data_4I2J # _model_server_result.job_id d7ujmXSTMhegB86peMAFqg _model_server_result.datetime_utc '2024-11-24 09:33:29' _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 4i2j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 4I2J # _exptl.entry_id 4I2J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 467.157 _entity.id 2 _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 90 _cell.entry_id 4I2J _cell.length_a 47.13 _cell.length_b 85.25 _cell.length_c 111.87 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4I2J _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 PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 2 _struct_asym.id B _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 OD2 ASP 233 A ASP 343 1_555 E ZN ZN . A ZN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.337 ? metalc ? metalc2 A OD1 ASP 233 A ASP 343 1_555 F ZN ZN . A ZN 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.149 ? metalc ? metalc3 A OD2 ASP 235 A ASP 345 1_555 E ZN ZN . A ZN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc4 A OD1 ASP 235 A ASP 345 1_555 F ZN ZN . A ZN 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.545 ? metalc ? metalc5 A OD2 ASP 324 A ASP 434 1_555 E ZN ZN . A ZN 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.174 ? metalc ? metalc6 A OD2 ASP 363 A ASP 473 1_555 D ZN ZN . A ZN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.124 ? metalc ? metalc7 A ND1 HIS 365 A HIS 475 1_555 D ZN ZN . A ZN 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.885 ? metalc ? metalc8 B O2B DCP . A DCP 601 1_555 F ZN ZN . A ZN 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.914 ? metalc ? metalc9 B O2A DCP . A DCP 601 1_555 F ZN ZN . A ZN 605 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc10 D ZN ZN . A ZN 603 1_555 G O HOH . A HOH 715 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.383 ? # _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 83 n n N1 C6 DCP sing 84 n n N1 C1' DCP sing 85 n n C2 N3 DCP sing 86 n n C2 O2 DCP doub 87 n n N3 C4 DCP doub 88 n n C4 C5 DCP sing 89 n n C4 N4 DCP sing 90 n n C5 C6 DCP doub 91 n n C5 H5 DCP sing 92 n n C6 H6 DCP sing 93 n n N4 HN41 DCP sing 94 n n N4 HN42 DCP sing 95 n n C1' C2' DCP sing 96 n n C1' O4' DCP sing 97 n n C1' H1' DCP sing 98 n n C2' C3' DCP sing 99 n n C2' "H2'1" DCP sing 100 n n C2' "H2'2" DCP sing 101 n n C3' C4' DCP sing 102 n n C3' O3' DCP sing 103 n n C3' H3' DCP sing 104 n n C4' O4' DCP sing 105 n n C4' C5' DCP sing 106 n n C4' H4' DCP sing 107 n n O3' HO3' DCP sing 108 n n C5' O5' DCP sing 109 n n C5' "H5'1" DCP sing 110 n n C5' "H5'2" DCP sing 111 n n O5' PA DCP sing 112 n n PA O1A DCP doub 113 n n PA O2A DCP sing 114 n n PA O3A DCP sing 115 n n O2A HOA2 DCP sing 116 n n O3A PB DCP sing 117 n n PB O1B DCP doub 118 n n PB O2B DCP sing 119 n n PB O3B DCP sing 120 n n O2B HOB2 DCP sing 121 n n O3B PG DCP sing 122 n n PG O1G DCP doub 123 n n PG O2G DCP sing 124 n n PG O3G DCP sing 125 n n O2G HOG2 DCP sing 126 n n O3G HOG3 DCP sing 127 n n # _atom_sites.entry_id 4I2J _atom_sites.fract_transf_matrix[1][1] 0.021218 _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] 0.01173 _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] 0.008939 _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 DCP A 1 601 1 DCP DCP . C 3 ZN A 1 602 1 ZN ZN . D 3 ZN A 1 603 2 ZN ZN . E 3 ZN A 1 604 3 ZN ZN . F 3 ZN A 1 605 4 ZN ZN . G 4 HOH A 1 701 1 HOH HOH . G 4 HOH A 2 702 2 HOH HOH . G 4 HOH A 3 703 3 HOH HOH . G 4 HOH A 4 704 4 HOH HOH . G 4 HOH A 5 705 5 HOH HOH . G 4 HOH A 6 706 6 HOH HOH . G 4 HOH A 7 707 7 HOH HOH . G 4 HOH A 8 708 8 HOH HOH . G 4 HOH A 9 709 9 HOH HOH . G 4 HOH A 10 710 10 HOH HOH . G 4 HOH A 11 711 11 HOH HOH . G 4 HOH A 12 712 12 HOH HOH . G 4 HOH A 13 713 13 HOH HOH . G 4 HOH A 14 714 14 HOH HOH . G 4 HOH A 15 715 15 HOH HOH . G 4 HOH A 16 716 16 HOH HOH . G 4 HOH A 17 717 17 HOH HOH . G 4 HOH A 18 718 18 HOH HOH . G 4 HOH A 19 719 19 HOH HOH . G 4 HOH A 20 720 20 HOH HOH . G 4 HOH A 21 721 21 HOH HOH . G 4 HOH A 22 722 22 HOH HOH . G 4 HOH A 23 723 23 HOH HOH . G 4 HOH A 24 724 24 HOH HOH . G 4 HOH A 25 725 25 HOH HOH . G 4 HOH A 26 726 26 HOH HOH . G 4 HOH A 27 727 27 HOH HOH . G 4 HOH A 28 728 28 HOH HOH . G 4 HOH A 29 729 29 HOH HOH . G 4 HOH A 30 730 30 HOH HOH . G 4 HOH A 31 731 31 HOH HOH . G 4 HOH A 32 732 32 HOH HOH . G 4 HOH A 33 733 33 HOH HOH . G 4 HOH A 34 734 34 HOH HOH . G 4 HOH A 35 735 35 HOH HOH . G 4 HOH A 36 736 36 HOH HOH . G 4 HOH A 37 737 37 HOH HOH . G 4 HOH A 38 738 38 HOH HOH . G 4 HOH A 39 739 39 HOH HOH . G 4 HOH A 40 740 40 HOH HOH . G 4 HOH A 41 741 41 HOH HOH . G 4 HOH A 42 742 42 HOH HOH . G 4 HOH A 43 743 43 HOH HOH . G 4 HOH A 44 744 44 HOH HOH . G 4 HOH A 45 745 45 HOH HOH . G 4 HOH A 46 746 46 HOH HOH . G 4 HOH A 47 747 47 HOH HOH . G 4 HOH A 48 748 48 HOH HOH . G 4 HOH A 49 749 49 HOH HOH . G 4 HOH A 50 750 50 HOH HOH . G 4 HOH A 51 751 51 HOH HOH . G 4 HOH A 52 752 52 HOH HOH . G 4 HOH A 53 753 53 HOH HOH . G 4 HOH A 54 754 54 HOH HOH . G 4 HOH A 55 755 55 HOH HOH . G 4 HOH A 56 756 56 HOH HOH . G 4 HOH A 57 757 57 HOH HOH . G 4 HOH A 58 758 58 HOH HOH . G 4 HOH A 59 759 59 HOH HOH . G 4 HOH A 60 760 60 HOH HOH . G 4 HOH A 61 761 61 HOH HOH . G 4 HOH A 62 762 62 HOH HOH . G 4 HOH A 63 763 63 HOH HOH . G 4 HOH A 64 764 64 HOH HOH . G 4 HOH A 65 765 65 HOH HOH . G 4 HOH A 66 766 66 HOH HOH . G 4 HOH A 67 767 67 HOH HOH . G 4 HOH A 68 768 68 HOH HOH . G 4 HOH A 69 769 69 HOH HOH . G 4 HOH A 70 770 70 HOH HOH . G 4 HOH A 71 771 71 HOH HOH . G 4 HOH A 72 772 72 HOH HOH . G 4 HOH A 73 773 73 HOH HOH . G 4 HOH A 74 774 74 HOH HOH . G 4 HOH A 75 775 75 HOH HOH . G 4 HOH A 76 776 76 HOH HOH . G 4 HOH A 77 777 77 HOH HOH . G 4 HOH A 78 778 78 HOH HOH . G 4 HOH A 79 779 79 HOH HOH . G 4 HOH A 80 780 80 HOH HOH . G 4 HOH A 81 781 81 HOH HOH . G 4 HOH A 82 782 82 HOH HOH . G 4 HOH A 83 783 83 HOH HOH . G 4 HOH A 84 784 84 HOH HOH . G 4 HOH A 85 785 85 HOH HOH . G 4 HOH A 86 786 86 HOH HOH . G 4 HOH A 87 787 87 HOH HOH . G 4 HOH A 88 788 88 HOH HOH . G 4 HOH A 89 789 89 HOH HOH . G 4 HOH A 90 790 90 HOH HOH . G 4 HOH A 91 791 91 HOH HOH . G 4 HOH A 92 792 92 HOH HOH . G 4 HOH A 93 793 93 HOH HOH . G 4 HOH A 94 794 94 HOH HOH . G 4 HOH A 95 795 95 HOH HOH . G 4 HOH A 96 796 96 HOH HOH . G 4 HOH A 97 797 97 HOH HOH . G 4 HOH A 98 798 98 HOH HOH . G 4 HOH A 99 799 99 HOH HOH . G 4 HOH A 100 800 100 HOH HOH . G 4 HOH A 101 801 101 HOH HOH . G 4 HOH A 102 802 102 HOH HOH . G 4 HOH A 103 803 103 HOH HOH . G 4 HOH A 104 804 104 HOH HOH . G 4 HOH A 105 805 105 HOH HOH . G 4 HOH A 106 806 106 HOH HOH . G 4 HOH A 107 807 107 HOH HOH . G 4 HOH A 108 808 108 HOH HOH . G 4 HOH A 109 809 109 HOH HOH . G 4 HOH A 110 810 110 HOH HOH . G 4 HOH A 111 811 111 HOH HOH . G 4 HOH A 112 812 112 HOH HOH . G 4 HOH A 113 813 113 HOH HOH . G 4 HOH A 114 814 114 HOH HOH . G 4 HOH A 115 815 115 HOH HOH . G 4 HOH A 116 816 116 HOH HOH . G 4 HOH A 117 817 117 HOH HOH . G 4 HOH A 118 818 118 HOH HOH . G 4 HOH A 119 819 119 HOH HOH . G 4 HOH A 120 820 120 HOH HOH . G 4 HOH A 121 821 121 HOH HOH . G 4 HOH A 122 822 122 HOH HOH . G 4 HOH A 123 823 123 HOH HOH . G 4 HOH A 124 824 124 HOH HOH . G 4 HOH A 125 825 125 HOH HOH . G 4 HOH A 126 826 126 HOH HOH . G 4 HOH A 127 827 127 HOH HOH . G 4 HOH A 128 828 128 HOH HOH . G 4 HOH A 129 829 129 HOH HOH . G 4 HOH A 130 830 130 HOH HOH . G 4 HOH A 131 831 131 HOH HOH . G 4 HOH A 132 832 132 HOH HOH . G 4 HOH A 133 833 133 HOH HOH . G 4 HOH A 134 834 134 HOH HOH . G 4 HOH A 135 835 135 HOH HOH . G 4 HOH A 136 836 136 HOH HOH . G 4 HOH A 137 837 137 HOH HOH . G 4 HOH A 138 838 138 HOH HOH . G 4 HOH A 139 839 139 HOH HOH . G 4 HOH A 140 840 140 HOH HOH . G 4 HOH A 141 841 141 HOH HOH . G 4 HOH A 142 842 142 HOH HOH . G 4 HOH A 143 843 143 HOH HOH . G 4 HOH A 144 844 144 HOH HOH . G 4 HOH A 145 845 145 HOH HOH . G 4 HOH A 146 846 146 HOH HOH . G 4 HOH A 147 847 147 HOH HOH . G 4 HOH A 148 848 148 HOH HOH . G 4 HOH A 149 849 149 HOH HOH . G 4 HOH A 150 850 150 HOH HOH . G 4 HOH A 151 851 151 HOH HOH . G 4 HOH A 152 852 152 HOH HOH . G 4 HOH A 153 853 153 HOH HOH . G 4 HOH A 154 854 154 HOH HOH . G 4 HOH A 155 855 155 HOH HOH . G 4 HOH A 156 856 156 HOH HOH . G 4 HOH A 157 857 157 HOH HOH . G 4 HOH A 158 858 158 HOH HOH . G 4 HOH A 159 859 159 HOH HOH . G 4 HOH A 160 860 160 HOH HOH . G 4 HOH A 161 861 161 HOH HOH . G 4 HOH A 162 862 162 HOH HOH . G 4 HOH A 163 863 163 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 . . . B 2 34.127 50.186 74.783 1 81.97 ? N1 DCP 601 A 1 HETATM 2 C C2 DCP . . . B 2 33.074 50.294 73.856 1 84.64 ? C2 DCP 601 A 1 HETATM 3 N N3 DCP . . . B 2 32.128 51.288 73.962 1 86.02 ? N3 DCP 601 A 1 HETATM 4 C C4 DCP . . . B 2 32.167 52.216 74.964 1 88.02 ? C4 DCP 601 A 1 HETATM 5 C C5 DCP . . . B 2 33.222 52.141 75.955 1 86.75 ? C5 DCP 601 A 1 HETATM 6 C C6 DCP . . . B 2 34.153 51.121 75.847 1 84.19 ? C6 DCP 601 A 1 HETATM 7 O O2 DCP . . . B 2 32.965 49.494 72.925 1 85.09 ? O2 DCP 601 A 1 HETATM 8 N N4 DCP . . . B 2 31.203 53.218 75.043 1 89.44 ? N4 DCP 601 A 1 HETATM 9 C C1' DCP . . . B 2 35.164 49.064 74.682 1 75.13 ? C1' DCP 601 A 1 HETATM 10 C C2' DCP . . . B 2 36.09 49.025 73.44 1 70.62 ? C2' DCP 601 A 1 HETATM 11 C C3' DCP . . . B 2 37.476 49.304 74.078 1 67.49 ? C3' DCP 601 A 1 HETATM 12 C C4' DCP . . . B 2 37.218 49.453 75.582 1 68.51 ? C4' DCP 601 A 1 HETATM 13 O O4' DCP . . . B 2 35.988 48.829 75.874 1 71.47 ? O4' DCP 601 A 1 HETATM 14 O O3' DCP . . . B 2 38.608 48.489 73.784 1 63.4 ? O3' DCP 601 A 1 HETATM 15 C C5' DCP . . . B 2 37.202 50.987 75.81 1 67.34 ? C5' DCP 601 A 1 HETATM 16 O O5' DCP . . . B 2 37.295 51.41 77.174 1 64.97 ? O5' DCP 601 A 1 HETATM 17 P PA DCP . . . B 2 38.895 51.367 77.47 1 66.12 ? PA DCP 601 A 1 HETATM 18 O O1A DCP . . . B 2 39.556 52.622 76.89 1 65.21 ? O1A DCP 601 A 1 HETATM 19 O O2A DCP . . . B 2 39.126 51.089 79.076 1 66.75 ? O2A DCP 601 A 1 HETATM 20 O O3A DCP . . . B 2 39.492 49.991 76.833 1 64.38 ? O3A DCP 601 A 1 HETATM 21 P PB DCP . . . B 2 40.965 49.538 77.118 1 59.87 ? PB DCP 601 A 1 HETATM 22 O O1B DCP . . . B 2 41.238 48.856 75.815 1 58.51 ? O1B DCP 601 A 1 HETATM 23 O O2B DCP . . . B 2 40.858 48.647 78.428 1 55.9 ? O2B DCP 601 A 1 HETATM 24 O O3B DCP . . . B 2 41.931 50.91 77.287 1 67.33 ? O3B DCP 601 A 1 HETATM 25 P PG DCP . . . B 2 43.372 51.065 78.156 1 68.28 ? PG DCP 601 A 1 HETATM 26 O O1G DCP . . . B 2 44.013 52.356 77.317 1 65.99 ? O1G DCP 601 A 1 HETATM 27 O O2G DCP . . . B 2 43.174 51.332 79.806 1 62.29 ? O2G DCP 601 A 1 HETATM 28 O O3G DCP . . . B 2 44.258 49.837 78.01 1 69.6 ? O3G DCP 601 A 1 # _model_server_stats.io_time_ms 23 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 28 #