data_2ALZ # _model_server_result.job_id L3vUh7dZ9fqDhZKbLNjQWg _model_server_result.datetime_utc '2024-11-15 06:36:47' _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 2alz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":875}' # _entry.id 2ALZ # _exptl.entry_id 2ALZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 467.157 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYCYTIDINE-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 120 _cell.entry_id 2ALZ _cell.length_a 98.114 _cell.length_b 98.114 _cell.length_c 202.823 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2ALZ _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 10_665 -y+1,-x+1,-z+1/6 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 49.057 84.969216 33.803833 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _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 covale ? covale1 B O3' DC 6 P DC 872 1_555 B P DOC 7 P DOC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.559 ? metalc ? metalc1 C OD2 ASP 10 A ASP 34 1_555 E MG MG . A MG 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.228 ? metalc ? metalc2 C OD1 ASP 10 A ASP 34 1_555 D MG MG . A MG 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.937 ? metalc ? metalc3 C O LEU 11 A LEU 35 1_555 E MG MG . A MG 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc4 C OD1 ASP 102 A ASP 126 1_555 E MG MG . A MG 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? metalc ? metalc5 C OD2 ASP 102 A ASP 126 1_555 D MG MG . A MG 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.073 ? metalc ? metalc6 C OE2 GLU 103 A GLU 127 1_555 D MG MG . A MG 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.28 ? metalc ? metalc7 E MG MG . A MG 871 1_555 F O1G DCP . A DCP 875 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.332 ? metalc ? metalc8 E MG MG . A MG 871 1_555 F O1A DCP . A DCP 875 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.313 ? metalc ? metalc9 E MG MG . A MG 871 1_555 F O2B DCP . A DCP 875 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.199 ? metalc ? metalc10 D MG MG . A MG 872 1_555 F O1A DCP . A DCP 875 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.363 ? hydrog WATSON-CRICK hydrog1 A N1 DG 3 T DG 841 1_555 B N3 DOC 7 P DOC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N2 DG 3 T DG 841 1_555 B O2 DOC 7 P DOC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A O6 DG 3 T DG 841 1_555 B N4 DOC 7 P DOC 873 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A N1 DG 4 T DG 842 1_555 B N3 DC 6 P DC 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 A N2 DG 4 T DG 842 1_555 B O2 DC 6 P DC 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 A O6 DG 4 T DG 842 1_555 B N4 DC 6 P DC 872 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 DG 5 T DG 843 1_555 B N3 DC 5 P DC 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N2 DG 5 T DG 843 1_555 B O2 DC 5 P DC 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A O6 DG 5 T DG 843 1_555 B N4 DC 5 P DC 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N3 DT 6 T DT 844 1_555 B N1 DA 4 P DA 870 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A O4 DT 6 T DT 844 1_555 B N6 DA 4 P DA 870 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 A N3 DC 7 T DC 845 1_555 B N1 DG 3 P DG 869 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N4 DC 7 T DC 845 1_555 B O6 DG 3 P DG 869 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A O2 DC 7 T DC 845 1_555 B N2 DG 3 P DG 869 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DC 8 T DC 846 1_555 B N1 DG 2 P DG 868 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A N4 DC 8 T DC 846 1_555 B O6 DG 2 P DG 868 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A O2 DC 8 T DC 846 1_555 B N2 DG 2 P DG 868 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N3 DT 9 T DT 847 1_555 B N1 DA 1 P DA 867 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O4 DT 9 T DT 847 1_555 B N6 DA 1 P DA 867 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C9 H16 N3 O13 P3' _chem_comp.formula_weight 467.157 _chem_comp.id DCP _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYCYTIDINE-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 N1 C2 DCP sing 156 n n N1 C6 DCP sing 157 n n N1 C1' DCP sing 158 n n C2 N3 DCP sing 159 n n C2 O2 DCP doub 160 n n N3 C4 DCP doub 161 n n C4 C5 DCP sing 162 n n C4 N4 DCP sing 163 n n C5 C6 DCP doub 164 n n C5 H5 DCP sing 165 n n C6 H6 DCP sing 166 n n N4 HN41 DCP sing 167 n n N4 HN42 DCP sing 168 n n C1' C2' DCP sing 169 n n C1' O4' DCP sing 170 n n C1' H1' DCP sing 171 n n C2' C3' DCP sing 172 n n C2' "H2'1" DCP sing 173 n n C2' "H2'2" DCP sing 174 n n C3' C4' DCP sing 175 n n C3' O3' DCP sing 176 n n C3' H3' DCP sing 177 n n C4' O4' DCP sing 178 n n C4' C5' DCP sing 179 n n C4' H4' DCP sing 180 n n O3' HO3' DCP sing 181 n n C5' O5' DCP sing 182 n n C5' "H5'1" DCP sing 183 n n C5' "H5'2" DCP sing 184 n n O5' PA DCP sing 185 n n PA O1A DCP doub 186 n n PA O2A DCP sing 187 n n PA O3A DCP sing 188 n n O2A HOA2 DCP sing 189 n n O3A PB DCP sing 190 n n PB O1B DCP doub 191 n n PB O2B DCP sing 192 n n PB O3B DCP sing 193 n n O2B HOB2 DCP sing 194 n n O3B PG DCP sing 195 n n PG O1G DCP doub 196 n n PG O2G DCP sing 197 n n PG O3G DCP sing 198 n n O2G HOG2 DCP sing 199 n n O3G HOG3 DCP sing 200 n n # _atom_sites.entry_id 2ALZ _atom_sites.fract_transf_matrix[1][1] 0.010192 _atom_sites.fract_transf_matrix[1][2] 0.005884 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011769 _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] 0.00493 _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 MG A 1 872 872 MG MG . E 4 MG A 1 871 871 MG MG . F 5 DCP A 1 875 875 DCP DCP . G 6 HOH T 1 903 903 HOH HOH . G 6 HOH T 2 930 930 HOH HOH . G 6 HOH T 3 968 968 HOH HOH . G 6 HOH T 4 974 974 HOH HOH . G 6 HOH T 5 993 993 HOH HOH . H 6 HOH P 1 945 945 HOH HOH . H 6 HOH P 2 950 950 HOH HOH . H 6 HOH P 3 976 976 HOH HOH . H 6 HOH P 4 1014 1014 HOH HOH . I 6 HOH A 1 902 902 HOH HOH . I 6 HOH A 2 905 905 HOH HOH . I 6 HOH A 3 906 906 HOH HOH . I 6 HOH A 4 907 907 HOH HOH . I 6 HOH A 5 908 908 HOH HOH . I 6 HOH A 6 909 909 HOH HOH . I 6 HOH A 7 910 910 HOH HOH . I 6 HOH A 8 911 911 HOH HOH . I 6 HOH A 9 912 912 HOH HOH . I 6 HOH A 10 913 913 HOH HOH . I 6 HOH A 11 914 914 HOH HOH . I 6 HOH A 12 915 915 HOH HOH . I 6 HOH A 13 916 916 HOH HOH . I 6 HOH A 14 917 917 HOH HOH . I 6 HOH A 15 919 919 HOH HOH . I 6 HOH A 16 920 920 HOH HOH . I 6 HOH A 17 921 921 HOH HOH . I 6 HOH A 18 922 922 HOH HOH . I 6 HOH A 19 923 923 HOH HOH . I 6 HOH A 20 924 924 HOH HOH . I 6 HOH A 21 925 925 HOH HOH . I 6 HOH A 22 926 926 HOH HOH . I 6 HOH A 23 928 928 HOH HOH . I 6 HOH A 24 929 929 HOH HOH . I 6 HOH A 25 933 933 HOH HOH . I 6 HOH A 26 935 935 HOH HOH . I 6 HOH A 27 937 937 HOH HOH . I 6 HOH A 28 938 938 HOH HOH . I 6 HOH A 29 939 939 HOH HOH . I 6 HOH A 30 940 940 HOH HOH . I 6 HOH A 31 943 943 HOH HOH . I 6 HOH A 32 944 944 HOH HOH . I 6 HOH A 33 946 946 HOH HOH . I 6 HOH A 34 949 949 HOH HOH . I 6 HOH A 35 954 954 HOH HOH . I 6 HOH A 36 956 956 HOH HOH . I 6 HOH A 37 959 959 HOH HOH . I 6 HOH A 38 960 960 HOH HOH . I 6 HOH A 39 961 961 HOH HOH . I 6 HOH A 40 962 962 HOH HOH . I 6 HOH A 41 967 967 HOH HOH . I 6 HOH A 42 970 970 HOH HOH . I 6 HOH A 43 972 972 HOH HOH . I 6 HOH A 44 973 973 HOH HOH . I 6 HOH A 45 975 975 HOH HOH . I 6 HOH A 46 977 977 HOH HOH . I 6 HOH A 47 978 978 HOH HOH . I 6 HOH A 48 979 979 HOH HOH . I 6 HOH A 49 982 982 HOH HOH . I 6 HOH A 50 983 983 HOH HOH . I 6 HOH A 51 984 984 HOH HOH . I 6 HOH A 52 986 986 HOH HOH . I 6 HOH A 53 987 987 HOH HOH . I 6 HOH A 54 988 988 HOH HOH . I 6 HOH A 55 989 989 HOH HOH . I 6 HOH A 56 995 995 HOH HOH . I 6 HOH A 57 998 998 HOH HOH . I 6 HOH A 58 999 999 HOH HOH . I 6 HOH A 59 1001 1001 HOH HOH . I 6 HOH A 60 1003 1003 HOH HOH . I 6 HOH A 61 1006 1006 HOH HOH . I 6 HOH A 62 1007 1007 HOH HOH . I 6 HOH A 63 1009 1009 HOH HOH . I 6 HOH A 64 1011 1011 HOH HOH . I 6 HOH A 65 1012 1012 HOH HOH . I 6 HOH A 66 1013 1013 HOH HOH . I 6 HOH A 67 1015 1015 HOH HOH . I 6 HOH A 68 1016 1016 HOH HOH . I 6 HOH A 69 1017 1017 HOH HOH . I 6 HOH A 70 1018 1018 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 N N1 DCP . . . F 5 1.669 25.29 19.362 1 23.61 ? N1 DCP 875 A 1 HETATM 2 C C2 DCP . . . F 5 1.017 26.266 20.089 1 23.5 ? C2 DCP 875 A 1 HETATM 3 N N3 DCP . . . F 5 0.309 27.272 19.467 1 22.89 ? N3 DCP 875 A 1 HETATM 4 C C4 DCP . . . F 5 0.216 27.358 18.085 1 27.46 ? C4 DCP 875 A 1 HETATM 5 C C5 DCP . . . F 5 0.962 26.435 17.332 1 21.99 ? C5 DCP 875 A 1 HETATM 6 C C6 DCP . . . F 5 1.573 25.345 18.006 1 20.79 ? C6 DCP 875 A 1 HETATM 7 O O2 DCP . . . F 5 1.019 26.186 21.316 1 19.71 ? O2 DCP 875 A 1 HETATM 8 N N4 DCP . . . F 5 -0.548 28.346 17.575 1 22.35 ? N4 DCP 875 A 1 HETATM 9 C C1' DCP . . . F 5 2.501 24.335 20.163 1 19.12 ? C1' DCP 875 A 1 HETATM 10 C C2' DCP . . . F 5 1.765 23.009 20.37 1 20.81 ? C2' DCP 875 A 1 HETATM 11 C C3' DCP . . . F 5 2.472 21.994 19.419 1 23.33 ? C3' DCP 875 A 1 HETATM 12 C C4' DCP . . . F 5 3.787 22.715 19 1 19.17 ? C4' DCP 875 A 1 HETATM 13 O O4' DCP . . . F 5 3.63 24.052 19.341 1 22.96 ? O4' DCP 875 A 1 HETATM 14 O O3' DCP . . . F 5 2.724 20.763 20.037 1 19.7 ? O3' DCP 875 A 1 HETATM 15 C C5' DCP . . . F 5 4.253 22.503 17.584 1 14.66 ? C5' DCP 875 A 1 HETATM 16 O O5' DCP . . . F 5 3.382 23.107 16.609 1 17.98 ? O5' DCP 875 A 1 HETATM 17 P PA DCP . . . F 5 2.891 22.243 15.348 1 20.43 ? PA DCP 875 A 1 HETATM 18 O O1A DCP . . . F 5 3.931 21.413 14.884 1 19.86 ? O1A DCP 875 A 1 HETATM 19 O O2A DCP . . . F 5 2.022 22.97 14.343 1 25.29 ? O2A DCP 875 A 1 HETATM 20 O O3A DCP . . . F 5 1.895 21.11 15.976 1 23.23 ? O3A DCP 875 A 1 HETATM 21 P PB DCP . . . F 5 2.26 19.6 16.275 1 20.84 ? PB DCP 875 A 1 HETATM 22 O O1B DCP . . . F 5 1.843 19.423 17.651 1 27.16 ? O1B DCP 875 A 1 HETATM 23 O O2B DCP . . . F 5 3.766 19.167 16.347 1 14.16 ? O2B DCP 875 A 1 HETATM 24 O O3B DCP . . . F 5 1.465 18.662 15.281 1 20.21 ? O3B DCP 875 A 1 HETATM 25 P PG DCP . . . F 5 1.964 17.962 13.929 1 18.04 ? PG DCP 875 A 1 HETATM 26 O O1G DCP . . . F 5 3.236 18.601 13.333 1 17.8 ? O1G DCP 875 A 1 HETATM 27 O O2G DCP . . . F 5 0.658 18.137 13.026 1 17.07 ? O2G DCP 875 A 1 HETATM 28 O O3G DCP . . . F 5 2.32 16.513 14.486 1 20.93 ? O3G DCP 875 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 32 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 28 #