data_8U1H # _model_server_result.job_id VNpwqtG1frjkQGB_j2o2DQ _model_server_result.datetime_utc '2024-10-18 23:26:49' _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 8u1h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":501}' # _entry.id 8U1H # _exptl.entry_id 8U1H _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 6 _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 8U1H _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8U1H _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 heptameric _pdbx_struct_assembly.oligomeric_count 7 _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 _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 6 _struct_asym.id M _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 176 A THR 176 1_555 I MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.36 ? metalc ? metalc2 H O1G ANP . A ANP 601 1_555 I MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.954 ? metalc ? metalc3 H O3G ANP . A ANP 601 1_555 I MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.003 ? metalc ? metalc4 H O2B ANP . A ANP 601 1_555 I MG MG . A MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc5 C OG1 THR 176 C THR 176 1_555 L MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc6 K O1G ANP . C ANP 601 1_555 L MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? metalc ? metalc7 K O3G ANP . C ANP 601 1_555 L MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.953 ? metalc ? metalc8 K O2B ANP . C ANP 601 1_555 L MG MG . C MG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.944 ? metalc ? metalc9 D OG1 THR 176 D THR 165 1_555 N MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.675 ? metalc ? metalc10 M O3B ADP . D ADP 501 1_555 N MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc11 N MG MG . D MG 502 1_555 O O3 PO4 . D PO4 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? metalc ? metalc12 N MG MG . D MG 502 1_555 O O4 PO4 . D PO4 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? metalc ? metalc13 F OG1 THR 176 F THR 165 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.127 ? metalc ? metalc14 F OE2 GLU 205 F GLU 194 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.471 ? metalc ? metalc15 Q O2G ANP . F ANP 501 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.939 ? metalc ? metalc16 Q O2B ANP . F ANP 501 1_555 R MG MG . F MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? # _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 8U1H _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 H 4 ANP A 1 601 601 ANP ANP . I 5 MG A 1 602 602 MG MG . J 4 ANP B 1 601 501 ANP ANP . K 4 ANP C 1 601 501 ANP ANP . L 5 MG C 1 602 502 MG MG . M 6 ADP D 1 501 490 ADP ADP . N 5 MG D 1 502 491 MG MG . O 7 PO4 D 1 503 492 PO4 PO4 . P 7 PO4 E 1 501 490 PO4 PO4 . Q 4 ANP F 1 501 490 ANP ANP . R 5 MG F 1 502 491 MG MG . # 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 . . . M 6 107.436 107.442 129.141 1 47.08 ? PB ADP 501 D 1 HETATM 2 O O1B ADP . . . M 6 107.394 107.609 127.649 1 40.84 ? O1B ADP 501 D 1 HETATM 3 O O2B ADP . . . M 6 106.423 106.457 129.648 1 55.23 ? O2B ADP 501 D 1 HETATM 4 O O3B ADP . . . M 6 108.816 107.304 129.727 1 63.72 ? O3B ADP 501 D 1 HETATM 5 P PA ADP . . . M 6 106.992 109.184 131.283 1 54.88 ? PA ADP 501 D 1 HETATM 6 O O1A ADP . . . M 6 106.329 108.086 132.067 1 54.32 ? O1A ADP 501 D 1 HETATM 7 O O2A ADP . . . M 6 108.397 109.592 131.634 1 59.84 ? O2A ADP 501 D 1 HETATM 8 O O3A ADP . . . M 6 106.913 108.846 129.715 1 52.96 ? O3A ADP 501 D 1 HETATM 9 O O5' ADP . . . M 6 106.032 110.463 131.396 1 52.1 ? O5' ADP 501 D 1 HETATM 10 C C5' ADP . . . M 6 104.635 110.228 131.459 1 51.85 ? C5' ADP 501 D 1 HETATM 11 C C4' ADP . . . M 6 103.921 111.497 131.881 1 60.84 ? C4' ADP 501 D 1 HETATM 12 O O4' ADP . . . M 6 102.567 111.164 132.175 1 55.38 ? O4' ADP 501 D 1 HETATM 13 C C3' ADP . . . M 6 104.535 112.068 133.144 1 54.28 ? C3' ADP 501 D 1 HETATM 14 O O3' ADP . . . M 6 105.26 113.263 132.852 1 51.62 ? O3' ADP 501 D 1 HETATM 15 C C2' ADP . . . M 6 103.365 112.36 134.054 1 58.11 ? C2' ADP 501 D 1 HETATM 16 O O2' ADP . . . M 6 103.019 113.741 133.971 1 60.23 ? O2' ADP 501 D 1 HETATM 17 C C1' ADP . . . M 6 102.219 111.54 133.503 1 56.43 ? C1' ADP 501 D 1 HETATM 18 N N9 ADP . . . M 6 102.125 110.304 134.313 1 56.56 ? N9 ADP 501 D 1 HETATM 19 C C8 ADP . . . M 6 102.786 109.15 134.089 1 55.36 ? C8 ADP 501 D 1 HETATM 20 N N7 ADP . . . M 6 102.485 108.213 135.02 1 53.97 ? N7 ADP 501 D 1 HETATM 21 C C5 ADP . . . M 6 101.613 108.774 135.867 1 54.11 ? C5 ADP 501 D 1 HETATM 22 C C6 ADP . . . M 6 100.884 108.34 137.075 1 55.72 ? C6 ADP 501 D 1 HETATM 23 N N6 ADP . . . M 6 101.042 107.092 137.567 1 53.55 ? N6 ADP 501 D 1 HETATM 24 N N1 ADP . . . M 6 100.06 109.228 137.667 1 61.21 ? N1 ADP 501 D 1 HETATM 25 C C2 ADP . . . M 6 99.899 110.471 137.181 1 62.44 ? C2 ADP 501 D 1 HETATM 26 N N3 ADP . . . M 6 100.526 110.935 136.086 1 62 ? N3 ADP 501 D 1 HETATM 27 C C4 ADP . . . M 6 101.378 110.148 135.398 1 57.51 ? C4 ADP 501 D 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 27 #