data_7TIB # _model_server_result.job_id 7VFEyr5L9cbFiDPAYNonZg _model_server_result.datetime_utc '2024-11-05 04:40:04' _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 7tib # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":401}' # _entry.id 7TIB # _exptl.entry_id 7TIB _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 11 _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 7TIB _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7TIB _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 decameric _pdbx_struct_assembly.oligomeric_count 10 _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,N,O,P,Q,R,S _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 11 _struct_asym.id S _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 OG1 THR 359 A THR 360 1_555 L MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.347 ? metalc ? metalc2 K O3G AGS . A AGS 901 1_555 L MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.33 ? metalc ? metalc3 K O1B AGS . A AGS 901 1_555 L MG MG . A MG 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.324 ? metalc ? metalc4 B OG1 THR 56 B THR 56 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.099 ? metalc ? metalc5 M O3G AGS . B AGS 401 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc6 M O1B AGS . B AGS 401 1_555 N MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.552 ? metalc ? metalc7 C OG1 THR 60 C THR 60 1_555 P MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.106 ? metalc ? metalc8 O O3G AGS . C AGS 401 1_555 P MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc9 O O1B AGS . C AGS 401 1_555 P MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.681 ? metalc ? metalc10 D OG1 THR 72 D THR 72 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.172 ? metalc ? metalc11 Q O3G AGS . D AGS 401 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc12 Q O2B AGS . D AGS 401 1_555 R MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? hydrog WATSON-CRICK hydrog1 I N1 DA 12 I DA 12 1_555 J N3 DT 19 J DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 I N6 DA 12 I DA 12 1_555 J O4 DT 19 J DT 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 I N1 DG 14 I DG 14 1_555 J N3 DC 17 J DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 I N2 DG 14 I DG 14 1_555 J O2 DC 17 J DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 I O6 DG 14 I DG 14 1_555 J N4 DC 17 J DC 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 I N3 DT 15 I DT 15 1_555 J N1 DA 16 J DA 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 I O4 DT 15 I DT 15 1_555 J N6 DA 16 J DA 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 I N1 DA 16 I DA 16 1_555 J N3 DT 15 J DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 I N6 DA 16 I DA 16 1_555 J O4 DT 15 J DT 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 I N3 DC 17 I DC 17 1_555 J N1 DG 14 J DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 I N4 DC 17 I DC 17 1_555 J O6 DG 14 J DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 I O2 DC 17 I DC 17 1_555 J N2 DG 14 J DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 I N3 DT 18 I DT 18 1_555 J N1 DA 13 J DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 I O4 DT 18 I DT 18 1_555 J N6 DA 13 J DA 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog15 I O2 DC 19 I DC 19 1_555 J N2 DG 12 J DG 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 I N1 DG 20 I DG 20 1_555 J N3 DC 11 J DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 I N2 DG 20 I DG 20 1_555 J O2 DC 11 J DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 I O6 DG 20 I DG 20 1_555 J N4 DC 11 J DC 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DA-DT PAIR' hydrog19 I N1 DA 22 I DA 22 1_555 J N3 DT 9 J DT 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DT MISPAIR' hydrog20 I N2 DG 23 I DG 23 1_555 J O2 DT 9 J DT 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DA MISPAIR' hydrog21 I N2 DG 25 I DG 25 1_555 J N1 DA 7 J DA 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 I N3 DC 27 I DC 27 1_555 J N1 DG 4 J DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 I N4 DC 27 I DC 27 1_555 J O6 DG 4 J DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 I O2 DC 27 I DC 27 1_555 J N2 DG 4 J DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DA PAIR' hydrog25 I O4 DT 28 I DT 28 1_555 J N6 DA 3 J DA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DT-DG MISPAIR' hydrog26 I O4 DT 28 I DT 28 1_555 J N2 DG 4 J DG 4 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 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 7TIB _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 K 9 AGS A 1 901 801 AGS AGS . L 10 MG A 1 902 811 MG MG . M 9 AGS B 1 401 802 AGS AGS . N 10 MG B 1 402 812 MG MG . O 9 AGS C 1 401 803 AGS AGS . P 10 MG C 1 402 813 MG MG . Q 9 AGS D 1 401 804 AGS AGS . R 10 MG D 1 402 814 MG MG . S 11 ADP E 1 401 805 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 . . . S 11 106.354 97.103 109.87 1 45.82 ? PB ADP 401 E 1 HETATM 2 O O1B ADP . . . S 11 106.28 98.583 109.589 1 45.82 ? O1B ADP 401 E 1 HETATM 3 O O2B ADP . . . S 11 105.013 96.459 110.129 1 45.82 ? O2B ADP 401 E 1 HETATM 4 O O3B ADP . . . S 11 107.444 96.716 110.84 1 45.82 ? O3B ADP 401 E 1 HETATM 5 P PA ADP . . . S 11 106.399 97.212 107.093 1 45.82 ? PA ADP 401 E 1 HETATM 6 O O1A ADP . . . S 11 107.404 98.308 106.829 1 45.82 ? O1A ADP 401 E 1 HETATM 7 O O2A ADP . . . S 11 104.933 97.558 107.182 1 45.82 ? O2A ADP 401 E 1 HETATM 8 O O3A ADP . . . S 11 106.816 96.475 108.461 1 45.82 ? O3A ADP 401 E 1 HETATM 9 O O5' ADP . . . S 11 106.573 96.076 105.966 1 45.82 ? O5' ADP 401 E 1 HETATM 10 C C5' ADP . . . S 11 106.432 96.443 104.596 1 45.82 ? C5' ADP 401 E 1 HETATM 11 C C4' ADP . . . S 11 106.268 95.218 103.706 1 45.82 ? C4' ADP 401 E 1 HETATM 12 O O4' ADP . . . S 11 105.278 94.328 104.228 1 45.82 ? O4' ADP 401 E 1 HETATM 13 C C3' ADP . . . S 11 105.804 95.628 102.317 1 45.82 ? C3' ADP 401 E 1 HETATM 14 O O3' ADP . . . S 11 106.863 95.456 101.371 1 45.82 ? O3' ADP 401 E 1 HETATM 15 C C2' ADP . . . S 11 104.646 94.711 101.979 1 45.82 ? C2' ADP 401 E 1 HETATM 16 O O2' ADP . . . S 11 104.93 93.976 100.786 1 45.82 ? O2' ADP 401 E 1 HETATM 17 C C1' ADP . . . S 11 104.511 93.764 103.161 1 45.82 ? C1' ADP 401 E 1 HETATM 18 N N9 ADP . . . S 11 103.084 93.642 103.552 1 45.82 ? N9 ADP 401 E 1 HETATM 19 C C8 ADP . . . S 11 102.514 94.202 104.635 1 45.82 ? C8 ADP 401 E 1 HETATM 20 N N7 ADP . . . S 11 101.194 93.895 104.708 1 45.82 ? N7 ADP 401 E 1 HETATM 21 C C5 ADP . . . S 11 100.901 93.118 103.649 1 45.82 ? C5 ADP 401 E 1 HETATM 22 C C6 ADP . . . S 11 99.691 92.444 103.121 1 45.82 ? C6 ADP 401 E 1 HETATM 23 N N6 ADP . . . S 11 98.499 92.544 103.757 1 45.82 ? N6 ADP 401 E 1 HETATM 24 N N1 ADP . . . S 11 99.816 91.727 101.982 1 45.82 ? N1 ADP 401 E 1 HETATM 25 C C2 ADP . . . S 11 100.995 91.62 101.341 1 45.82 ? C2 ADP 401 E 1 HETATM 26 N N3 ADP . . . S 11 102.131 92.204 101.763 1 45.82 ? N3 ADP 401 E 1 HETATM 27 C C4 ADP . . . S 11 102.15 92.952 102.892 1 45.82 ? C4 ADP 401 E 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 49 _model_server_stats.query_time_ms 235 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 27 #