data_9F09 # _model_server_result.job_id jH9iSMVNliYyuqAvCVWo8Q _model_server_result.datetime_utc '2025-06-21 07:25:29' _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 9f09 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":201}' # _entry.id 9F09 # _exptl.entry_id 9F09 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 227.217 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYCYTIDINE" _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 9F09 _cell.length_a 148.885 _cell.length_b 148.885 _cell.length_c 148.885 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 9F09 _symmetry.cell_setting ? _symmetry.Int_Tables_number 199 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 3' # _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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H 1 1 A,B,C,D,E,F,G,H 1 2 A,B,C,D,E,F,G,H 1 3 # 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' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 0 3 'crystal symmetry operation' 9_555 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id B _struct_conn.ptnr1_label_atom_id OE1 _struct_conn.ptnr1_label_comp_id GLU _struct_conn.ptnr1_label_seq_id 98 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id GLU _struct_conn.ptnr1_auth_seq_id 98 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id E _struct_conn.ptnr2_label_atom_id C1 _struct_conn.ptnr2_label_comp_id 2DR _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id 2DR _struct_conn.ptnr2_auth_seq_id 201 _struct_conn.ptnr2_symmetry 1_555 _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 1.486 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C9 H13 N3 O4' _chem_comp.formula_weight 227.217 _chem_comp.id DCZ _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYCYTIDINE" _chem_comp.type 'dna oh 5 prime terminus' _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 DCZ sing 104 n n N1 C6 DCZ sing 105 n n N1 C1' DCZ sing 106 n n C2 N3 DCZ sing 107 n n C2 O2 DCZ doub 108 n n N3 C4 DCZ doub 109 n n C4 C5 DCZ sing 110 n n C4 N4 DCZ sing 111 n n C5 C6 DCZ doub 112 n n C5 H5 DCZ sing 113 n n C6 H6 DCZ sing 114 n n N4 HN41 DCZ sing 115 n n N4 HN42 DCZ sing 116 n n C1' C2' DCZ sing 117 n n C1' O4' DCZ sing 118 n n C1' H1' DCZ sing 119 n n C2' C3' DCZ sing 120 n n C2' "H2'1" DCZ sing 121 n n C2' "H2'2" DCZ sing 122 n n C3' C4' DCZ sing 123 n n C3' O3' DCZ sing 124 n n C3' H3' DCZ sing 125 n n C4' O4' DCZ sing 126 n n C4' C5' DCZ sing 127 n n C4' H4' DCZ sing 128 n n O3' HO3' DCZ sing 129 n n C5' O5' DCZ sing 130 n n C5' "H5'1" DCZ sing 131 n n C5' "H5'2" DCZ sing 132 n n O5' HO51 DCZ sing 133 n n # _atom_sites.entry_id 9F09 _atom_sites.fract_transf_matrix[1][1] 0.006717 _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] 0.006717 _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] 0.006717 _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 DCZ A 1 201 201 DCZ UNX . D 3 A1H8P A 1 202 202 A1H8P UNY . E 4 2DR B 1 201 201 2DR UNL . F 3 A1H8P B 1 202 203 A1H8P UNY . G 5 HOH A 1 301 56 HOH HOH . G 5 HOH A 2 302 22 HOH HOH . G 5 HOH A 3 303 14 HOH HOH . G 5 HOH A 4 304 26 HOH HOH . G 5 HOH A 5 305 23 HOH HOH . G 5 HOH A 6 306 28 HOH HOH . G 5 HOH A 7 307 17 HOH HOH . G 5 HOH A 8 308 21 HOH HOH . G 5 HOH A 9 309 15 HOH HOH . G 5 HOH A 10 310 19 HOH HOH . G 5 HOH A 11 311 2 HOH HOH . G 5 HOH A 12 312 58 HOH HOH . G 5 HOH A 13 313 50 HOH HOH . G 5 HOH A 14 314 47 HOH HOH . G 5 HOH A 15 315 8 HOH HOH . G 5 HOH A 16 316 44 HOH HOH . G 5 HOH A 17 317 24 HOH HOH . G 5 HOH A 18 318 20 HOH HOH . G 5 HOH A 19 319 12 HOH HOH . G 5 HOH A 20 320 53 HOH HOH . G 5 HOH A 21 321 49 HOH HOH . G 5 HOH A 22 322 4 HOH HOH . G 5 HOH A 23 323 13 HOH HOH . G 5 HOH A 24 324 29 HOH HOH . G 5 HOH A 25 325 5 HOH HOH . G 5 HOH A 26 326 39 HOH HOH . G 5 HOH A 27 327 34 HOH HOH . G 5 HOH A 28 328 31 HOH HOH . G 5 HOH A 29 329 46 HOH HOH . G 5 HOH A 30 330 57 HOH HOH . H 5 HOH B 1 301 7 HOH HOH . H 5 HOH B 2 302 32 HOH HOH . H 5 HOH B 3 303 52 HOH HOH . H 5 HOH B 4 304 40 HOH HOH . H 5 HOH B 5 305 3 HOH HOH . H 5 HOH B 6 306 48 HOH HOH . H 5 HOH B 7 307 54 HOH HOH . H 5 HOH B 8 308 10 HOH HOH . H 5 HOH B 9 309 36 HOH HOH . H 5 HOH B 10 310 11 HOH HOH . H 5 HOH B 11 311 51 HOH HOH . H 5 HOH B 12 312 18 HOH HOH . H 5 HOH B 13 313 37 HOH HOH . H 5 HOH B 14 314 55 HOH HOH . H 5 HOH B 15 315 25 HOH HOH . H 5 HOH B 16 316 6 HOH HOH . H 5 HOH B 17 317 38 HOH HOH . H 5 HOH B 18 318 16 HOH HOH . H 5 HOH B 19 319 41 HOH HOH . H 5 HOH B 20 320 30 HOH HOH . H 5 HOH B 21 321 35 HOH HOH . H 5 HOH B 22 322 33 HOH HOH . H 5 HOH B 23 323 45 HOH HOH . H 5 HOH B 24 324 42 HOH HOH . H 5 HOH B 25 325 43 HOH HOH . H 5 HOH B 26 326 27 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 DCZ . . . C 2 24.111 15.554 -5.972 0.5 51.69 0 N1 DCZ 201 A 1 HETATM 2 C C2 DCZ . . . C 2 25.355 15.102 -5.51 1 59.51 0 C2 DCZ 201 A 1 HETATM 3 N N3 DCZ . . . C 2 26.315 14.691 -6.397 1 54.45 0 N3 DCZ 201 A 1 HETATM 4 C C4 DCZ . . . C 2 26.099 14.64 -7.718 1 53.99 0 C4 DCZ 201 A 1 HETATM 5 C C5 DCZ . . . C 2 24.824 15.036 -8.206 1 48.39 0 C5 DCZ 201 A 1 HETATM 6 C C6 DCZ . . . C 2 23.894 15.473 -7.32 1 55.85 0 C6 DCZ 201 A 1 HETATM 7 O O2 DCZ . . . C 2 25.592 15.142 -4.284 1 58.04 0 O2 DCZ 201 A 1 HETATM 8 N N4 DCZ . . . C 2 27.106 14.226 -8.534 1 50.06 0 N4 DCZ 201 A 1 HETATM 9 C C1' DCZ . . . C 2 23.063 16.096 -4.968 0.5 51.17 0 C1' DCZ 201 A 1 HETATM 10 C C2' DCZ . . . C 2 23.455 17.327 -4.11 1 52.2 0 C2' DCZ 201 A 1 HETATM 11 C C3' DCZ . . . C 2 22.735 18.571 -4.646 1 53.7 0 C3' DCZ 201 A 1 HETATM 12 C C4' DCZ . . . C 2 21.88 17.996 -5.772 1 51.32 0 C4' DCZ 201 A 1 HETATM 13 O O4' DCZ . . . C 2 21.885 16.554 -5.606 1 52.64 0 O4' DCZ 201 A 1 HETATM 14 O O3' DCZ . . . C 2 21.874 19.355 -3.795 1 51.61 0 O3' DCZ 201 A 1 HETATM 15 C C5' DCZ . . . C 2 22.46 18.43 -7.111 1 55.4 0 C5' DCZ 201 A 1 HETATM 16 O O5' DCZ . . . C 2 21.783 18.022 -8.295 1 52.23 0 O5' DCZ 201 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 316 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 16 #