data_1TUB # _model_server_result.job_id joGgwN-qo5bJZ047CtK2_g _model_server_result.datetime_utc '2024-11-27 02:07:26' _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 1tub # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 1TUB # _exptl.entry_id 1TUB _exptl.method 'ELECTRON CRYSTALLOGRAPHY' # _entity.details ? _entity.formula_weight 523.18 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "GUANOSINE-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 1TUB _cell.length_a 80 _cell.length_b 92 _cell.length_c 90 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1TUB _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 3 _struct_asym.id C _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 covale ? covale1 A OH TYR 224 A TYR 224 1_555 C O2' GTP . A GTP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.647 ? covale ? covale2 B OE1 GLN 15 B GLN 15 1_555 D O6 GDP . B GDP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.844 ? covale ? covale3 B CA GLY 141 B GLY 143 1_555 D O1B GDP . B GDP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.31 ? covale ? covale4 B C GLY 141 B GLY 143 1_555 D O1B GDP . B GDP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.775 ? covale ? covale5 B O GLY 141 B GLY 143 1_555 D O3B GDP . B GDP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.895 ? covale ? covale6 B CB SER 176 B SER 178 1_555 D O3' GDP . B GDP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? covale ? covale7 B CD2 HIS 227 B HIS 229 1_555 E C37 TXL . B TXL 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale8 B CD2 HIS 227 B HIS 229 1_555 E C38 TXL . B TXL 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.856 ? covale ? covale9 B O ARG 359 B ARG 369 1_555 E O9 TXL . B TXL 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.88 ? covale ? covale10 B O ARG 359 B ARG 369 1_555 E O10 TXL . B TXL 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? # _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 1TUB _atom_sites.fract_transf_matrix[1][1] 0.0125 _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] 0.01087 _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] 0.011111 _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 3 GTP A 1 500 500 GTP GTP . D 4 GDP B 1 500 500 GDP GDP . E 5 TXL B 1 501 1 TXL TXL . # 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 . . . C 3 -57.551 49.025 -35.493 1 20 ? PG GTP 500 A 1 HETATM 2 O O1G GTP . . . C 3 -56.753 49.937 -34.642 1 20 ? O1G GTP 500 A 1 HETATM 3 O O2G GTP . . . C 3 -57.704 49.788 -36.825 1 20 ? O2G GTP 500 A 1 HETATM 4 O O3G GTP . . . C 3 -59.022 48.921 -34.852 1 20 ? O3G GTP 500 A 1 HETATM 5 O O3B GTP . . . C 3 -56.806 47.647 -35.687 1 20 ? O3B GTP 500 A 1 HETATM 6 P PB GTP . . . C 3 -56.23 46.8 -34.472 1 20 ? PB GTP 500 A 1 HETATM 7 O O1B GTP . . . C 3 -57.495 46.363 -33.913 1 20 ? O1B GTP 500 A 1 HETATM 8 O O2B GTP . . . C 3 -55.112 47.272 -33.595 1 20 ? O2B GTP 500 A 1 HETATM 9 O O3A GTP . . . C 3 -55.735 45.584 -35.227 1 20 ? O3A GTP 500 A 1 HETATM 10 P PA GTP . . . C 3 -56.404 44.191 -35.157 1 20 ? PA GTP 500 A 1 HETATM 11 O O1A GTP . . . C 3 -57.598 44.225 -36.048 1 20 ? O1A GTP 500 A 1 HETATM 12 O O2A GTP . . . C 3 -56.558 43.875 -33.709 1 20 ? O2A GTP 500 A 1 HETATM 13 O O5' GTP . . . C 3 -55.328 43.301 -35.833 1 20 ? O5' GTP 500 A 1 HETATM 14 C C5' GTP . . . C 3 -54.913 43.551 -37.151 1 20 ? C5' GTP 500 A 1 HETATM 15 C C4' GTP . . . C 3 -54.085 42.461 -37.618 1 20 ? C4' GTP 500 A 1 HETATM 16 O O4' GTP . . . C 3 -53.159 42.216 -36.567 1 20 ? O4' GTP 500 A 1 HETATM 17 C C3' GTP . . . C 3 -54.838 41.223 -37.84 1 20 ? C3' GTP 500 A 1 HETATM 18 O O3' GTP . . . C 3 -54.538 40.713 -39.117 1 20 ? O3' GTP 500 A 1 HETATM 19 C C2' GTP . . . C 3 -54.278 40.3 -36.823 1 20 ? C2' GTP 500 A 1 HETATM 20 O O2' GTP . . . C 3 -54.119 39.073 -37.359 1 20 ? O2' GTP 500 A 1 HETATM 21 C C1' GTP . . . C 3 -52.961 40.888 -36.471 1 20 ? C1' GTP 500 A 1 HETATM 22 N N9 GTP . . . C 3 -52.606 40.642 -35.087 1 20 ? N9 GTP 500 A 1 HETATM 23 C C8 GTP . . . C 3 -53.094 41.256 -33.973 1 20 ? C8 GTP 500 A 1 HETATM 24 N N7 GTP . . . C 3 -52.609 40.807 -32.842 1 20 ? N7 GTP 500 A 1 HETATM 25 C C5 GTP . . . C 3 -51.756 39.821 -33.247 1 20 ? C5 GTP 500 A 1 HETATM 26 C C6 GTP . . . C 3 -50.89 39.046 -32.483 1 20 ? C6 GTP 500 A 1 HETATM 27 O O6 GTP . . . C 3 -50.682 39.08 -31.271 1 20 ? O6 GTP 500 A 1 HETATM 28 N N1 GTP . . . C 3 -50.123 38.267 -33.277 1 20 ? N1 GTP 500 A 1 HETATM 29 C C2 GTP . . . C 3 -50.213 38.203 -34.641 1 20 ? C2 GTP 500 A 1 HETATM 30 N N2 GTP . . . C 3 -49.419 37.343 -35.234 1 20 ? N2 GTP 500 A 1 HETATM 31 N N3 GTP . . . C 3 -51.012 38.929 -35.379 1 20 ? N3 GTP 500 A 1 HETATM 32 C C4 GTP . . . C 3 -51.74 39.724 -34.623 1 20 ? C4 GTP 500 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 303 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 32 #