data_6S5G # _model_server_result.job_id ErUAjixEWGUC4YrD38IsFw _model_server_result.datetime_utc '2024-11-08 16:07:15' _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 6s5g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":601}' # _entry.id 6S5G # _exptl.entry_id 6S5G _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-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 8 _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 6S5G _cell.length_a 85.335 _cell.length_b 132.925 _cell.length_c 203.263 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6S5G _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J 1 1 G,H,O,P 1 2 C,D,K,L 1 3 E,F,M,N 1 4 # 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' 1_655 x+1,y,z 1 0 0 0 1 0 0 0 1 85.335 0 0 3 'crystal symmetry operation' 2_455 -x-1/2,-y,z+1/2 -1 0 0 0 -1 0 0 0 1 -42.6675 0 101.6315 4 'crystal symmetry operation' 4_555 x+1/2,-y+1/2,-z 1 0 0 0 -1 0 0 0 -1 42.6675 66.4625 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N ? 2 M N N ? 2 N N N ? 2 O N N ? 2 P 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 6S5G _atom_sites.fract_transf_matrix[1][1] 0.011719 _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] 0.007523 _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] 0.00492 _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 I 2 ADP A 1 601 601 ADP ADP . J 2 ADP B 1 601 601 ADP ADP . K 2 ADP C 1 601 601 ADP ADP . L 2 ADP D 1 601 601 ADP ADP . M 2 ADP E 1 601 601 ADP ADP . N 2 ADP F 1 601 601 ADP ADP . O 2 ADP G 1 601 601 ADP ADP . P 2 ADP H 1 601 601 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 . . . O 2 -65.95 5.17 -0.206 1 97.71 ? PB ADP 601 G 1 HETATM 2 O O1B ADP . . . O 2 -66.119 4.536 -1.564 1 95.89 -1 O1B ADP 601 G 1 HETATM 3 O O2B ADP . . . O 2 -66.435 4.326 0.949 1 97.64 ? O2B ADP 601 G 1 HETATM 4 O O3B ADP . . . O 2 -64.607 5.824 0.001 1 98.58 ? O3B ADP 601 G 1 HETATM 5 P PA ADP . . . O 2 -67.198 7.357 1.034 1 99.77 ? PA ADP 601 G 1 HETATM 6 O O1A ADP . . . O 2 -68.67 7.369 1.366 1 101.7 -1 O1A ADP 601 G 1 HETATM 7 O O2A ADP . . . O 2 -66.189 7.036 2.109 1 100.74 ? O2A ADP 601 G 1 HETATM 8 O O3A ADP . . . O 2 -66.965 6.416 -0.25 1 99.32 ? O3A ADP 601 G 1 HETATM 9 O O5' ADP . . . O 2 -66.809 8.789 0.417 1 99.87 ? O5' ADP 601 G 1 HETATM 10 C C5' ADP . . . O 2 -67.781 9.557 -0.284 1 100.02 ? C5' ADP 601 G 1 HETATM 11 C C4' ADP . . . O 2 -67.185 10.921 -0.594 1 99.9 ? C4' ADP 601 G 1 HETATM 12 O O4' ADP . . . O 2 -67.562 11.35 -1.902 1 99.84 ? O4' ADP 601 G 1 HETATM 13 C C3' ADP . . . O 2 -67.68 11.965 0.392 1 100.85 ? C3' ADP 601 G 1 HETATM 14 O O3' ADP . . . O 2 -66.606 12.386 1.238 1 101.39 ? O3' ADP 601 G 1 HETATM 15 C C2' ADP . . . O 2 -68.172 13.124 -0.452 1 100.36 ? C2' ADP 601 G 1 HETATM 16 O O2' ADP . . . O 2 -67.502 14.328 -0.072 1 99.93 ? O2' ADP 601 G 1 HETATM 17 C C1' ADP . . . O 2 -67.842 12.75 -1.89 1 99.93 ? C1' ADP 601 G 1 HETATM 18 N N9 ADP . . . O 2 -68.991 13.047 -2.78 1 102.91 ? N9 ADP 601 G 1 HETATM 19 C C8 ADP . . . O 2 -70.214 12.493 -2.695 1 102.73 ? C8 ADP 601 G 1 HETATM 20 N N7 ADP . . . O 2 -71.039 12.981 -3.657 1 102.78 ? N7 ADP 601 G 1 HETATM 21 C C5 ADP . . . O 2 -70.336 13.873 -4.379 1 102.8 ? C5 ADP 601 G 1 HETATM 22 C C6 ADP . . . O 2 -70.6 14.754 -5.542 1 101.51 ? C6 ADP 601 G 1 HETATM 23 N N6 ADP . . . O 2 -71.814 14.781 -6.141 1 102.5 ? N6 ADP 601 G 1 HETATM 24 N N1 ADP . . . O 2 -69.588 15.532 -5.985 1 101.4 ? N1 ADP 601 G 1 HETATM 25 C C2 ADP . . . O 2 -68.376 15.515 -5.401 1 100.93 ? C2 ADP 601 G 1 HETATM 26 N N3 ADP . . . O 2 -68.066 14.742 -4.344 1 102.28 ? N3 ADP 601 G 1 HETATM 27 C C4 ADP . . . O 2 -68.987 13.914 -3.795 1 103.31 ? C4 ADP 601 G 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 349 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #