data_6DEC # _model_server_result.job_id OvKPX-pxclb1LiUQ68U4ww _model_server_result.datetime_utc '2025-04-21 15:03:46' _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 6dec # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":502}' # _entry.id 6DEC # _exptl.entry_id 6DEC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 12 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 6DEC _cell.length_a 179.84 _cell.length_b 197.381 _cell.length_c 202.067 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6DEC _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? octameric 8 author_defined_assembly 1 ? octameric 8 author_defined_assembly 2 ? monomeric 1 author_defined_assembly 3 ? monomeric 1 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,S,T,U,V 1 1 I,J,K,L,M,N,O,P,W,X,Y,Z 2 1 Q 3 1 R 4 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 x,y,z _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 ? 12 T N N ? 12 V N N ? 12 X N N ? 12 Z 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 S CA CA . A CA 501 1_555 T O2B ATP . A ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc2 S CA CA . A CA 501 1_555 T O2G ATP . A ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.623 ? metalc ? metalc3 U CA CA . B CA 501 1_555 V O2G ATP . B ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc4 U CA CA . B CA 501 1_555 V O2B ATP . B ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.496 ? metalc ? metalc5 W CA CA . H CA 501 1_555 X O1G ATP . H ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.456 ? metalc ? metalc6 W CA CA . H CA 501 1_555 X O1B ATP . H ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.683 ? metalc ? metalc7 Y CA CA . I CA 501 1_555 Z O2G ATP . I ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? metalc ? metalc8 Y CA CA . I CA 501 1_555 Z O1B ATP . I ATP 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.174 ? # _chem_comp.formula 'C10 H16 N5 O13 P3' _chem_comp.formula_weight 507.181 _chem_comp.id ATP _chem_comp.mon_nstd_flag . _chem_comp.name "ADENOSINE-5'-TRIPHOSPHATE" _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 PG O1G ATP doub 70 n n PG O2G ATP sing 71 n n PG O3G ATP sing 72 n n PG O3B ATP sing 73 n n O2G HOG2 ATP sing 74 n n O3G HOG3 ATP sing 75 n n PB O1B ATP doub 76 n n PB O2B ATP sing 77 n n PB O3B ATP sing 78 n n PB O3A ATP sing 79 n n O2B HOB2 ATP sing 80 n n PA O1A ATP doub 81 n n PA O2A ATP sing 82 n n PA O3A ATP sing 83 n n PA O5' ATP sing 84 n n O2A HOA2 ATP sing 85 n n O5' C5' ATP sing 86 n n C5' C4' ATP sing 87 n n C5' "H5'1" ATP sing 88 n n C5' "H5'2" ATP sing 89 n n C4' O4' ATP sing 90 n n C4' C3' ATP sing 91 n n C4' H4' ATP sing 92 n n O4' C1' ATP sing 93 n n C3' O3' ATP sing 94 n n C3' C2' ATP sing 95 n n C3' H3' ATP sing 96 n n O3' HO3' ATP sing 97 n n C2' O2' ATP sing 98 n n C2' C1' ATP sing 99 n n C2' H2' ATP sing 100 n n O2' HO2' ATP sing 101 n n C1' N9 ATP sing 102 n n C1' H1' ATP sing 103 n n N9 C8 ATP sing 104 n y N9 C4 ATP sing 105 n y C8 N7 ATP doub 106 n y C8 H8 ATP sing 107 n n N7 C5 ATP sing 108 n y C5 C6 ATP sing 109 n y C5 C4 ATP doub 110 n y C6 N6 ATP sing 111 n n C6 N1 ATP doub 112 n y N6 HN61 ATP sing 113 n n N6 HN62 ATP sing 114 n n N1 C2 ATP sing 115 n y C2 N3 ATP doub 116 n y C2 H2 ATP sing 117 n n N3 C4 ATP sing 118 n y # _atom_sites.entry_id 6DEC _atom_sites.fract_transf_matrix[1][1] 0.00556 _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] 0.005066 _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] 0.004949 _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 S 11 CA A 1 501 501 CA CA . T 12 ATP A 1 502 502 ATP ATP . U 11 CA B 1 501 501 CA CA . V 12 ATP B 1 502 502 ATP ATP . W 11 CA H 1 501 501 CA CA . X 12 ATP H 1 502 502 ATP ATP . Y 11 CA I 1 501 501 CA CA . Z 12 ATP I 1 502 502 ATP ATP . # 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 PG ATP . . . V 12 69.033 190.88 27.336 1 129.96 ? PG ATP 502 B 1 HETATM 2 O O1G ATP . . . V 12 69.057 189.543 26.636 1 145.25 ? O1G ATP 502 B 1 HETATM 3 O O2G ATP . . . V 12 70.357 191.308 27.918 1 117.45 ? O2G ATP 502 B 1 HETATM 4 O O3G ATP . . . V 12 67.877 191.061 28.292 1 148.82 ? O3G ATP 502 B 1 HETATM 5 P PB ATP . . . V 12 69.82 192.606 25.19 1 121.78 ? PB ATP 502 B 1 HETATM 6 O O1B ATP . . . V 12 69.222 192.638 23.806 1 151.9 ? O1B ATP 502 B 1 HETATM 7 O O2B ATP . . . V 12 71.164 191.953 25.4 1 130.5 ? O2B ATP 502 B 1 HETATM 8 O O3B ATP . . . V 12 68.716 191.948 26.168 1 131.81 ? O3B ATP 502 B 1 HETATM 9 P PA ATP . . . V 12 70.54 195.297 24.819 1 113.25 ? PA ATP 502 B 1 HETATM 10 O O1A ATP . . . V 12 71.077 194.707 23.538 1 112.95 ? O1A ATP 502 B 1 HETATM 11 O O2A ATP . . . V 12 71.489 196.068 25.703 1 142.63 ? O2A ATP 502 B 1 HETATM 12 O O3A ATP . . . V 12 69.907 194.122 25.718 1 114.99 ? O3A ATP 502 B 1 HETATM 13 O O5' ATP . . . V 12 69.284 196.261 24.506 1 110.07 ? O5' ATP 502 B 1 HETATM 14 C C5' ATP . . . V 12 68.259 195.923 23.573 1 117.63 ? C5' ATP 502 B 1 HETATM 15 C C4' ATP . . . V 12 67.104 196.917 23.7 1 118.34 ? C4' ATP 502 B 1 HETATM 16 O O4' ATP . . . V 12 67.583 198.228 24.014 1 109.47 ? O4' ATP 502 B 1 HETATM 17 C C3' ATP . . . V 12 66.29 197.049 22.416 1 137.24 ? C3' ATP 502 B 1 HETATM 18 O O3' ATP . . . V 12 65.019 196.403 22.553 1 117.4 ? O3' ATP 502 B 1 HETATM 19 C C2' ATP . . . V 12 66.102 198.541 22.191 1 119.97 ? C2' ATP 502 B 1 HETATM 20 O O2' ATP . . . V 12 64.714 198.878 22.091 1 108.28 ? O2' ATP 502 B 1 HETATM 21 C C1' ATP . . . V 12 66.729 199.204 23.408 1 109.15 ? C1' ATP 502 B 1 HETATM 22 N N9 ATP . . . V 12 67.477 200.431 23.028 1 105.31 ? N9 ATP 502 B 1 HETATM 23 C C8 ATP . . . V 12 68.445 200.53 22.095 1 103.25 ? C8 ATP 502 B 1 HETATM 24 N N7 ATP . . . V 12 68.909 201.804 22.002 1 101.88 ? N7 ATP 502 B 1 HETATM 25 C C5 ATP . . . V 12 68.226 202.55 22.891 1 104.44 ? C5 ATP 502 B 1 HETATM 26 C C6 ATP . . . V 12 68.21 203.972 23.315 1 104.15 ? C6 ATP 502 B 1 HETATM 27 N N6 ATP . . . V 12 69.041 204.886 22.757 1 100.59 ? N6 ATP 502 B 1 HETATM 28 N N1 ATP . . . V 12 67.334 204.329 24.282 1 139.18 ? N1 ATP 502 B 1 HETATM 29 C C2 ATP . . . V 12 66.497 203.44 24.852 1 145.96 ? C2 ATP 502 B 1 HETATM 30 N N3 ATP . . . V 12 66.459 202.138 24.517 1 136.65 ? N3 ATP 502 B 1 HETATM 31 C C4 ATP . . . V 12 67.279 201.641 23.558 1 106.28 ? C4 ATP 502 B 1 # _model_server_stats.io_time_ms 49 _model_server_stats.parse_time_ms 27 _model_server_stats.create_model_time_ms 83 _model_server_stats.query_time_ms 332 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 31 #