data_2XRP # _model_server_result.job_id go6zHvESEGPkAZ2Va4HoEQ _model_server_result.datetime_utc '2025-07-04 23:02:42' _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 2xrp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":500}' # _entry.id 2XRP # _exptl.entry_id 2XRP _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 523.18 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-5'-TRIPHOSPHATE" _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 2XRP _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2XRP _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details nonameric _pdbx_struct_assembly.oligomeric_count 9 _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,Q _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 ? 5 K N N ? 5 M N N ? 5 O N N ? 5 Q N N # _chem_comp.formula 'C10 H16 N5 O14 P3' _chem_comp.formula_weight 523.18 _chem_comp.id GTP _chem_comp.mon_nstd_flag n _chem_comp.name "GUANOSINE-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 PG O1G GTP doub 174 n n PG O2G GTP sing 175 n n PG O3G GTP sing 176 n n PG O3B GTP sing 177 n n O2G HOG2 GTP sing 178 n n O3G HOG3 GTP sing 179 n n O3B PB GTP sing 180 n n PB O1B GTP doub 181 n n PB O2B GTP sing 182 n n PB O3A GTP sing 183 n n O2B HOB2 GTP sing 184 n n O3A PA GTP sing 185 n n PA O1A GTP doub 186 n n PA O2A GTP sing 187 n n PA O5' GTP sing 188 n n O2A HOA2 GTP sing 189 n n O5' C5' GTP sing 190 n n C5' C4' GTP sing 191 n n C5' H5' GTP sing 192 n n C5' "H5''" GTP sing 193 n n C4' O4' GTP sing 194 n n C4' C3' GTP sing 195 n n C4' H4' GTP sing 196 n n O4' C1' GTP sing 197 n n C3' O3' GTP sing 198 n n C3' C2' GTP sing 199 n n C3' H3' GTP sing 200 n n O3' HO3' GTP sing 201 n n C2' O2' GTP sing 202 n n C2' C1' GTP sing 203 n n C2' H2' GTP sing 204 n n O2' HO2' GTP sing 205 n n C1' N9 GTP sing 206 n n C1' H1' GTP sing 207 n n N9 C8 GTP sing 208 n y N9 C4 GTP sing 209 n y C8 N7 GTP doub 210 n y C8 H8 GTP sing 211 n n N7 C5 GTP sing 212 n y C5 C6 GTP sing 213 n n C5 C4 GTP doub 214 n y C6 O6 GTP doub 215 n n C6 N1 GTP sing 216 n n N1 C2 GTP sing 217 n n N1 HN1 GTP sing 218 n n C2 N2 GTP sing 219 n n C2 N3 GTP doub 220 n n N2 HN21 GTP sing 221 n n N2 HN22 GTP sing 222 n n N3 C4 GTP sing 223 n n # _atom_sites.entry_id 2XRP _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 J 4 GDP A 1 600 600 GDP GDP . K 5 GTP B 1 500 500 GTP GTP . L 4 GDP C 1 600 600 GDP GDP . M 5 GTP D 1 500 500 GTP GTP . N 4 GDP E 1 600 600 GDP GDP . O 5 GTP F 1 500 500 GTP GTP . P 4 GDP G 1 600 600 GDP GDP . Q 5 GTP H 1 500 500 GTP GTP . # 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 PG GTP . . . Q 5 86.884 100.456 26.538 1 41 ? PG GTP 500 H 1 HETATM 2 O O1G GTP . . . Q 5 88.154 100.049 27.277 1 28 ? O1G GTP 500 H 1 HETATM 3 O O2G GTP . . . Q 5 86.454 101.9 26.92 1 34 ? O2G GTP 500 H 1 HETATM 4 O O3G GTP . . . Q 5 85.682 99.618 26.988 1 32 ? O3G GTP 500 H 1 HETATM 5 O O3B GTP . . . Q 5 87.244 100.256 24.968 1 35 ? O3B GTP 500 H 1 HETATM 6 P PB GTP . . . Q 5 87.747 98.855 24.258 1 41 ? PB GTP 500 H 1 HETATM 7 O O1B GTP . . . Q 5 86.789 98.627 23.1 1 42 ? O1B GTP 500 H 1 HETATM 8 O O2B GTP . . . Q 5 89.174 98.904 23.981 1 41 ? O2B GTP 500 H 1 HETATM 9 O O3A GTP . . . Q 5 87.364 97.76 25.254 1 39 ? O3A GTP 500 H 1 HETATM 10 P PA GTP . . . Q 5 87.709 96.285 25.441 1 41 ? PA GTP 500 H 1 HETATM 11 O O1A GTP . . . Q 5 89.165 96.052 25.4 1 44 ? O1A GTP 500 H 1 HETATM 12 O O2A GTP . . . Q 5 87.009 95.815 26.672 1 43 ? O2A GTP 500 H 1 HETATM 13 O O5' GTP . . . Q 5 86.959 95.559 24.169 1 34 ? O5' GTP 500 H 1 HETATM 14 C C5' GTP . . . Q 5 87.153 94.155 24.146 1 25 ? C5' GTP 500 H 1 HETATM 15 C C4' GTP . . . Q 5 86.496 93.419 23.023 1 17 ? C4' GTP 500 H 1 HETATM 16 O O4' GTP . . . Q 5 87.366 93.376 21.863 1 18 ? O4' GTP 500 H 1 HETATM 17 C C3' GTP . . . Q 5 86.3 91.98 23.447 1 18 ? C3' GTP 500 H 1 HETATM 18 O O3' GTP . . . Q 5 85.224 91.415 22.733 1 19 ? O3' GTP 500 H 1 HETATM 19 C C2' GTP . . . Q 5 87.646 91.365 23.098 1 17 ? C2' GTP 500 H 1 HETATM 20 O O2' GTP . . . Q 5 87.481 89.965 22.855 1 19 ? O2' GTP 500 H 1 HETATM 21 C C1' GTP . . . Q 5 88.08 92.129 21.838 1 18 ? C1' GTP 500 H 1 HETATM 22 N N9 GTP . . . Q 5 89.518 92.43 21.739 1 9 ? N9 GTP 500 H 1 HETATM 23 C C8 GTP . . . Q 5 90.281 93.136 22.639 1 11 ? C8 GTP 500 H 1 HETATM 24 N N7 GTP . . . Q 5 91.533 93.245 22.287 1 7 ? N7 GTP 500 H 1 HETATM 25 C C5 GTP . . . Q 5 91.614 92.563 21.098 1 0 ? C5 GTP 500 H 1 HETATM 26 C C6 GTP . . . Q 5 92.706 92.333 20.261 1 3 ? C6 GTP 500 H 1 HETATM 27 O O6 GTP . . . Q 5 93.855 92.728 20.434 1 2 ? O6 GTP 500 H 1 HETATM 28 N N1 GTP . . . Q 5 92.379 91.582 19.11 1 0 ? N1 GTP 500 H 1 HETATM 29 C C2 GTP . . . Q 5 91.12 91.102 18.818 1 0 ? C2 GTP 500 H 1 HETATM 30 N N2 GTP . . . Q 5 90.999 90.417 17.719 1 0 ? N2 GTP 500 H 1 HETATM 31 N N3 GTP . . . Q 5 90.069 91.305 19.611 1 0 ? N3 GTP 500 H 1 HETATM 32 C C4 GTP . . . Q 5 90.369 92.044 20.728 1 3 ? C4 GTP 500 H 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 39 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #