data_1CJV # _model_server_result.job_id Qdccy2FO6loCS0uV_NNljw _model_server_result.datetime_utc '2024-11-21 22:31:19' _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 1cjv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":102}' # _entry.id 1CJV # _exptl.entry_id 1CJV _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 475.182 _entity.id 7 _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 1CJV _cell.length_a 118.4 _cell.length_b 134.2 _cell.length_c 71.6 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1CJV _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,F,G,H,I,J,K,L,M,N,O _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 7 _struct_asym.id G _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 G O2A DAD . A DAD 102 1_555 D ZN ZN . A ZN 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc2 G O2G DAD . A DAD 102 1_555 E MG MG . A MG 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.19 ? metalc ? metalc3 G O1B DAD . A DAD 102 1_555 E MG MG . A MG 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc4 G O2A DAD . A DAD 102 1_555 E MG MG . A MG 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc5 A OD1 ASP 33 A ASP 396 1_555 D ZN ZN . A ZN 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.653 ? metalc ? metalc6 A OD2 ASP 33 A ASP 396 1_555 E MG MG . A MG 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? metalc ? metalc7 A O ILE 34 A ILE 397 1_555 E MG MG . A MG 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.236 ? metalc ? metalc8 A OD1 ASP 77 A ASP 440 1_555 D ZN ZN . A ZN 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.716 ? metalc ? metalc9 A OD2 ASP 77 A ASP 440 1_555 E MG MG . A MG 582 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? metalc ? metalc10 C NH2 ARG 42 C ARG 42 1_555 K ZN ZN . C ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc11 C OG SER 54 C SER 54 1_555 I MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.334 ? metalc ? metalc12 C OG1 THR 204 C THR 204 1_555 I MG MG . C MG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc13 C OE2 GLU 209 C GLU 209 1_555 K ZN ZN . C ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.593 ? metalc ? metalc14 C ND1 HIS 220 C HIS 220 1_555 K ZN ZN . C ZN 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc15 I MG MG . C MG 403 1_555 L O2B GSP . C GSP 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.861 ? metalc ? metalc16 I MG MG . C MG 403 1_555 L O2G GSP . C GSP 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.855 ? metalc ? metalc17 I MG MG . C MG 403 1_555 L O3B GSP . C GSP 406 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.853 ? metalc ? metalc18 I MG MG . C MG 403 1_555 O O HOH . C HOH 412 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.886 ? metalc ? metalc19 I MG MG . C MG 403 1_555 O O HOH . C HOH 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.845 ? # _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 1CJV _atom_sites.fract_transf_matrix[1][1] 0.008446 _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] 0.007451 _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] 0.013966 _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 D 4 ZN A 1 581 502 ZN ZN . E 5 MG A 1 582 503 MG MG . F 6 FOK A 1 101 101 FOK FOK . G 7 DAD A 1 102 102 DAD DAD . H 8 MES A 1 103 103 MES MES . I 5 MG C 1 403 396 MG MG . J 9 CL C 1 404 397 CL CL . K 4 ZN C 1 405 398 ZN ZN . L 10 GSP C 1 406 395 GSP GSP . M 11 HOH A 1 23 23 HOH HOH . M 11 HOH A 2 24 24 HOH HOH . M 11 HOH A 3 30 30 HOH HOH . M 11 HOH A 4 31 31 HOH HOH . M 11 HOH A 5 33 33 HOH HOH . M 11 HOH A 6 57 57 HOH HOH . N 11 HOH B 1 8 8 HOH HOH . N 11 HOH B 2 9 9 HOH HOH . N 11 HOH B 3 12 12 HOH HOH . N 11 HOH B 4 13 13 HOH HOH . N 11 HOH B 5 14 14 HOH HOH . N 11 HOH B 6 15 15 HOH HOH . N 11 HOH B 7 17 17 HOH HOH . N 11 HOH B 8 18 18 HOH HOH . N 11 HOH B 9 19 19 HOH HOH . N 11 HOH B 10 21 21 HOH HOH . N 11 HOH B 11 22 22 HOH HOH . N 11 HOH B 12 25 25 HOH HOH . N 11 HOH B 13 26 26 HOH HOH . N 11 HOH B 14 28 28 HOH HOH . N 11 HOH B 15 32 32 HOH HOH . N 11 HOH B 16 34 34 HOH HOH . N 11 HOH B 17 35 35 HOH HOH . N 11 HOH B 18 36 36 HOH HOH . N 11 HOH B 19 37 37 HOH HOH . N 11 HOH B 20 38 38 HOH HOH . N 11 HOH B 21 54 54 HOH HOH . O 11 HOH C 1 407 1 HOH HOH . O 11 HOH C 2 408 2 HOH HOH . O 11 HOH C 3 409 3 HOH HOH . O 11 HOH C 4 410 5 HOH HOH . O 11 HOH C 5 411 7 HOH HOH . O 11 HOH C 6 412 10 HOH HOH . O 11 HOH C 7 413 39 HOH HOH . O 11 HOH C 8 414 40 HOH HOH . O 11 HOH C 9 415 41 HOH HOH . O 11 HOH C 10 416 42 HOH HOH . O 11 HOH C 11 417 44 HOH HOH . O 11 HOH C 12 418 45 HOH HOH . O 11 HOH C 13 419 46 HOH HOH . O 11 HOH C 14 420 47 HOH HOH . O 11 HOH C 15 421 49 HOH HOH . O 11 HOH C 16 422 50 HOH HOH . O 11 HOH C 17 423 51 HOH HOH . O 11 HOH C 18 424 52 HOH HOH . O 11 HOH C 19 425 58 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 DAD . . . G 7 56.802 -6.433 58.906 1 39.95 ? PG DAD 102 A 1 HETATM 2 O O1G DAD . . . G 7 56.398 -5.181 58.224 1 39.87 ? O1G DAD 102 A 1 HETATM 3 O O2G DAD . . . G 7 55.866 -7.59 58.934 1 35.78 ? O2G DAD 102 A 1 HETATM 4 O O3G DAD . . . G 7 57.185 -6.096 60.302 1 40.91 ? O3G DAD 102 A 1 HETATM 5 P PB DAD . . . G 7 58.532 -8.113 57.589 1 39.52 ? PB DAD 102 A 1 HETATM 6 O O1B DAD . . . G 7 58.176 -9.305 58.407 1 39.3 ? O1B DAD 102 A 1 HETATM 7 O O2B DAD . . . G 7 59.925 -7.931 57.116 1 38.45 ? O2B DAD 102 A 1 HETATM 8 O O3B DAD . . . G 7 58.112 -6.885 58.336 1 39.95 ? O3B DAD 102 A 1 HETATM 9 P PA DAD . . . G 7 56.701 -9.036 55.805 1 42.68 ? PA DAD 102 A 1 HETATM 10 O O1A DAD . . . G 7 55.943 -8.356 54.728 1 43.22 ? O1A DAD 102 A 1 HETATM 11 O O2A DAD . . . G 7 55.972 -9.707 56.907 1 41.74 ? O2A DAD 102 A 1 HETATM 12 O O3A DAD . . . G 7 57.634 -8.053 56.406 1 42.38 ? O3A DAD 102 A 1 HETATM 13 O O5' DAD . . . G 7 57.707 -10.056 55.104 1 41.97 ? O5' DAD 102 A 1 HETATM 14 C C5' DAD . . . G 7 57.433 -11.453 55.054 1 40.39 ? C5' DAD 102 A 1 HETATM 15 C C4' DAD . . . G 7 56.89 -11.832 53.693 1 39.73 ? C4' DAD 102 A 1 HETATM 16 O O4' DAD . . . G 7 56.368 -13.187 53.74 1 38.87 ? O4' DAD 102 A 1 HETATM 17 C C3' DAD . . . G 7 57.876 -11.84 52.529 1 39.82 ? C3' DAD 102 A 1 HETATM 18 C C2' DAD . . . G 7 57.198 -12.775 51.523 1 37.67 ? C2' DAD 102 A 1 HETATM 19 C C1' DAD . . . G 7 56.486 -13.749 52.45 1 35.82 ? C1' DAD 102 A 1 HETATM 20 N N9 DAD . . . G 7 56.759 -15.181 52.509 1 32.59 ? N9 DAD 102 A 1 HETATM 21 C C8 DAD . . . G 7 57.914 -15.801 52.899 1 32.34 ? C8 DAD 102 A 1 HETATM 22 N N7 DAD . . . G 7 57.836 -17.108 52.913 1 32.18 ? N7 DAD 102 A 1 HETATM 23 C C5 DAD . . . G 7 56.531 -17.359 52.509 1 30.76 ? C5 DAD 102 A 1 HETATM 24 C C6 DAD . . . G 7 55.828 -18.557 52.311 1 30.7 ? C6 DAD 102 A 1 HETATM 25 N N6 DAD . . . G 7 56.338 -19.763 52.543 1 31.42 ? N6 DAD 102 A 1 HETATM 26 N N1 DAD . . . G 7 54.543 -18.462 51.897 1 29.52 ? N1 DAD 102 A 1 HETATM 27 C C2 DAD . . . G 7 54.027 -17.249 51.682 1 29.15 ? C2 DAD 102 A 1 HETATM 28 N N3 DAD . . . G 7 54.591 -16.055 51.833 1 30.47 ? N3 DAD 102 A 1 HETATM 29 C C4 DAD . . . G 7 55.864 -16.188 52.247 1 31.28 ? C4 DAD 102 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 29 #