data_5LIL # _model_server_result.job_id -SgiyNykz50lBHwG5Nj3aw _model_server_result.datetime_utc '2024-11-05 04:08:25' _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 5lil # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":701}' # _entry.id 5LIL # _exptl.entry_id 5LIL _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 94.45 _cell.angle_gamma 90 _cell.entry_id 5LIL _cell.length_a 111.587 _cell.length_b 82.621 _cell.length_c 124.92 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5LIL _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 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 ? 2 C N N ? 2 E 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 OG SER 67 A SER 47 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? metalc ? metalc2 A OE1 GLN 112 A GLN 92 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.878 ? metalc ? metalc3 C O2G ATP . A ATP 701 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc4 C O2B ATP . A ATP 701 1_555 D MG MG . A MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc5 D MG MG . A MG 702 1_555 G O HOH . A HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.418 ? metalc ? metalc6 D MG MG . A MG 702 1_555 G O HOH . A HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.701 ? metalc ? metalc7 B OG SER 67 B SER 47 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.96 ? metalc ? metalc8 B OE1 GLN 112 B GLN 92 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc9 E O1G ATP . B ATP 701 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc10 E O1B ATP . B ATP 701 1_555 F MG MG . B MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc11 F MG MG . B MG 702 1_555 H O HOH . B HOH 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc12 F MG MG . B MG 702 1_555 H O HOH . B HOH 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.348 ? # _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 5LIL _atom_sites.fract_transf_matrix[1][1] 0.008962 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000697 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012103 _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] 0.008029 _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 1 701 1 ATP ATP . D 3 MG A 1 702 1 MG MG . E 2 ATP B 1 701 1 ATP ATP . F 3 MG B 1 702 1 MG MG . G 4 HOH A 1 801 4 HOH HOH . G 4 HOH A 2 802 3 HOH HOH . H 4 HOH B 1 801 2 HOH HOH . H 4 HOH B 2 802 1 HOH HOH . # 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 . . . C 2 4.658 55.153 41.278 1 48.51 ? PG ATP 701 A 1 HETATM 2 O O1G ATP . . . C 2 4.589 53.648 41.363 1 48.43 ? O1G ATP 701 A 1 HETATM 3 O O2G ATP . . . C 2 6.014 55.729 41.598 1 50.76 ? O2G ATP 701 A 1 HETATM 4 O O3G ATP . . . C 2 3.512 55.848 41.978 1 59.71 ? O3G ATP 701 A 1 HETATM 5 P PB ATP . . . C 2 4.751 56.791 38.898 1 59.2 ? PB ATP 701 A 1 HETATM 6 O O1B ATP . . . C 2 3.563 57.132 38.023 1 48.43 ? O1B ATP 701 A 1 HETATM 7 O O2B ATP . . . C 2 5.309 57.831 39.841 1 56.48 ? O2B ATP 701 A 1 HETATM 8 O O3B ATP . . . C 2 4.419 55.423 39.699 1 56.34 ? O3B ATP 701 A 1 HETATM 9 P PA ATP . . . C 2 6.505 56.852 36.602 1 64.48 ? PA ATP 701 A 1 HETATM 10 O O1A ATP . . . C 2 5.842 58.186 36.338 1 63.49 ? O1A ATP 701 A 1 HETATM 11 O O2A ATP . . . C 2 8.007 56.705 36.563 1 60.93 ? O2A ATP 701 A 1 HETATM 12 O O3A ATP . . . C 2 5.936 56.197 37.966 1 70.75 ? O3A ATP 701 A 1 HETATM 13 O O5' ATP . . . C 2 5.901 55.8 35.548 1 61.43 ? O5' ATP 701 A 1 HETATM 14 C C5' ATP . . . C 2 6.089 55.976 34.153 1 63.4 ? C5' ATP 701 A 1 HETATM 15 C C4' ATP . . . C 2 5.426 54.844 33.376 1 65.02 ? C4' ATP 701 A 1 HETATM 16 O O4' ATP . . . C 2 6.239 54.598 32.228 1 71 ? O4' ATP 701 A 1 HETATM 17 C C3' ATP . . . C 2 5.304 53.517 34.112 1 63.71 ? C3' ATP 701 A 1 HETATM 18 O O3' ATP . . . C 2 4.083 52.905 33.699 1 63.94 ? O3' ATP 701 A 1 HETATM 19 C C2' ATP . . . C 2 6.502 52.715 33.668 1 67.38 ? C2' ATP 701 A 1 HETATM 20 O O2' ATP . . . C 2 6.213 51.326 33.523 1 77.1 ? O2' ATP 701 A 1 HETATM 21 C C1' ATP . . . C 2 6.853 53.308 32.314 1 71 ? C1' ATP 701 A 1 HETATM 22 N N9 ATP . . . C 2 8.318 53.438 32.142 1 75.37 ? N9 ATP 701 A 1 HETATM 23 C C8 ATP . . . C 2 9.169 54.084 32.965 1 73.74 ? C8 ATP 701 A 1 HETATM 24 N N7 ATP . . . C 2 10.441 53.997 32.492 1 75.17 ? N7 ATP 701 A 1 HETATM 25 C C5 ATP . . . C 2 10.406 53.288 31.352 1 70.74 ? C5 ATP 701 A 1 HETATM 26 C C6 ATP . . . C 2 11.387 52.829 30.353 1 70.19 ? C6 ATP 701 A 1 HETATM 27 N N6 ATP . . . C 2 12.696 53.134 30.504 1 75.96 ? N6 ATP 701 A 1 HETATM 28 N N1 ATP . . . C 2 10.931 52.11 29.303 1 74.05 ? N1 ATP 701 A 1 HETATM 29 C C2 ATP . . . C 2 9.628 51.81 29.152 1 68.15 ? C2 ATP 701 A 1 HETATM 30 N N3 ATP . . . C 2 8.688 52.196 30.028 1 70.81 ? N3 ATP 701 A 1 HETATM 31 C C4 ATP . . . C 2 9.005 52.92 31.126 1 74.02 ? C4 ATP 701 A 1 HETATM 32 H "H5'1" ATP . . . C 2 5.66 56.931 33.844 1 76.08 ? "H5'1" ATP 701 A 1 HETATM 33 H "H5'2" ATP . . . C 2 7.157 55.997 33.928 1 76.08 ? "H5'2" ATP 701 A 1 HETATM 34 H H4' ATP . . . C 2 4.424 55.169 33.063 1 78.02 ? H4' ATP 701 A 1 HETATM 35 H H3' ATP . . . C 2 5.33 53.679 35.199 1 76.46 ? H3' ATP 701 A 1 HETATM 36 H HO3' ATP . . . C 2 3.978 52.057 34.152 1 76.73 ? HO3' ATP 701 A 1 HETATM 37 H H2' ATP . . . C 2 7.335 52.873 34.367 1 80.86 ? H2' ATP 701 A 1 HETATM 38 H HO2' ATP . . . C 2 5.938 50.963 34.377 1 92.52 ? HO2' ATP 701 A 1 HETATM 39 H H1' ATP . . . C 2 6.446 52.653 31.531 1 85.2 ? H1' ATP 701 A 1 HETATM 40 H H8 ATP . . . C 2 8.882 54.597 33.874 1 88.49 ? H8 ATP 701 A 1 HETATM 41 H HN61 ATP . . . C 2 13.369 52.821 29.82 1 91.16 ? HN61 ATP 701 A 1 HETATM 42 H HN62 ATP . . . C 2 12.999 53.674 31.302 1 91.16 ? HN62 ATP 701 A 1 HETATM 43 H H2 ATP . . . C 2 9.326 51.228 28.29 1 81.77 ? H2 ATP 701 A 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #