data_2H8K # _model_server_result.job_id w802K4psQoOUFIgzRH-Puw _model_server_result.datetime_utc '2024-11-19 10:40:09' _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 2h8k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 2H8K # _exptl.entry_id 2H8K _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-3'-5'-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 2H8K _cell.length_a 87.161 _cell.length_b 108.717 _cell.length_c 136.925 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2H8K _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C10 H15 N5 O10 P2' _chem_comp.formula_weight 427.201 _chem_comp.id A3P _chem_comp.mon_nstd_flag n _chem_comp.name "ADENOSINE-3'-5'-DIPHOSPHATE" _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 P1 O1P A3P doub 1 n n P1 O2P A3P sing 2 n n P1 O3P A3P sing 3 n n P1 O3' A3P sing 4 n n O2P HOP2 A3P sing 5 n n O3P HOP3 A3P sing 6 n n P2 O4P A3P doub 7 n n P2 O5P A3P sing 8 n n P2 O6P A3P sing 9 n n P2 O5' A3P sing 10 n n O5P HOP5 A3P sing 11 n n O6P HOP6 A3P sing 12 n n O5' C5' A3P sing 13 n n C5' C4' A3P sing 14 n n C5' "H5'1" A3P sing 15 n n C5' "H5'2" A3P sing 16 n n C4' O4' A3P sing 17 n n C4' C3' A3P sing 18 n n C4' H4' A3P sing 19 n n O4' C1' A3P sing 20 n n C3' O3' A3P sing 21 n n C3' C2' A3P sing 22 n n C3' H3' A3P sing 23 n n C2' O2' A3P sing 24 n n C2' C1' A3P sing 25 n n C2' H2' A3P sing 26 n n O2' HO2' A3P sing 27 n n C1' N9 A3P sing 28 n n C1' H1' A3P sing 29 n n N9 C8 A3P sing 30 n y N9 C4 A3P sing 31 n y C8 N7 A3P doub 32 n y C8 H8 A3P sing 33 n n N7 C5 A3P sing 34 n y C5 C6 A3P sing 35 n y C5 C4 A3P doub 36 n y C6 N6 A3P sing 37 n n C6 N1 A3P doub 38 n y N6 HN61 A3P sing 39 n n N6 HN62 A3P sing 40 n n N1 C2 A3P sing 41 n y C2 N3 A3P doub 42 n y C2 H2 A3P sing 43 n n N3 C4 A3P sing 44 n y # _atom_sites.entry_id 2H8K _atom_sites.fract_transf_matrix[1][1] 0.011473 _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] 0.009198 _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] 0.007303 _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 A3P A 1 401 401 A3P A3P . D 2 A3P B 1 401 401 A3P A3P . # 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 P1 A3P . . . D 2 34.69 -30.421 12.089 1 58.67 ? P1 A3P 401 B 1 HETATM 2 O O1P A3P . . . D 2 34.199 -29.645 13.283 1 57.51 ? O1P A3P 401 B 1 HETATM 3 O O2P A3P . . . D 2 36.186 -30.385 11.909 1 58.33 ? O2P A3P 401 B 1 HETATM 4 O O3P A3P . . . D 2 33.918 -30.17 10.813 1 57.85 ? O3P A3P 401 B 1 HETATM 5 P P2 A3P . . . D 2 31.648 -37.277 11.311 1 59.5 ? P2 A3P 401 B 1 HETATM 6 O O4P A3P . . . D 2 30.441 -37.537 12.198 1 59.69 ? O4P A3P 401 B 1 HETATM 7 O O5P A3P . . . D 2 32.745 -38.289 11.555 1 58.82 ? O5P A3P 401 B 1 HETATM 8 O O6P A3P . . . D 2 31.359 -36.975 9.847 1 58.3 ? O6P A3P 401 B 1 HETATM 9 O O5' A3P . . . D 2 32.175 -35.873 11.897 1 59.62 ? O5' A3P 401 B 1 HETATM 10 C C5' A3P . . . D 2 33.063 -35.013 11.2 1 59.7 ? C5' A3P 401 B 1 HETATM 11 C C4' A3P . . . D 2 33.719 -34.179 12.28 1 59.8 ? C4' A3P 401 B 1 HETATM 12 O O4' A3P . . . D 2 34.491 -35.043 13.103 1 60.11 ? O4' A3P 401 B 1 HETATM 13 C C3' A3P . . . D 2 34.662 -33.112 11.778 1 59.63 ? C3' A3P 401 B 1 HETATM 14 O O3' A3P . . . D 2 34.393 -31.942 12.563 1 59.15 ? O3' A3P 401 B 1 HETATM 15 C C2' A3P . . . D 2 36.004 -33.686 12.101 1 59.09 ? C2' A3P 401 B 1 HETATM 16 O O2' A3P . . . D 2 36.963 -32.675 12.289 1 58.09 ? O2' A3P 401 B 1 HETATM 17 C C1' A3P . . . D 2 35.718 -34.415 13.382 1 60.48 ? C1' A3P 401 B 1 HETATM 18 N N9 A3P . . . D 2 36.746 -35.413 13.709 1 60.71 ? N9 A3P 401 B 1 HETATM 19 C C8 A3P . . . D 2 37.157 -36.405 12.906 1 61.45 ? C8 A3P 401 B 1 HETATM 20 N N7 A3P . . . D 2 38.12 -37.136 13.513 1 61.49 ? N7 A3P 401 B 1 HETATM 21 C C5 A3P . . . D 2 38.321 -36.614 14.726 1 60.9 ? C5 A3P 401 B 1 HETATM 22 C C6 A3P . . . D 2 39.209 -36.918 15.883 1 61.74 ? C6 A3P 401 B 1 HETATM 23 N N6 A3P . . . D 2 40.094 -37.966 15.867 1 61.16 ? N6 A3P 401 B 1 HETATM 24 N N1 A3P . . . D 2 39.1 -36.111 16.986 1 62.07 ? N1 A3P 401 B 1 HETATM 25 C C2 A3P . . . D 2 38.227 -35.067 17.023 1 61.59 ? C2 A3P 401 B 1 HETATM 26 N N3 A3P . . . D 2 37.407 -34.767 15.994 1 61.12 ? N3 A3P 401 B 1 HETATM 27 C C4 A3P . . . D 2 37.411 -35.486 14.85 1 60.45 ? C4 A3P 401 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 27 #