data_6C1D # _model_server_result.job_id qP75K3nDo2x6qzoIwLFOvQ _model_server_result.datetime_utc '2025-07-26 06:55:42' _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 6c1d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"T","auth_seq_id":802}' # _entry.id 6C1D # _exptl.entry_id 6C1D _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 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _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,S,T _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 I N N ? 5 K N N ? 5 M N N ? 5 O N N ? 5 Q N N ? 5 T N 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 H C ALA 1 F ALA 1 1_555 H N 2TL 2 F 2TL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.3 ? covale ? covale2 H N ALA 1 F ALA 1 1_555 H C EEP 7 F EEP 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.302 ? covale ? covale3 H C 2TL 2 F 2TL 2 1_555 H N DCY 3 F DCY 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.302 ? covale ? covale4 H C DCY 3 F DCY 3 1_555 H N HYP 4 F HYP 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.316 ? covale ? covale5 H SG DCY 3 F DCY 3 1_555 H CD1 TRP 6 F TRP 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.605 ? covale ? covale6 H C HYP 4 F HYP 4 1_555 H N ALA 5 F ALA 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.278 ? covale ? covale7 H C TRP 6 F TRP 6 1_555 H N EEP 7 F EEP 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.285 ? metalc ? metalc1 I O3B ADP . A ADP 401 1_555 J MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.799 ? metalc ? metalc2 I O1A ADP . A ADP 401 1_555 J MG MG . A MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.673 ? metalc ? metalc3 K O1B ADP . B ADP 401 1_555 L MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.931 ? metalc ? metalc4 K O1A ADP . B ADP 401 1_555 L MG MG . B MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.952 ? metalc ? metalc5 M O1B ADP . C ADP 401 1_555 N MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? metalc ? metalc6 M O1A ADP . C ADP 401 1_555 N MG MG . C MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.861 ? metalc ? metalc7 O O3B ADP . D ADP 401 1_555 P MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.797 ? metalc ? metalc8 O O1A ADP . D ADP 401 1_555 P MG MG . D MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.96 ? metalc ? metalc9 Q O3B ADP . E ADP 401 1_555 R MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? metalc ? metalc10 Q O1A ADP . E ADP 401 1_555 R MG MG . E MG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.768 ? metalc ? metalc11 F OG1 THR 110 P THR 115 1_555 S MG MG . P MG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc12 S MG MG . P MG 801 1_555 T O3B ADP . P ADP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.536 ? metalc ? metalc13 S MG MG . P MG 801 1_555 T O2B ADP . P ADP 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.576 ? # _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 17 n n PB O2B ADP sing 18 n n PB O3B ADP sing 19 n n PB O3A ADP sing 20 n n O2B HOB2 ADP sing 21 n n O3B HOB3 ADP sing 22 n n PA O1A ADP doub 23 n n PA O2A ADP sing 24 n n PA O3A ADP sing 25 n n PA O5' ADP sing 26 n n O2A HOA2 ADP sing 27 n n O5' C5' ADP sing 28 n n C5' C4' ADP sing 29 n n C5' "H5'1" ADP sing 30 n n C5' "H5'2" ADP sing 31 n n C4' O4' ADP sing 32 n n C4' C3' ADP sing 33 n n C4' H4' ADP sing 34 n n O4' C1' ADP sing 35 n n C3' O3' ADP sing 36 n n C3' C2' ADP sing 37 n n C3' H3' ADP sing 38 n n O3' HO3' ADP sing 39 n n C2' O2' ADP sing 40 n n C2' C1' ADP sing 41 n n C2' H2' ADP sing 42 n n O2' HO2' ADP sing 43 n n C1' N9 ADP sing 44 n n C1' H1' ADP sing 45 n n N9 C8 ADP sing 46 n y N9 C4 ADP sing 47 n y C8 N7 ADP doub 48 n y C8 H8 ADP sing 49 n n N7 C5 ADP sing 50 n y C5 C6 ADP sing 51 n y C5 C4 ADP doub 52 n y C6 N6 ADP sing 53 n n C6 N1 ADP doub 54 n y N6 HN61 ADP sing 55 n n N6 HN62 ADP sing 56 n n N1 C2 ADP sing 57 n y C2 N3 ADP doub 58 n y C2 H2 ADP sing 59 n n N3 C4 ADP sing 60 n y # _atom_sites.entry_id 6C1D _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 I 5 ADP A 1 401 401 ADP ADP . J 6 MG A 1 402 402 MG MG . K 5 ADP B 1 401 401 ADP ADP . L 6 MG B 1 402 402 MG MG . M 5 ADP C 1 401 401 ADP ADP . N 6 MG C 1 402 402 MG MG . O 5 ADP D 1 401 401 ADP ADP . P 6 MG D 1 402 402 MG MG . Q 5 ADP E 1 401 401 ADP ADP . R 6 MG E 1 402 402 MG MG . S 6 MG P 1 801 790 MG MG . T 5 ADP P 1 802 791 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 . . . T 5 196.091 289.196 254.794 1 24.67 ? PB ADP 802 P 1 HETATM 2 O O1B ADP . . . T 5 196.142 288.256 253.622 1 24.67 ? O1B ADP 802 P 1 HETATM 3 O O2B ADP . . . T 5 195.419 288.627 256.015 1 24.67 ? O2B ADP 802 P 1 HETATM 4 O O3B ADP . . . T 5 197.369 289.949 255.06 1 24.67 ? O3B ADP 802 P 1 HETATM 5 P PA ADP . . . T 5 194.387 291.323 255.344 1 24.67 ? PA ADP 802 P 1 HETATM 6 O O1A ADP . . . T 5 193.251 290.616 256.041 1 24.67 ? O1A ADP 802 P 1 HETATM 7 O O2A ADP . . . T 5 195.479 291.997 256.133 1 24.67 ? O2A ADP 802 P 1 HETATM 8 O O3A ADP . . . T 5 195.081 290.33 254.295 1 24.67 ? O3A ADP 802 P 1 HETATM 9 O O5' ADP . . . T 5 193.772 292.422 254.36 1 24.67 ? O5' ADP 802 P 1 HETATM 10 C C5' ADP . . . T 5 193.865 293.788 254.737 1 24.67 ? C5' ADP 802 P 1 HETATM 11 C C4' ADP . . . T 5 193.054 294.617 253.762 1 24.67 ? C4' ADP 802 P 1 HETATM 12 O O4' ADP . . . T 5 192.328 293.768 252.878 1 24.67 ? O4' ADP 802 P 1 HETATM 13 C C3' ADP . . . T 5 192.045 295.448 254.519 1 24.67 ? C3' ADP 802 P 1 HETATM 14 O O3' ADP . . . T 5 192.422 296.82 254.447 1 24.67 ? O3' ADP 802 P 1 HETATM 15 C C2' ADP . . . T 5 190.73 295.246 253.806 1 24.67 ? C2' ADP 802 P 1 HETATM 16 O O2' ADP . . . T 5 190.329 296.479 253.208 1 24.67 ? O2' ADP 802 P 1 HETATM 17 C C1' ADP . . . T 5 190.988 294.229 252.712 1 24.67 ? C1' ADP 802 P 1 HETATM 18 N N9 ADP . . . T 5 190.09 293.071 252.893 1 24.67 ? N9 ADP 802 P 1 HETATM 19 C C8 ADP . . . T 5 190.519 291.831 253.139 1 24.67 ? C8 ADP 802 P 1 HETATM 20 N N7 ADP . . . T 5 189.491 290.96 253.262 1 24.67 ? N7 ADP 802 P 1 HETATM 21 C C5 ADP . . . T 5 188.363 291.658 253.086 1 24.67 ? C5 ADP 802 P 1 HETATM 22 C C6 ADP . . . T 5 186.921 291.342 253.087 1 24.67 ? C6 ADP 802 P 1 HETATM 23 N N6 ADP . . . T 5 186.485 290.079 253.306 1 24.67 ? N6 ADP 802 P 1 HETATM 24 N N1 ADP . . . T 5 186.063 292.356 252.862 1 24.67 ? N1 ADP 802 P 1 HETATM 25 C C2 ADP . . . T 5 186.499 293.61 252.644 1 24.67 ? C2 ADP 802 P 1 HETATM 26 N N3 ADP . . . T 5 187.793 293.966 252.629 1 24.67 ? N3 ADP 802 P 1 HETATM 27 C C4 ADP . . . T 5 188.76 293.05 252.839 1 24.67 ? C4 ADP 802 P 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #