21 C C2 N7Y . . . D 3 56.075 26.374 -33.459 0.5 62.95 ? C2 N7Y 602 A 1 HETATM 22 C C3 N7Y . . . D 3 55.339 25.197 -33.445 0.5 62.95 ? C3 N7Y 602 A 1 HETATM 23 O O1 N7Y . . . D 3 58.323 30.041 -29.921 0.5 62.95 ? O1 N7Y 602 A 1 HETATM 24 O O10 N7Y . . . D 3 60.962 26.975 -25.338 0.5 62.95 -1 O10 N7Y 602 A 1 HETATM 25 O O11 N7Y . . . D 3 59.995 26.982 -23.01 0.5 63.16 -1 O11 N7Y 602 A 1 HETATM 26 O O12 N7Y . . . D 3 59.742 29.011 -24.487 0.5 62.95 ? O12 N7Y 602 A 1 HETATM 27 O O13 N7Y . . . D 3 57.052 28.251 -26.461 0.5 62.95 -1 O13 N7Y 602 A 1 HETATM 28 O O14 N7Y . . . D 3 56.408 25.788 -26.391 0.5 62.95 ? O14 N7Y 602 A 1 HETATM 29 O O15 N7Y . . . D 3 58.368 27.308 -31.145 0.5 62.95 ? O15 N7Y 602 A 1 HETATM 30 O O2 N7Y . . . D 3 60.112 31.883 -29.786 0.5 62.95 -1 O2 N7Y 602 A 1 HETATM 31 O O9 N7Y . . . D 3 58.41 26.631 -25.118 0.5 62.95 ? O9 N7Y 602 A 1 HETATM 32 P P N7Y . . . D 3 59.063 31.277 -28.934 0.5 62.95 ? P N7Y 602 A 1 HETATM 33 P P1 N7Y . . . D 3 56.178 32.367 -27.989 0.5 62.95 ? P1 N7Y 602 A 1 HETATM 34 P P2 N7Y . . . D 3 57.461 26.832 -26.392 0.5 62.95 ? P2 N7Y 602 A 1 HETATM 35 P P3 N7Y . . . D 3 59.875 27.505 -24.427 0.5 62.95 ? P3 N7Y 602 A 1 HETATM 36 H H7 N7Y . . . D 3 55.86 25.585 -30.332 0.5 75.54 ? H7 N7Y 602 A 1 HETATM 37 H H N7Y . . . D 3 57.353 28.428 -32.486 0.5 75.54 ? H N7Y 602 A 1 HETATM 38 H H1 N7Y . . . D 3 55.669 27.9 -30.034 0.5 75.54 ? H1 N7Y 602 A 1 HETATM 39 H H2 N7Y . . . D 3 57.319 28.943 -28.525 0.5 75.54 ? H2 N7Y 602 A 1 HETATM 40 H H3 N7Y . . . D 3 59.536 27.781 -29.523 0.5 75.54 ? H3 N7Y 602 A 1 HETATM 41 H H9 N7Y . . . D 3 58.452 25.478 -29.359 0.5 75.54 ? H9 N7Y 602 A 1 HETATM 42 H H10 N7Y . . . D 3 56.959 26.3 -28.947 0.5 75.54 ? H10 N7Y 602 A 1 HETATM 43 H H5 N7Y . . . D 3 53.929 23.282 -35.765 0.5 75.54 ? H5 N7Y 602 A 1 HETATM 44 H H4 N7Y . . . D 3 53.922 23.055 -34.013 0.5 75.54 ? H4 N7Y 602 A 1 HETATM 45 H H8 N7Y . . . D 3 55.321 29.438 -31.747 0.5 75.54 ? H8 N7Y 602 A 1 HETATM 46 H H6 N7Y . . . D 3 56.242 27.047 -36.564 0.5 75.54 ? H6 N7Y 602 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 25 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 46 #