data_7JL1 # _model_server_result.job_id jELXCkbMZzhl-Y6HGcLQWQ _model_server_result.datetime_utc '2024-11-22 00:37:50' _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 7jl1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":2001}' # _entry.id 7JL1 # _exptl.entry_id 7JL1 _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 7JL1 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7JL1 _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 tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 E _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 metalc ? metalc1 A SG CYS 607 A CYS 810 1_555 H ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? metalc ? metalc2 A SG CYS 610 A CYS 813 1_555 H ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc3 A SG CYS 661 A CYS 864 1_555 H ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc4 A SG CYS 666 A CYS 869 1_555 H ZN ZN . A ZN 2004 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc5 E O1B ADP . A ADP 2001 1_555 G MG MG . A MG 2003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.793 ? hydrog WATSON-CRICK hydrog1 B N1 G 1 X G 1 1_555 C N3 C 14 Y C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 G 1 X G 1 1_555 C O2 C 14 Y C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 G 1 X G 1 1_555 C N4 C 14 Y C 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'A-U PAIR' hydrog4 B N6 A 2 X A 2 1_555 C O4 U 13 Y U 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N3 C 3 X C 3 1_555 C N1 G 12 Y G 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B N4 C 3 X C 3 1_555 C O6 G 12 Y G 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B O2 C 3 X C 3 1_555 C N2 G 12 Y G 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N3 U 4 X U 4 1_555 C N1 A 11 Y A 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 B O4 U 4 X U 4 1_555 C N6 A 11 Y A 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N1 G 5 X G 5 1_555 C N3 C 10 Y C 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N2 G 5 X G 5 1_555 C O2 C 10 Y C 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B O6 G 5 X G 5 1_555 C N4 C 10 Y C 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N1 A 6 X A 6 1_555 C N3 U 9 Y U 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N6 A 6 X A 6 1_555 C O4 U 9 Y U 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B N3 C 7 X C 7 1_555 C N1 G 8 Y G 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B N4 C 7 X C 7 1_555 C O6 G 8 Y G 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B O2 C 7 X C 7 1_555 C N2 G 8 Y G 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B N3 U 8 X U 8 1_555 C N1 A 7 Y A 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B O4 U 8 X U 8 1_555 C N6 A 7 Y A 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B N1 G 9 X G 9 1_555 C N3 C 6 Y C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N2 G 9 X G 9 1_555 C O2 C 6 Y C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B O6 G 9 X G 9 1_555 C N4 C 6 Y C 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B N1 A 10 X A 10 1_555 C N3 U 5 Y U 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N6 A 10 X A 10 1_555 C O4 U 5 Y U 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'C-G PAIR' hydrog25 B O2 C 11 X C 11 1_555 C N2 G 4 Y G 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B N3 U 12 X U 12 1_555 C N1 A 3 Y A 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B O4 U 12 X U 12 1_555 C N6 A 3 Y A 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'G-C PAIR' hydrog28 B O6 G 13 X G 13 1_555 C N4 C 2 Y C 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _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 40 n n PB O2B ADP sing 41 n n PB O3B ADP sing 42 n n PB O3A ADP sing 43 n n O2B HOB2 ADP sing 44 n n O3B HOB3 ADP sing 45 n n PA O1A ADP doub 46 n n PA O2A ADP sing 47 n n PA O3A ADP sing 48 n n PA O5' ADP sing 49 n n O2A HOA2 ADP sing 50 n n O5' C5' ADP sing 51 n n C5' C4' ADP sing 52 n n C5' "H5'1" ADP sing 53 n n C5' "H5'2" ADP sing 54 n n C4' O4' ADP sing 55 n n C4' C3' ADP sing 56 n n C4' H4' ADP sing 57 n n O4' C1' ADP sing 58 n n C3' O3' ADP sing 59 n n C3' C2' ADP sing 60 n n C3' H3' ADP sing 61 n n O3' HO3' ADP sing 62 n n C2' O2' ADP sing 63 n n C2' C1' ADP sing 64 n n C2' H2' ADP sing 65 n n O2' HO2' ADP sing 66 n n C1' N9 ADP sing 67 n n C1' H1' ADP sing 68 n n N9 C8 ADP sing 69 n y N9 C4 ADP sing 70 n y C8 N7 ADP doub 71 n y C8 H8 ADP sing 72 n n N7 C5 ADP sing 73 n y C5 C6 ADP sing 74 n y C5 C4 ADP doub 75 n y C6 N6 ADP sing 76 n n C6 N1 ADP doub 77 n y N6 HN61 ADP sing 78 n n N6 HN62 ADP sing 79 n n N1 C2 ADP sing 80 n y C2 N3 ADP doub 81 n y C2 H2 ADP sing 82 n n N3 C4 ADP sing 83 n y # _atom_sites.entry_id 7JL1 _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 E 5 ADP A 1 2001 2001 ADP ADP . F 6 ALF A 1 2002 2002 ALF ALF . G 7 MG A 1 2003 2003 MG MG . H 8 ZN A 1 2004 4001 ZN ZN . # 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 . . . E 5 146.925 140.236 156.846 1 46.71 ? PB ADP 2001 A 1 HETATM 2 O O1B ADP . . . E 5 146.927 141.312 155.819 1 46.71 ? O1B ADP 2001 A 1 HETATM 3 O O2B ADP . . . E 5 148.244 140.083 157.526 1 46.71 ? O2B ADP 2001 A 1 HETATM 4 O O3B ADP . . . E 5 145.749 140.265 157.762 1 46.71 ? O3B ADP 2001 A 1 HETATM 5 P PA ADP . . . E 5 146.487 139.078 154.399 1 46.71 ? PA ADP 2001 A 1 HETATM 6 O O1A ADP . . . E 5 147.807 139.445 153.814 1 46.71 ? O1A ADP 2001 A 1 HETATM 7 O O2A ADP . . . E 5 145.297 139.95 154.152 1 46.71 ? O2A ADP 2001 A 1 HETATM 8 O O3A ADP . . . E 5 146.732 138.923 155.968 1 46.71 ? O3A ADP 2001 A 1 HETATM 9 O O5' ADP . . . E 5 146.173 137.585 153.933 1 46.71 ? O5' ADP 2001 A 1 HETATM 10 C C5' ADP . . . E 5 147.283 136.727 153.78 1 46.71 ? C5' ADP 2001 A 1 HETATM 11 C C4' ADP . . . E 5 147.023 135.665 152.734 1 46.71 ? C4' ADP 2001 A 1 HETATM 12 O O4' ADP . . . E 5 145.928 134.815 153.043 1 46.71 ? O4' ADP 2001 A 1 HETATM 13 C C3' ADP . . . E 5 146.686 136.275 151.399 1 46.71 ? C3' ADP 2001 A 1 HETATM 14 O O3' ADP . . . E 5 147.867 136.399 150.621 1 46.71 ? O3' ADP 2001 A 1 HETATM 15 C C2' ADP . . . E 5 145.827 135.236 150.746 1 46.71 ? C2' ADP 2001 A 1 HETATM 16 O O2' ADP . . . E 5 146.585 134.615 149.717 1 46.71 ? O2' ADP 2001 A 1 HETATM 17 C C1' ADP . . . E 5 145.532 134.217 151.817 1 46.71 ? C1' ADP 2001 A 1 HETATM 18 N N9 ADP . . . E 5 144.082 134.011 151.728 1 46.71 ? N9 ADP 2001 A 1 HETATM 19 C C8 ADP . . . E 5 143.16 134.96 151.905 1 46.71 ? C8 ADP 2001 A 1 HETATM 20 N N7 ADP . . . E 5 141.916 134.465 151.733 1 46.71 ? N7 ADP 2001 A 1 HETATM 21 C C5 ADP . . . E 5 142.045 133.177 151.416 1 46.71 ? C5 ADP 2001 A 1 HETATM 22 C C6 ADP . . . E 5 141.128 132.081 151.103 1 46.71 ? C6 ADP 2001 A 1 HETATM 23 N N6 ADP . . . E 5 139.796 132.27 151.089 1 46.71 ? N6 ADP 2001 A 1 HETATM 24 N N1 ADP . . . E 5 141.657 130.883 150.833 1 46.71 ? N1 ADP 2001 A 1 HETATM 25 C C2 ADP . . . E 5 142.98 130.689 150.841 1 46.71 ? C2 ADP 2001 A 1 HETATM 26 N N3 ADP . . . E 5 143.872 131.645 151.117 1 46.71 ? N3 ADP 2001 A 1 HETATM 27 C C4 ADP . . . E 5 143.47 132.888 151.403 1 46.71 ? C4 ADP 2001 A 1 # _model_server_stats.io_time_ms 26 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #