data_8K16 # _model_server_result.job_id fj0aiKeoorwBGbWOMvA0FQ _model_server_result.datetime_utc '2024-10-18 05:19:55' _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 8k16 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":301}' # _entry.id 8K16 # _exptl.entry_id 8K16 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 507.181 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "ADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 2 _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 8K16 _cell.length_a 122.418 _cell.length_b 122.418 _cell.length_c 83.853 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8K16 _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall 'I 4' _symmetry.space_group_name_H-M 'I 4' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -y,x,z 0 -1 0 1 0 0 0 0 1 0 0 0 4 'crystal symmetry operation' 4_555 y,-x,z 0 1 0 -1 0 0 0 0 1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D 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 A NH2 ARG 16 A ARG 16 1_555 E TL TL . B TL 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.228 ? metalc ? metalc2 A OE2 GLU 125 A GLU 125 1_555 E TL TL . B TL 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.758 ? metalc ? metalc3 C O2G ATP . A ATP 301 1_555 E TL TL . B TL 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.583 ? metalc ? metalc4 B NH2 ARG 16 B ARG 16 1_555 E TL TL . B TL 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc5 B OE2 GLU 125 B GLU 125 1_555 E TL TL . B TL 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.568 ? metalc ? metalc6 D O1G ATP . B ATP 301 1_555 E TL TL . B TL 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.845 ? # _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 8K16 _atom_sites.fract_transf_matrix[1][1] 0.008169 _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] 0.008169 _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] 0.011926 _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 C 2 ATP A 1 301 301 ATP ATP . D 2 ATP B 1 301 301 ATP ATP . E 3 TL B 1 302 1 TL TL . # 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 . . . D 2 -10.654 21.802 -37.864 1 93.77 ? PG ATP 301 B 1 HETATM 2 O O1G ATP . . . D 2 -11.19 22.19 -36.53 1 94.02 ? O1G ATP 301 B 1 HETATM 3 O O2G ATP . . . D 2 -10.357 22.993 -38.786 1 94.61 ? O2G ATP 301 B 1 HETATM 4 O O3G ATP . . . D 2 -11.545 20.805 -38.61 1 92.46 ? O3G ATP 301 B 1 HETATM 5 P PB ATP . . . D 2 -8.252 20.543 -36.572 1 95.73 ? PB ATP 301 B 1 HETATM 6 O O1B ATP . . . D 2 -7.901 21.632 -35.638 1 97.32 ? O1B ATP 301 B 1 HETATM 7 O O2B ATP . . . D 2 -8.877 19.298 -35.941 1 94.9 ? O2B ATP 301 B 1 HETATM 8 O O3B ATP . . . D 2 -9.247 21.049 -37.711 1 94.58 ? O3B ATP 301 B 1 HETATM 9 P PA ATP . . . D 2 -6.607 18.798 -38.327 1 95.41 ? PA ATP 301 B 1 HETATM 10 O O1A ATP . . . D 2 -5.15 18.553 -38.331 1 96.7 ? O1A ATP 301 B 1 HETATM 11 O O2A ATP . . . D 2 -7.467 17.62 -37.866 1 94.34 ? O2A ATP 301 B 1 HETATM 12 O O3A ATP . . . D 2 -6.995 20.061 -37.423 1 96.22 ? O3A ATP 301 B 1 HETATM 13 O O5' ATP . . . D 2 -7.106 19.233 -39.759 1 94.69 ? O5' ATP 301 B 1 HETATM 14 C C5' ATP . . . D 2 -6.274 20.027 -40.63 1 95.87 ? C5' ATP 301 B 1 HETATM 15 C C4' ATP . . . D 2 -6.359 19.444 -42.016 1 95.19 ? C4' ATP 301 B 1 HETATM 16 O O4' ATP . . . D 2 -5.101 19.647 -42.699 1 96.51 ? O4' ATP 301 B 1 HETATM 17 C C3' ATP . . . D 2 -6.643 17.941 -42.07 1 94 ? C3' ATP 301 B 1 HETATM 18 O O3' ATP . . . D 2 -7.52 17.616 -43.142 1 93.22 ? O3' ATP 301 B 1 HETATM 19 C C2' ATP . . . D 2 -5.255 17.339 -42.296 1 94.81 ? C2' ATP 301 B 1 HETATM 20 O O2' ATP . . . D 2 -5.319 16.107 -43.006 1 94.13 ? O2' ATP 301 B 1 HETATM 21 C C1' ATP . . . D 2 -4.613 18.409 -43.174 1 96.01 ? C1' ATP 301 B 1 HETATM 22 N N9 ATP . . . D 2 -3.156 18.426 -43.11 1 97.44 ? N9 ATP 301 B 1 HETATM 23 C C8 ATP . . . D 2 -2.371 18.076 -42.042 1 98.15 ? C8 ATP 301 B 1 HETATM 24 N N7 ATP . . . D 2 -1.084 18.179 -42.268 1 99.6 ? N7 ATP 301 B 1 HETATM 25 C C5 ATP . . . D 2 -1.016 18.625 -43.58 1 99.84 ? C5 ATP 301 B 1 HETATM 26 C C6 ATP . . . D 2 0.068 18.932 -44.425 1 101.24 ? C6 ATP 301 B 1 HETATM 27 N N6 ATP . . . D 2 1.349 18.833 -44.057 1 102.64 ? N6 ATP 301 B 1 HETATM 28 N N1 ATP . . . D 2 -0.212 19.352 -45.679 1 101.3 ? N1 ATP 301 B 1 HETATM 29 C C2 ATP . . . D 2 -1.489 19.454 -46.053 1 100.07 ? C2 ATP 301 B 1 HETATM 30 N N3 ATP . . . D 2 -2.591 19.193 -45.346 1 98.64 ? N3 ATP 301 B 1 HETATM 31 C C4 ATP . . . D 2 -2.286 18.78 -44.111 1 98.56 ? C4 ATP 301 B 1 # _model_server_stats.io_time_ms 27 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #