data_1KEJ # _model_server_result.job_id STzI3j4H-AB82AzuGZBzRA _model_server_result.datetime_utc '2024-11-28 06:12:04' _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 1kej # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":601}' # _entry.id 1KEJ # _exptl.entry_id 1KEJ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 475.182 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2',3'-DIDEOXYADENOSINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _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 1KEJ _cell.length_a 46.9 _cell.length_b 85.3 _cell.length_c 108.3 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1KEJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 O THR 106 A THR 253 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.998 ? metalc ? metalc2 A O VAL 108 A VAL 255 1_555 D NA NA . A NA 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.928 ? metalc ? metalc3 A OD1 ASP 196 A ASP 343 1_555 B CO CO . A CO 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.727 ? metalc ? metalc4 A OD2 ASP 196 A ASP 343 1_555 C CO CO . A CO 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.448 ? metalc ? metalc5 A OD2 ASP 198 A ASP 345 1_555 B CO CO . A CO 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.813 ? metalc ? metalc6 A OD1 ASP 198 A ASP 345 1_555 C CO CO . A CO 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? metalc ? metalc7 A OD1 ASP 287 A ASP 434 1_555 C CO CO . A CO 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc8 E O2G DAD . A DAD 601 1_555 B CO CO . A CO 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.738 ? metalc ? metalc9 E O2B DAD . A DAD 601 1_555 B CO CO . A CO 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.705 ? metalc ? metalc10 E O1A DAD . A DAD 601 1_555 C CO CO . A CO 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? # _chem_comp.formula 'C10 H16 N5 O11 P3' _chem_comp.formula_weight 475.182 _chem_comp.id DAD _chem_comp.mon_nstd_flag . _chem_comp.name "2',3'-DIDEOXYADENOSINE-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 DAD doub 83 n n PG O2G DAD sing 84 n n PG O3G DAD sing 85 n n PG O3B DAD sing 86 n n O2G HOG2 DAD sing 87 n n O3G HOG3 DAD sing 88 n n PB O1B DAD doub 89 n n PB O2B DAD sing 90 n n PB O3B DAD sing 91 n n PB O3A DAD sing 92 n n O2B HOB2 DAD sing 93 n n PA O1A DAD doub 94 n n PA O2A DAD sing 95 n n PA O3A DAD sing 96 n n PA O5' DAD sing 97 n n O2A HOA2 DAD sing 98 n n O5' C5' DAD sing 99 n n C5' C4' DAD sing 100 n n C5' "H5'1" DAD sing 101 n n C5' "H5'2" DAD sing 102 n n C4' O4' DAD sing 103 n n C4' C3' DAD sing 104 n n C4' H4' DAD sing 105 n n O4' C1' DAD sing 106 n n C3' C2' DAD sing 107 n n C3' "H3'1" DAD sing 108 n n C3' "H3'2" DAD sing 109 n n C2' C1' DAD sing 110 n n C2' "H2'1" DAD sing 111 n n C2' "H2'2" DAD sing 112 n n C1' N9 DAD sing 113 n n C1' H1' DAD sing 114 n n N9 C8 DAD sing 115 n y N9 C4 DAD sing 116 n y C8 N7 DAD doub 117 n y C8 H8 DAD sing 118 n n N7 C5 DAD sing 119 n y C5 C6 DAD sing 120 n y C5 C4 DAD doub 121 n y C6 N6 DAD sing 122 n n C6 N1 DAD doub 123 n y N6 HN61 DAD sing 124 n n N6 HN62 DAD sing 125 n n N1 C2 DAD sing 126 n y C2 N3 DAD doub 127 n y C2 H2 DAD sing 128 n n N3 C4 DAD sing 129 n y # _atom_sites.entry_id 1KEJ _atom_sites.fract_transf_matrix[1][1] 0.021322 _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] 0.011723 _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] 0.009234 _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 B 2 CO A 1 701 701 CO CO . C 2 CO A 1 702 702 CO CO . D 3 NA A 1 703 703 NA NA . E 4 DAD A 1 601 601 DAD DAD . F 5 HOH A 1 1 1 HOH WAT . F 5 HOH A 2 2 2 HOH WAT . F 5 HOH A 3 3 3 HOH WAT . F 5 HOH A 4 4 4 HOH WAT . F 5 HOH A 5 5 5 HOH WAT . F 5 HOH A 6 6 6 HOH WAT . F 5 HOH A 7 7 7 HOH WAT . F 5 HOH A 8 8 8 HOH WAT . F 5 HOH A 9 9 9 HOH WAT . F 5 HOH A 10 10 10 HOH WAT . F 5 HOH A 11 11 11 HOH WAT . F 5 HOH A 12 12 12 HOH WAT . F 5 HOH A 13 13 13 HOH WAT . F 5 HOH A 14 14 14 HOH WAT . F 5 HOH A 15 15 15 HOH WAT . F 5 HOH A 16 16 16 HOH WAT . F 5 HOH A 17 17 17 HOH WAT . F 5 HOH A 18 18 18 HOH WAT . # 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 DAD . . . E 4 42.47 50.723 76.608 1 65.16 ? PG DAD 601 A 1 HETATM 2 O O1G DAD . . . E 4 43.672 49.861 76.76 1 65.61 ? O1G DAD 601 A 1 HETATM 3 O O2G DAD . . . E 4 41.244 50.203 77.257 1 65.18 ? O2G DAD 601 A 1 HETATM 4 O O3G DAD . . . E 4 42.766 52.089 77.068 1 67.27 ? O3G DAD 601 A 1 HETATM 5 P PB DAD . . . E 4 41.113 49.682 74.428 1 61.45 ? PB DAD 601 A 1 HETATM 6 O O1B DAD . . . E 4 41.372 49.437 73.053 1 58.9 ? O1B DAD 601 A 1 HETATM 7 O O2B DAD . . . E 4 40.778 48.53 75.258 1 57.45 ? O2B DAD 601 A 1 HETATM 8 O O3B DAD . . . E 4 41.953 50.896 75.055 1 64.25 ? O3B DAD 601 A 1 HETATM 9 P PA DAD . . . E 4 38.701 51.231 74.835 1 66.03 ? PA DAD 601 A 1 HETATM 10 O O1A DAD . . . E 4 38.291 51.431 76.215 1 65.2 ? O1A DAD 601 A 1 HETATM 11 O O2A DAD . . . E 4 38.772 52.43 73.991 1 66.37 ? O2A DAD 601 A 1 HETATM 12 O O3A DAD . . . E 4 39.497 49.984 74.423 1 61.59 ? O3A DAD 601 A 1 HETATM 13 O O5' DAD . . . E 4 37.498 50.701 74.21 1 66.41 ? O5' DAD 601 A 1 HETATM 14 C C5' DAD . . . E 4 36.864 50.2 73.237 1 71.96 ? C5' DAD 601 A 1 HETATM 15 C C4' DAD . . . E 4 35.987 49.142 72.691 1 74.89 ? C4' DAD 601 A 1 HETATM 16 O O4' DAD . . . E 4 34.672 49.489 73.209 1 79.31 ? O4' DAD 601 A 1 HETATM 17 C C3' DAD . . . E 4 36.149 49.581 71.279 1 76.39 ? C3' DAD 601 A 1 HETATM 18 C C2' DAD . . . E 4 34.685 49.561 70.782 1 78.24 ? C2' DAD 601 A 1 HETATM 19 C C1' DAD . . . E 4 33.781 49.689 72.061 1 80.41 ? C1' DAD 601 A 1 HETATM 20 N N9 DAD . . . E 4 33.097 51.013 72.198 1 84.32 ? N9 DAD 601 A 1 HETATM 21 C C8 DAD . . . E 4 33.4 52.147 72.982 1 85.79 ? C8 DAD 601 A 1 HETATM 22 N N7 DAD . . . E 4 32.561 53.14 72.839 1 87.62 ? N7 DAD 601 A 1 HETATM 23 C C5 DAD . . . E 4 31.644 52.633 71.905 1 88.38 ? C5 DAD 601 A 1 HETATM 24 C C6 DAD . . . E 4 30.449 53.189 71.274 1 89.13 ? C6 DAD 601 A 1 HETATM 25 N N6 DAD . . . E 4 30.006 54.421 71.554 1 88.91 ? N6 DAD 601 A 1 HETATM 26 N N1 DAD . . . E 4 29.746 52.388 70.355 1 89 ? N1 DAD 601 A 1 HETATM 27 C C2 DAD . . . E 4 30.185 51.14 70.085 1 88.32 ? C2 DAD 601 A 1 HETATM 28 N N3 DAD . . . E 4 31.272 50.548 70.595 1 88.2 ? N3 DAD 601 A 1 HETATM 29 C C4 DAD . . . E 4 31.969 51.347 71.51 1 87.07 ? C4 DAD 601 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 29 #