data_8GFT # _model_server_result.job_id k_2Cw2TMFja-0WzTLJ4Oiw _model_server_result.datetime_utc '2024-10-10 03:29:10' _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 8gft # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":801}' # _entry.id 8GFT # _exptl.entry_id 8GFT _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _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 8GFT _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8GFT _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details pentameric _pdbx_struct_assembly.oligomeric_count 5 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M _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 ? _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 covale ? covale1 C C VAL 12 C VAL 12 1_555 C N SEP 13 C SEP 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.312 ? covale ? covale2 C C SEP 13 C SEP 13 1_555 C N ASP 14 C ASP 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.321 ? metalc ? metalc1 A OD1 ASN 49 A ASN 46 1_555 G MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc2 A O ASN 104 A ASN 101 1_555 H K K . A K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.398 ? metalc ? metalc3 A O THR 107 A THR 104 1_555 H K K . A K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.136 ? metalc ? metalc4 A O GLY 133 A GLY 130 1_555 H K K . A K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.769 ? metalc ? metalc5 A OH TYR 137 A TYR 134 1_555 H K K . A K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.84 ? metalc ? metalc6 F O2B ADP . A ADP 801 1_555 G MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? metalc ? metalc7 F O2A ADP . A ADP 801 1_555 G MG MG . A MG 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? metalc ? metalc8 B OD1 ASN 49 B ASN 47 1_555 I MG MG . B MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc9 B O ASN 104 B ASN 102 1_555 K K K . B K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.273 ? metalc ? metalc10 B O THR 107 B THR 105 1_555 K K K . B K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.363 ? metalc ? metalc11 B O LYS 110 B LYS 108 1_555 K K K . B K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.604 ? metalc ? metalc12 B O GLY 133 B GLY 131 1_555 K K K . B K 803 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.859 ? metalc ? metalc13 I MG MG . B MG 801 1_555 J O3G ATP . B ATP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.882 ? metalc ? metalc14 I MG MG . B MG 801 1_555 J O1B ATP . B ATP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.894 ? metalc ? metalc15 I MG MG . B MG 801 1_555 J O2A ATP . B ATP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.886 ? metalc ? metalc16 E OD2 ASP 246 E ASP 242 1_555 L MN MN . E MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc17 E OD2 ASP 275 E ASP 271 1_555 L MN MN . E MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.951 ? metalc ? metalc18 E OD2 ASP 278 E ASP 274 1_555 L MN MN . E MN 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.971 ? metalc ? metalc19 E OD1 ASN 307 E ASN 303 1_555 M MN MN . E MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.119 ? metalc ? metalc20 E ND1 HIS 431 E HIS 427 1_555 M MN MN . E MN 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.344 ? # _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 ? # _atom_sites.entry_id 8GFT _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 F 5 ADP A 1 801 999 ADP ADP . G 6 MG A 1 802 998 MG MG . H 7 K A 1 803 997 K K . I 6 MG B 1 801 998 MG MG . J 8 ATP B 1 802 999 ATP ATP . K 7 K B 1 803 997 K K . L 9 MN E 1 501 501 MN MN . M 9 MN E 1 502 502 MN MN . # 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 . . . F 5 131.678 142.644 100.13 1 108.69 ? PB ADP 801 A 1 HETATM 2 O O1B ADP . . . F 5 132.475 142.761 98.892 1 108.69 ? O1B ADP 801 A 1 HETATM 3 O O2B ADP . . . F 5 132.518 142.782 101.363 1 108.69 ? O2B ADP 801 A 1 HETATM 4 O O3B ADP . . . F 5 131.026 141.313 100.145 1 108.69 ? O3B ADP 801 A 1 HETATM 5 P PA ADP . . . F 5 130.676 145.104 100.704 1 108.69 ? PA ADP 801 A 1 HETATM 6 O O1A ADP . . . F 5 129.338 145.653 101.012 1 108.69 ? O1A ADP 801 A 1 HETATM 7 O O2A ADP . . . F 5 131.516 145.199 101.939 1 108.69 ? O2A ADP 801 A 1 HETATM 8 O O3A ADP . . . F 5 130.527 143.68 100.11 1 108.69 ? O3A ADP 801 A 1 HETATM 9 O O5' ADP . . . F 5 131.32 145.854 99.455 1 108.69 ? O5' ADP 801 A 1 HETATM 10 C C5' ADP . . . F 5 130.522 146.035 98.284 1 108.69 ? C5' ADP 801 A 1 HETATM 11 C C4' ADP . . . F 5 131.426 146.226 97.052 1 108.69 ? C4' ADP 801 A 1 HETATM 12 O O4' ADP . . . F 5 132.039 147.517 97.07 1 108.69 ? O4' ADP 801 A 1 HETATM 13 C C3' ADP . . . F 5 132.631 145.3 97.003 1 108.69 ? C3' ADP 801 A 1 HETATM 14 O O3' ADP . . . F 5 132.291 143.975 96.586 1 108.69 ? O3' ADP 801 A 1 HETATM 15 C C2' ADP . . . F 5 133.545 146.02 96.024 1 108.69 ? C2' ADP 801 A 1 HETATM 16 O O2' ADP . . . F 5 133.157 145.611 94.731 1 108.69 ? O2' ADP 801 A 1 HETATM 17 C C1' ADP . . . F 5 133.218 147.506 96.246 1 108.69 ? C1' ADP 801 A 1 HETATM 18 N N9 ADP . . . F 5 134.262 148.216 96.953 1 108.69 ? N9 ADP 801 A 1 HETATM 19 C C8 ADP . . . F 5 134.259 148.656 98.275 1 108.69 ? C8 ADP 801 A 1 HETATM 20 N N7 ADP . . . F 5 135.338 149.4 98.58 1 108.69 ? N7 ADP 801 A 1 HETATM 21 C C5 ADP . . . F 5 135.994 149.428 97.384 1 108.69 ? C5 ADP 801 A 1 HETATM 22 C C6 ADP . . . F 5 137.159 150.097 97.044 1 108.69 ? C6 ADP 801 A 1 HETATM 23 N N6 ADP . . . F 5 137.834 150.866 97.899 1 108.69 ? N6 ADP 801 A 1 HETATM 24 N N1 ADP . . . F 5 137.68 150.056 95.837 1 108.69 ? N1 ADP 801 A 1 HETATM 25 C C2 ADP . . . F 5 137.01 149.306 94.955 1 108.69 ? C2 ADP 801 A 1 HETATM 26 N N3 ADP . . . F 5 135.88 148.612 95.18 1 108.69 ? N3 ADP 801 A 1 HETATM 27 C C4 ADP . . . F 5 135.387 148.719 96.413 1 108.69 ? C4 ADP 801 A 1 HETATM 28 H "H5'1" ADP . . . F 5 129.895 145.152 98.11 1 108.69 ? "H5'1" ADP 801 A 1 HETATM 29 H "H5'2" ADP . . . F 5 129.869 146.907 98.408 1 108.69 ? "H5'2" ADP 801 A 1 HETATM 30 H H4' ADP . . . F 5 130.828 146.125 96.138 1 108.69 ? H4' ADP 801 A 1 HETATM 31 H H3' ADP . . . F 5 133.131 145.28 97.979 1 108.69 ? H3' ADP 801 A 1 HETATM 32 H HO3' ADP . . . F 5 132.376 143.461 97.409 1 108.69 ? HO3' ADP 801 A 1 HETATM 33 H H2' ADP . . . F 5 134.6 145.792 96.217 1 108.69 ? H2' ADP 801 A 1 HETATM 34 H HO2' ADP . . . F 5 132.875 144.704 94.943 1 108.69 ? HO2' ADP 801 A 1 HETATM 35 H H1' ADP . . . F 5 133.04 148.019 95.293 1 108.69 ? H1' ADP 801 A 1 HETATM 36 H H8 ADP . . . F 5 133.448 148.42 98.952 1 108.69 ? H8 ADP 801 A 1 HETATM 37 H HN61 ADP . . . F 5 138.826 150.915 97.713 1 108.69 ? HN61 ADP 801 A 1 HETATM 38 H HN62 ADP . . . F 5 137.548 150.74 98.862 1 108.69 ? HN62 ADP 801 A 1 HETATM 39 H H2 ADP . . . F 5 137.416 149.251 93.949 1 108.69 ? H2 ADP 801 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 44 _model_server_stats.query_time_ms 269 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 39 #