data_2F3T # _model_server_result.job_id y5sPJ7HQRmPQIZSP4nKNgA _model_server_result.datetime_utc '2024-11-18 23:31:09' _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 2f3t # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":300}' # _entry.id 2F3T # _exptl.entry_id 2F3T _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 335.211 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "N9-1-HYDROXY-PROP-2-OXYMETHYL-GUANINE-3'-MONOPHOSPHATE" _entity.pdbx_number_of_molecules 4 _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 2F3T _cell.length_a 107.753 _cell.length_b 107.753 _cell.length_c 272.663 _cell.Z_PDB 48 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2F3T _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PQS _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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,P _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 G N N ? 2 H N N ? 2 I N N ? 2 J N N # _chem_comp.formula 'C9 H14 N5 O7 P' _chem_comp.formula_weight 335.211 _chem_comp.id LGP _chem_comp.mon_nstd_flag n _chem_comp.name "N9-1-HYDROXY-PROP-2-OXYMETHYL-GUANINE-3'-MONOPHOSPHATE" _chem_comp.type 'dna linking' _chem_comp.pdbx_synonyms "LINEAR DECARBON-C2* GUANOSINE-5'-MONOPHOSPHATE" # 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 P OP1 LGP doub 181 n n P OP2 LGP sing 182 n n P OP3 LGP sing 183 n n P O5' LGP sing 184 n n OP2 HOP2 LGP sing 185 n n OP3 HOP3 LGP sing 186 n n O5' C5' LGP sing 187 n n C5' C4' LGP sing 188 n n C5' H5' LGP sing 189 n n C5' "H5''" LGP sing 190 n n C4' O4' LGP sing 191 n n C4' C3' LGP sing 192 n n C4' H4' LGP sing 193 n n O4' C1' LGP sing 194 n n C3' O3' LGP sing 195 n n C3' "H3'1" LGP sing 196 n n C3' "H3'2" LGP sing 197 n n O3' HO3' LGP sing 198 n n C1' N9 LGP sing 199 n n C1' "H1'1" LGP sing 200 n n C1' "H1'2" LGP sing 201 n n N9 C8 LGP sing 202 n y N9 C4 LGP sing 203 n y C8 N7 LGP doub 204 n y C8 H8 LGP sing 205 n n N7 C5 LGP sing 206 n y C5 C6 LGP sing 207 n n C5 C4 LGP doub 208 n y C6 O6 LGP doub 209 n n C6 N1 LGP sing 210 n n N1 C2 LGP sing 211 n n N1 HN1 LGP sing 212 n n C2 N2 LGP sing 213 n n C2 N3 LGP doub 214 n n N2 HN21 LGP sing 215 n n N2 HN22 LGP sing 216 n n N3 C4 LGP sing 217 n n # _atom_sites.entry_id 2F3T _atom_sites.fract_transf_matrix[1][1] 0.00928 _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] 0.00928 _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] 0.003668 _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 G 2 LGP A 1 300 300 LGP GVM . H 2 LGP A 1 301 301 LGP GVM . I 2 LGP A 1 302 302 LGP GVM . J 2 LGP A 1 303 303 LGP GVM . K 3 HOH A 1 304 10 HOH WAT . K 3 HOH A 2 305 19 HOH WAT . K 3 HOH A 3 306 42 HOH WAT . L 3 HOH B 1 208 8 HOH WAT . L 3 HOH B 2 209 9 HOH WAT . M 3 HOH C 1 208 6 HOH WAT . M 3 HOH C 2 209 12 HOH WAT . M 3 HOH C 3 210 20 HOH WAT . M 3 HOH C 4 211 22 HOH WAT . M 3 HOH C 5 212 43 HOH WAT . N 3 HOH D 1 208 3 HOH WAT . N 3 HOH D 2 209 4 HOH WAT . N 3 HOH D 3 210 14 HOH WAT . N 3 HOH D 4 211 37 HOH WAT . O 3 HOH E 1 208 2 HOH WAT . O 3 HOH E 2 209 18 HOH WAT . O 3 HOH E 3 210 31 HOH WAT . O 3 HOH E 4 211 38 HOH WAT . O 3 HOH E 5 212 39 HOH WAT . O 3 HOH E 6 213 41 HOH WAT . P 3 HOH F 1 208 1 HOH WAT . P 3 HOH F 2 209 11 HOH WAT . P 3 HOH F 3 210 13 HOH WAT . P 3 HOH F 4 211 23 HOH WAT . P 3 HOH F 5 212 40 HOH WAT . # 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 P LGP . . . G 2 30.385 -15.838 -11.394 1 64.71 ? P LGP 300 A 1 HETATM 2 O OP1 LGP . . . G 2 30.314 -15.944 -9.788 1 62.02 ? OP1 LGP 300 A 1 HETATM 3 O OP2 LGP . . . G 2 29.584 -17.113 -11.97 1 63.63 ? OP2 LGP 300 A 1 HETATM 4 O OP3 LGP . . . G 2 31.777 -15.767 -11.897 1 63.41 ? OP3 LGP 300 A 1 HETATM 5 O O5' LGP . . . G 2 29.504 -14.562 -11.826 1 62.33 ? O5' LGP 300 A 1 HETATM 6 C C5' LGP . . . G 2 29.266 -14.356 -13.222 1 61.1 ? C5' LGP 300 A 1 HETATM 7 C C4' LGP . . . G 2 30.122 -13.207 -13.76 1 60.78 ? C4' LGP 300 A 1 HETATM 8 O O4' LGP . . . G 2 29.105 -12.286 -14.202 1 59.77 ? O4' LGP 300 A 1 HETATM 9 C C3' LGP . . . G 2 30.997 -12.73 -12.588 1 61.42 ? C3' LGP 300 A 1 HETATM 10 O O3' LGP . . . G 2 32.22 -12.168 -13.07 1 62.98 ? O3' LGP 300 A 1 HETATM 11 C C1' LGP . . . G 2 29.543 -10.924 -14.343 1 59.22 ? C1' LGP 300 A 1 HETATM 12 N N9 LGP . . . G 2 28.841 -10.077 -13.35 1 57.67 ? N9 LGP 300 A 1 HETATM 13 C C8 LGP . . . G 2 28.86 -10.255 -12.03 1 56.93 ? C8 LGP 300 A 1 HETATM 14 N N7 LGP . . . G 2 28.141 -9.284 -11.472 1 55.48 ? N7 LGP 300 A 1 HETATM 15 C C5 LGP . . . G 2 27.671 -8.501 -12.439 1 55.51 ? C5 LGP 300 A 1 HETATM 16 C C6 LGP . . . G 2 26.879 -7.357 -12.436 1 55.86 ? C6 LGP 300 A 1 HETATM 17 O O6 LGP . . . G 2 26.5 -6.87 -11.374 1 55.97 ? O6 LGP 300 A 1 HETATM 18 N N1 LGP . . . G 2 26.564 -6.752 -13.661 1 56.21 ? N1 LGP 300 A 1 HETATM 19 C C2 LGP . . . G 2 27.056 -7.302 -14.852 1 56.87 ? C2 LGP 300 A 1 HETATM 20 N N2 LGP . . . G 2 26.846 -6.668 -16.004 1 57.84 ? N2 LGP 300 A 1 HETATM 21 N N3 LGP . . . G 2 27.809 -8.412 -14.819 1 55.07 ? N3 LGP 300 A 1 HETATM 22 C C4 LGP . . . G 2 28.117 -9.004 -13.654 1 55.85 ? C4 LGP 300 A 1 # _model_server_stats.io_time_ms 54 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 243 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #