data_2JKI # _model_server_result.job_id sGhk6h9Jgm5SXcf9z5T6Fg _model_server_result.datetime_utc '2025-01-02 16:13:37' _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 2jki # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":1218}' # _entry.id 2JKI # _exptl.entry_id 2JKI _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _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 2JKI _cell.length_a 100.268 _cell.length_b 129.654 _cell.length_c 135.998 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2JKI _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS dimeric 2 author_and_software_defined_assembly 1 PQS dimeric 2 author_and_software_defined_assembly 2 PQS dimeric 2 author_and_software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,D,G 1 1 B,E,H 2 1 C,F,I 3 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 G N N ? 3 H N N ? 3 I N 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 2JKI _atom_sites.fract_transf_matrix[1][1] 0.009973 _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] 0.007713 _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] 0.007353 _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 G 3 ADP A 1 1218 1218 ADP ADP . H 3 ADP B 1 1218 1218 ADP ADP . I 3 ADP C 1 1218 1218 ADP ADP . # 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 . . . H 3 35.921 -66.967 15.972 1 93.37 ? PB ADP 1218 B 1 HETATM 2 O O1B ADP . . . H 3 36.918 -67.022 14.821 1 51.54 ? O1B ADP 1218 B 1 HETATM 3 O O2B ADP . . . H 3 34.644 -66.064 16.041 1 1.22 ? O2B ADP 1218 B 1 HETATM 4 O O3B ADP . . . H 3 36.583 -66.94 17.324 1 65.35 ? O3B ADP 1218 B 1 HETATM 5 P PA ADP . . . H 3 34.05 -68.986 15.718 1 48.5 ? PA ADP 1218 B 1 HETATM 6 O O1A ADP . . . H 3 33.236 -67.767 15.316 1 73.46 ? O1A ADP 1218 B 1 HETATM 7 O O2A ADP . . . H 3 33.9 -70.263 14.976 1 31 ? O2A ADP 1218 B 1 HETATM 8 O O3A ADP . . . H 3 35.583 -68.518 15.695 1 43.49 ? O3A ADP 1218 B 1 HETATM 9 O O5' ADP . . . H 3 33.748 -69.273 17.269 1 47.66 ? O5' ADP 1218 B 1 HETATM 10 C C5' ADP . . . H 3 33.65 -68.133 18.123 1 45.9 ? C5' ADP 1218 B 1 HETATM 11 C C4' ADP . . . H 3 32.66 -68.501 19.201 1 43.75 ? C4' ADP 1218 B 1 HETATM 12 O O4' ADP . . . H 3 32.733 -69.906 19.497 1 18.61 ? O4' ADP 1218 B 1 HETATM 13 C C3' ADP . . . H 3 33.056 -67.689 20.413 1 59.77 ? C3' ADP 1218 B 1 HETATM 14 O O3' ADP . . . H 3 31.951 -66.899 20.878 1 79.67 ? O3' ADP 1218 B 1 HETATM 15 C C2' ADP . . . H 3 33.488 -68.729 21.428 1 63.4 ? C2' ADP 1218 B 1 HETATM 16 O O2' ADP . . . H 3 32.901 -68.491 22.717 1 50.33 ? O2' ADP 1218 B 1 HETATM 17 C C1' ADP . . . H 3 33.124 -70.101 20.86 1 40.09 ? C1' ADP 1218 B 1 HETATM 18 N N9 ADP . . . H 3 34.351 -70.94 20.991 1 40.87 ? N9 ADP 1218 B 1 HETATM 19 C C8 ADP . . . H 3 35.012 -71.572 19.996 1 47.11 ? C8 ADP 1218 B 1 HETATM 20 N N7 ADP . . . H 3 36.103 -72.248 20.454 1 49.9 ? N7 ADP 1218 B 1 HETATM 21 C C5 ADP . . . H 3 36.152 -72.039 21.793 1 45.38 ? C5 ADP 1218 B 1 HETATM 22 C C6 ADP . . . H 3 37.048 -72.455 22.907 1 57.06 ? C6 ADP 1218 B 1 HETATM 23 N N6 ADP . . . H 3 38.126 -73.25 22.662 1 65.16 ? N6 ADP 1218 B 1 HETATM 24 N N1 ADP . . . H 3 36.758 -72.023 24.161 1 50.7 ? N1 ADP 1218 B 1 HETATM 25 C C2 ADP . . . H 3 35.685 -71.238 24.391 1 47.63 ? C2 ADP 1218 B 1 HETATM 26 N N3 ADP . . . H 3 34.833 -70.823 23.436 1 36.26 ? N3 ADP 1218 B 1 HETATM 27 C C4 ADP . . . H 3 35.007 -71.179 22.138 1 37.07 ? C4 ADP 1218 B 1 # _model_server_stats.io_time_ms 55 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 24 _model_server_stats.query_time_ms 229 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #