data_2P1D # _model_server_result.job_id qTRCjzxx9TCeMbjl4A50ZQ _model_server_result.datetime_utc '2024-11-23 17:00:28' _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 2p1d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"M","auth_seq_id":912}' # _entry.id 2P1D # _exptl.entry_id 2P1D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 363.221 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-MONOPHOSPHATE" _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 2P1D _cell.length_a 112.198 _cell.length_b 112.198 _cell.length_c 56.462 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2P1D _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS monomeric 1 author_and_software_defined_assembly 1 PISA dimeric 2 software_defined_assembly 2 # 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,I,J,K,L,M,N 1 1 A,B,C,D,E,F,G,H,I,J,K,L,M,N 2 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' 6_555 -x,-x+y,-z+1/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 18.820667 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id M _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H14 N5 O8 P' _chem_comp.formula_weight 363.221 _chem_comp.id 5GP _chem_comp.mon_nstd_flag . _chem_comp.name "GUANOSINE-5'-MONOPHOSPHATE" _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 P O1P 5GP doub 1 n n P O2P 5GP sing 2 n n P O3P 5GP sing 3 n n P O5' 5GP sing 4 n n O2P HOP2 5GP sing 5 n n O3P HOP3 5GP sing 6 n n O5' C5' 5GP sing 7 n n C5' C4' 5GP sing 8 n n C5' "H5'1" 5GP sing 9 n n C5' "H5'2" 5GP sing 10 n n C4' O4' 5GP sing 11 n n C4' C3' 5GP sing 12 n n C4' H4' 5GP sing 13 n n O4' C1' 5GP sing 14 n n C3' O3' 5GP sing 15 n n C3' C2' 5GP sing 16 n n C3' H3' 5GP sing 17 n n O3' HO3' 5GP sing 18 n n C2' O2' 5GP sing 19 n n C2' C1' 5GP sing 20 n n C2' H2' 5GP sing 21 n n O2' HO2' 5GP sing 22 n n C1' N9 5GP sing 23 n n C1' H1' 5GP sing 24 n n N9 C8 5GP sing 25 n y N9 C4 5GP sing 26 n y C8 N7 5GP doub 27 n y C8 H8 5GP sing 28 n n N7 C5 5GP sing 29 n y C5 C6 5GP sing 30 n n C5 C4 5GP doub 31 n y C6 O6 5GP doub 32 n n C6 N1 5GP sing 33 n n N1 C2 5GP sing 34 n n N1 HN1 5GP sing 35 n n C2 N2 5GP sing 36 n n C2 N3 5GP doub 37 n n N2 HN21 5GP sing 38 n n N2 HN22 5GP sing 39 n n N3 C4 5GP sing 40 n n # _atom_sites.entry_id 2P1D _atom_sites.fract_transf_matrix[1][1] 0.008913 _atom_sites.fract_transf_matrix[1][2] 0.005146 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010292 _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] 0.017711 _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 SO4 A 1 901 901 SO4 SO4 . C 2 SO4 A 1 902 902 SO4 SO4 . D 2 SO4 A 1 903 903 SO4 SO4 . E 2 SO4 A 1 904 904 SO4 SO4 . F 2 SO4 A 1 905 905 SO4 SO4 . G 2 SO4 A 1 906 906 SO4 SO4 . H 2 SO4 A 1 907 907 SO4 SO4 . I 2 SO4 A 1 908 908 SO4 SO4 . J 2 SO4 A 1 909 909 SO4 SO4 . K 2 SO4 A 1 910 910 SO4 SO4 . L 3 SAH A 1 911 911 SAH SAH . M 4 5GP A 1 912 912 5GP 5GP . N 5 HOH A 1 913 1 HOH HOH . N 5 HOH A 2 914 2 HOH HOH . N 5 HOH A 3 915 3 HOH HOH . N 5 HOH A 4 916 5 HOH HOH . N 5 HOH A 5 917 6 HOH HOH . N 5 HOH A 6 918 7 HOH HOH . N 5 HOH A 7 919 8 HOH HOH . N 5 HOH A 8 920 9 HOH HOH . N 5 HOH A 9 921 11 HOH HOH . N 5 HOH A 10 922 12 HOH HOH . N 5 HOH A 11 923 13 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 P P 5GP . . . M 4 15.578 -51.679 12.604 1 86.99 ? P 5GP 912 A 1 HETATM 2 O O1P 5GP . . . M 4 15.391 -53.12 12.597 1 85.02 ? O1P 5GP 912 A 1 HETATM 3 O O2P 5GP . . . M 4 17.042 -51.083 12.632 1 86.97 ? O2P 5GP 912 A 1 HETATM 4 O O3P 5GP . . . M 4 15.081 -50.972 11.166 1 85.46 ? O3P 5GP 912 A 1 HETATM 5 O O5' 5GP . . . M 4 14.877 -51.238 14.053 1 83.88 ? O5' 5GP 912 A 1 HETATM 6 C C5' 5GP . . . M 4 14.898 -49.818 14.334 1 82.02 ? C5' 5GP 912 A 1 HETATM 7 C C4' 5GP . . . M 4 14.75 -49.891 15.94 1 80.36 ? C4' 5GP 912 A 1 HETATM 8 O O4' 5GP . . . M 4 14.538 -51.115 16.71 1 80.03 ? O4' 5GP 912 A 1 HETATM 9 C C3' 5GP . . . M 4 15.879 -49.223 16.604 1 80.45 ? C3' 5GP 912 A 1 HETATM 10 O O3' 5GP . . . M 4 15.769 -47.82 16.57 1 81.05 ? O3' 5GP 912 A 1 HETATM 11 C C2' 5GP . . . M 4 16.033 -49.774 18.061 1 79.94 ? C2' 5GP 912 A 1 HETATM 12 O O2' 5GP . . . M 4 15.414 -49.023 18.989 1 80.78 ? O2' 5GP 912 A 1 HETATM 13 C C1' 5GP . . . M 4 15.407 -51.297 17.868 1 79 ? C1' 5GP 912 A 1 HETATM 14 N N9 5GP . . . M 4 16.502 -52.414 17.644 1 78.56 ? N9 5GP 912 A 1 HETATM 15 C C8 5GP . . . M 4 17.264 -52.631 16.461 1 78.8 ? C8 5GP 912 A 1 HETATM 16 N N7 5GP . . . M 4 18.009 -53.722 16.857 1 76.59 ? N7 5GP 912 A 1 HETATM 17 C C5 5GP . . . M 4 17.761 -54.177 18.158 1 77.25 ? C5 5GP 912 A 1 HETATM 18 C C6 5GP . . . M 4 18.29 -55.18 18.829 1 77.1 ? C6 5GP 912 A 1 HETATM 19 O O6 5GP . . . M 4 19.146 -56.109 18.674 1 78.05 ? O6 5GP 912 A 1 HETATM 20 N N1 5GP . . . M 4 17.689 -55.309 20.283 1 76.85 ? N1 5GP 912 A 1 HETATM 21 C C2 5GP . . . M 4 16.756 -54.408 20.625 1 76.91 ? C2 5GP 912 A 1 HETATM 22 N N2 5GP . . . M 4 16.187 -54.541 22.014 1 76.16 ? N2 5GP 912 A 1 HETATM 23 N N3 5GP . . . M 4 16.211 -53.365 19.925 1 77.16 ? N3 5GP 912 A 1 HETATM 24 C C4 5GP . . . M 4 16.806 -53.33 18.637 1 77.86 ? C4 5GP 912 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 24 #