data_7B0G # _model_server_result.job_id IuNGOYy2OuQuYS4hfRsS9w _model_server_result.datetime_utc '2024-10-19 22:41:56' _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 7b0g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":801}' # _entry.id 7B0G # _exptl.entry_id 7B0G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 483.156 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-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 7B0G _cell.length_a 56.21 _cell.length_b 106.77 _cell.length_c 231.78 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7B0G _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 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 _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 D _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 disulf ? disulf1 A SG CYS 506 A CYS 506 1_555 A SG CYS 509 A CYS 509 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? covale ? covale1 B O3' DG 9 P DG 12 1_555 B P 6HC 10 P 6HC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? covale ? covale2 B O3' 6HC 10 P 6HC 13 1_555 B P 6HC 11 P 6HC 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.592 ? hydrog WATSON-CRICK hydrog1 B N1 DG 1 P DG 4 1_555 C N3 DC 11 T DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 B N2 DG 1 P DG 4 1_555 C O2 DC 11 T DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 B O6 DG 1 P DG 4 1_555 C N4 DC 11 T DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 B N1 DG 2 P DG 5 1_555 C N3 DC 10 T DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog5 B N2 DG 2 P DG 5 1_555 C O2 DC 10 T DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog6 B O6 DG 2 P DG 5 1_555 C N4 DC 10 T DC 12 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 B N1 DA 3 P DA 6 1_555 C N3 DT 9 T DT 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 B N6 DA 3 P DA 6 1_555 C O4 DT 9 T DT 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog9 B N2 DG 4 P DG 7 1_555 C N3 DC 8 T DC 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 B N1 DG 5 P DG 8 1_555 C N3 DC 7 T DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 B N2 DG 5 P DG 8 1_555 C O2 DC 7 T DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog12 B O6 DG 5 P DG 8 1_555 C N4 DC 7 T DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 B N1 DG 6 P DG 9 1_555 C N3 DC 6 T DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 B N2 DG 6 P DG 9 1_555 C O2 DC 6 T DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 B O6 DG 6 P DG 9 1_555 C N4 DC 6 T DC 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 B N3 DC 7 P DC 10 1_555 C N1 DG 5 T DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 B N4 DC 7 P DC 10 1_555 C O6 DG 5 T DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 B O2 DC 7 P DC 10 1_555 C N2 DG 5 T DG 7 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 B N1 DA 8 P DA 11 1_555 C N3 DT 4 T DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog20 B N6 DA 8 P DA 11 1_555 C O4 DT 4 T DT 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog21 B N2 DG 9 P DG 12 1_555 C O2 DC 3 T DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog '6HC-DG MISPAIR' hydrog22 B N3 6HC 10 P 6HC 13 1_555 C N2 DG 2 T DG 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C9 H16 N3 O14 P3' _chem_comp.formula_weight 483.156 _chem_comp.id CTP _chem_comp.mon_nstd_flag . _chem_comp.name "CYTIDINE-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 CTP sing 108 n n N1 C6 CTP sing 109 n n N1 C1' CTP sing 110 n n C2 N3 CTP sing 111 n n C2 O2 CTP doub 112 n n N3 C4 CTP doub 113 n n C4 C5 CTP sing 114 n n C4 N4 CTP sing 115 n n C5 C6 CTP doub 116 n n C5 H5 CTP sing 117 n n C6 H6 CTP sing 118 n n N4 HN41 CTP sing 119 n n N4 HN42 CTP sing 120 n n C1' C2' CTP sing 121 n n C1' O4' CTP sing 122 n n C1' H1' CTP sing 123 n n C2' O2' CTP sing 124 n n C2' C3' CTP sing 125 n n C2' H2' CTP sing 126 n n O2' HO2' CTP sing 127 n n C3' C4' CTP sing 128 n n C3' O3' CTP sing 129 n n C3' H3' CTP sing 130 n n C4' O4' CTP sing 131 n n C4' C5' CTP sing 132 n n C4' H4' CTP sing 133 n n O3' HO3' CTP sing 134 n n C5' O5' CTP sing 135 n n C5' "H5'1" CTP sing 136 n n C5' "H5'2" CTP sing 137 n n O5' PA CTP sing 138 n n PA O1A CTP doub 139 n n PA O2A CTP sing 140 n n PA O3A CTP sing 141 n n O2A HOA2 CTP sing 142 n n O3A PB CTP sing 143 n n PB O1B CTP doub 144 n n PB O2B CTP sing 145 n n PB O3B CTP sing 146 n n O2B HOB2 CTP sing 147 n n O3B PG CTP sing 148 n n PG O1G CTP doub 149 n n PG O2G CTP sing 150 n n PG O3G CTP sing 151 n n O2G HOG2 CTP sing 152 n n O3G HOG3 CTP sing 153 n n # _atom_sites.entry_id 7B0G _atom_sites.fract_transf_matrix[1][1] 0.01779 _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] 0.009366 _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] 0.004314 _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 CTP A 1 801 801 CTP CTP . E 5 PO4 T 1 101 14 PO4 PO4 . F 5 PO4 T 1 102 15 PO4 PO4 . # 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 O O5' CTP . . . D 4 -17.974 35.234 -33.529 1 147.8 ? O5' CTP 801 A 1 HETATM 2 P PA CTP . . . D 4 -19.229 36.23 -33.659 1 147.94 ? PA CTP 801 A 1 HETATM 3 O O1A CTP . . . D 4 -20.023 35.767 -34.88 1 148.01 ? O1A CTP 801 A 1 HETATM 4 O O2A CTP . . . D 4 -20.016 36.309 -32.413 1 147.94 ? O2A CTP 801 A 1 HETATM 5 O O3A CTP . . . D 4 -18.56 37.626 -34.04 1 148 ? O3A CTP 801 A 1 HETATM 6 P PB CTP . . . D 4 -17.47 38.023 -35.132 1 148.06 ? PB CTP 801 A 1 HETATM 7 O O1B CTP . . . D 4 -17.994 38.957 -36.155 1 147.96 ? O1B CTP 801 A 1 HETATM 8 O O2B CTP . . . D 4 -16.868 36.72 -35.65 1 148.15 ? O2B CTP 801 A 1 HETATM 9 O O3B CTP . . . D 4 -16.337 38.706 -34.251 1 148.16 ? O3B CTP 801 A 1 HETATM 10 P PG CTP . . . D 4 -14.785 38.871 -34.577 1 148.33 ? PG CTP 801 A 1 HETATM 11 O O1G CTP . . . D 4 -14.755 39.661 -35.893 1 148.31 ? O1G CTP 801 A 1 HETATM 12 O O2G CTP . . . D 4 -14.237 39.722 -33.422 1 148.41 ? O2G CTP 801 A 1 HETATM 13 O O3G CTP . . . D 4 -14.125 37.547 -34.681 1 148.32 ? O3G CTP 801 A 1 # _model_server_stats.io_time_ms 117 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 13 #