data_8K1S # _model_server_result.job_id 1jt3Q5i5vrrqi_eXSGLmUw _model_server_result.datetime_utc '2024-10-18 05:22:31' _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 8k1s # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":301}' # _entry.id 8K1S # _exptl.entry_id 8K1S _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 427.201 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 8 _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 8K1S _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8K1S _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 dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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,U,V,W,X _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 ? 3 M N N ? 3 N N N ? 3 O N N ? 3 P N N ? 3 Q N N ? 3 R N N ? 3 S N N ? 3 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 metalc ? metalc1 I O THR 61 I THR 61 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? metalc ? metalc2 I O ASN 175 I ASN 175 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? metalc ? metalc3 I O ALA 176 I ALA 176 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.146 ? metalc ? metalc4 I O THR 278 I THR 278 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc5 I O ALA 279 I ALA 279 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? metalc ? metalc6 I O THR 390 I THR 390 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.836 ? metalc ? metalc7 I O VAL 391 I VAL 391 1_555 U K K . I K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.986 ? metalc ? metalc8 J O THR 61 J THR 61 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? metalc ? metalc9 J O ASN 175 J ASN 175 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc10 J O ALA 176 J ALA 176 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.146 ? metalc ? metalc11 J O THR 278 J THR 278 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc12 J O ALA 279 J ALA 279 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? metalc ? metalc13 J O THR 390 J THR 390 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.836 ? metalc ? metalc14 J O VAL 391 J VAL 391 1_555 V K K . J K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.986 ? metalc ? metalc15 K O THR 61 K THR 61 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? metalc ? metalc16 K O ASN 175 K ASN 175 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.728 ? metalc ? metalc17 K O ALA 176 K ALA 176 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.146 ? metalc ? metalc18 K O THR 278 K THR 278 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.773 ? metalc ? metalc19 K O ALA 279 K ALA 279 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.828 ? metalc ? metalc20 K O THR 390 K THR 390 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.836 ? metalc ? metalc21 K O VAL 391 K VAL 391 1_555 W K K . K K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? metalc ? metalc22 L O THR 61 L THR 61 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.717 ? metalc ? metalc23 L O ASN 175 L ASN 175 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.729 ? metalc ? metalc24 L O ALA 176 L ALA 176 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.146 ? metalc ? metalc25 L O THR 278 L THR 278 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.772 ? metalc ? metalc26 L O ALA 279 L ALA 279 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.827 ? metalc ? metalc27 L O THR 390 L THR 390 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.835 ? metalc ? metalc28 L O VAL 391 L VAL 391 1_555 X K K . L K 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.985 ? # _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 8K1S _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 M 3 ADP A 1 301 201 ADP ADP . N 3 ADP B 1 301 201 ADP ADP . O 3 ADP C 1 301 201 ADP ADP . P 3 ADP D 1 301 201 ADP ADP . Q 3 ADP E 1 301 201 ADP ADP . R 3 ADP F 1 301 201 ADP ADP . S 3 ADP G 1 301 201 ADP ADP . T 3 ADP H 1 301 201 ADP ADP . U 4 K I 1 501 501 K K . V 4 K J 1 501 501 K K . W 4 K K 1 501 501 K K . X 4 K L 1 501 501 K K . # 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 . . . N 3 165.732 174.268 174.142 1 51.13 ? PB ADP 301 B 1 HETATM 2 O O1B ADP . . . N 3 166.64 175.059 173.234 1 51.13 ? O1B ADP 301 B 1 HETATM 3 O O2B ADP . . . N 3 164.53 175.037 174.629 1 51.13 ? O2B ADP 301 B 1 HETATM 4 O O3B ADP . . . N 3 166.437 173.489 175.224 1 51.13 ? O3B ADP 301 B 1 HETATM 5 P PA ADP . . . N 3 166.002 172.3 172.145 1 51.13 ? PA ADP 301 B 1 HETATM 6 O O1A ADP . . . N 3 166.192 173.122 170.893 1 51.13 ? O1A ADP 301 B 1 HETATM 7 O O2A ADP . . . N 3 165.442 170.904 172.045 1 51.13 ? O2A ADP 301 B 1 HETATM 8 O O3A ADP . . . N 3 165.098 173.157 173.166 1 51.13 ? O3A ADP 301 B 1 HETATM 9 O O5' ADP . . . N 3 167.431 172.167 172.869 1 51.13 ? O5' ADP 301 B 1 HETATM 10 C C5' ADP . . . N 3 167.712 171.058 173.72 1 51.13 ? C5' ADP 301 B 1 HETATM 11 C C4' ADP . . . N 3 169.211 170.795 173.699 1 51.13 ? C4' ADP 301 B 1 HETATM 12 O O4' ADP . . . N 3 169.56 169.74 174.596 1 51.13 ? O4' ADP 301 B 1 HETATM 13 C C3' ADP . . . N 3 169.668 170.365 172.313 1 51.13 ? C3' ADP 301 B 1 HETATM 14 O O3' ADP . . . N 3 170.436 171.405 171.701 1 51.13 ? O3' ADP 301 B 1 HETATM 15 C C2' ADP . . . N 3 170.531 169.138 172.521 1 51.13 ? C2' ADP 301 B 1 HETATM 16 O O2' ADP . . . N 3 171.829 169.356 171.968 1 51.13 ? O2' ADP 301 B 1 HETATM 17 C C1' ADP . . . N 3 170.61 168.955 174.028 1 51.13 ? C1' ADP 301 B 1 HETATM 18 N N9 ADP . . . N 3 170.461 167.521 174.383 1 51.13 ? N9 ADP 301 B 1 HETATM 19 C C8 ADP . . . N 3 169.514 166.688 173.917 1 51.13 ? C8 ADP 301 B 1 HETATM 20 N N7 ADP . . . N 3 169.662 165.441 174.431 1 51.13 ? N7 ADP 301 B 1 HETATM 21 C C5 ADP . . . N 3 170.733 165.465 175.244 1 51.13 ? C5 ADP 301 B 1 HETATM 22 C C6 ADP . . . N 3 171.445 164.491 176.102 1 51.13 ? C6 ADP 301 B 1 HETATM 23 N N6 ADP . . . N 3 171.029 163.206 176.196 1 51.13 ? N6 ADP 301 B 1 HETATM 24 N N1 ADP . . . N 3 172.523 164.926 176.789 1 51.13 ? N1 ADP 301 B 1 HETATM 25 C C2 ADP . . . N 3 172.946 166.199 176.705 1 51.13 ? C2 ADP 301 B 1 HETATM 26 N N3 ADP . . . N 3 172.349 167.135 175.948 1 51.13 ? N3 ADP 301 B 1 HETATM 27 C C4 ADP . . . N 3 171.259 166.836 175.204 1 51.13 ? C4 ADP 301 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #