data_4F61 # _model_server_result.job_id LBhhH4oUA7ZqdZP9U8C22A _model_server_result.datetime_utc '2024-11-05 21:00:41' _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 4f61 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"S","auth_seq_id":600}' # _entry.id 4F61 # _exptl.entry_id 4F61 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 4 _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 92.02 _cell.angle_gamma 90 _cell.entry_id 4F61 _cell.length_a 639.74 _cell.length_b 66.1 _cell.length_c 128.13 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4F61 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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,R,S,T,U _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 ? 4 J N N ? 4 M N N ? 4 P N N ? 4 S N 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 metalc ? metalc1 A OE2 GLU 71 A GLU 71 1_555 K MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.288 ? metalc ? metalc2 A OE1 GLU 71 A GLU 71 1_555 K MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? metalc ? metalc3 J O1G GTP . A GTP 600 1_555 K MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? metalc ? metalc4 J O1B GTP . A GTP 600 1_555 K MG MG . A MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? metalc ? metalc5 C OE2 GLU 71 C GLU 71 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc6 C OE1 GLU 71 C GLU 71 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.467 ? metalc ? metalc7 M O1G GTP . C GTP 600 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? metalc ? metalc8 M O1B GTP . C GTP 600 1_555 N MG MG . C MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.079 ? metalc ? metalc9 E OE2 GLU 71 E GLU 71 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc10 E OE1 GLU 71 E GLU 71 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.477 ? metalc ? metalc11 P O1G GTP . E GTP 600 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? metalc ? metalc12 P O1B GTP . E GTP 600 1_555 Q MG MG . E MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? metalc ? metalc13 G OE2 GLU 71 G GLU 71 1_555 T MG MG . G MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.335 ? metalc ? metalc14 G OE1 GLU 71 G GLU 71 1_555 T MG MG . G MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.533 ? metalc ? metalc15 S O1G GTP . G GTP 600 1_555 T MG MG . G MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.006 ? metalc ? metalc16 S O1B GTP . G GTP 600 1_555 T MG MG . G MG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.137 ? # _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 4F61 _atom_sites.fract_transf_matrix[1][1] 0.001563 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000055 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015129 _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] 0.007809 _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 GTP A 1 600 600 GTP GTP . K 5 MG A 1 601 601 MG MG . L 6 GDP B 1 600 600 GDP GDP . M 4 GTP C 1 600 600 GTP GTP . N 5 MG C 1 601 601 MG MG . O 6 GDP D 1 600 600 GDP GDP . P 4 GTP E 1 600 600 GTP GTP . Q 5 MG E 1 601 601 MG MG . R 6 GDP F 1 600 600 GDP GDP . S 4 GTP G 1 600 600 GTP GTP . T 5 MG G 1 601 601 MG MG . U 6 GDP H 1 600 600 GDP GDP . # 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 . . . S 4 115.85 -0.343 63.911 1 101.7 ? PG GTP 600 G 1 HETATM 2 O O1G GTP . . . S 4 116.978 0.577 64.267 1 102.93 ? O1G GTP 600 G 1 HETATM 3 O O2G GTP . . . S 4 115.261 -1.087 65.066 1 102.79 ? O2G GTP 600 G 1 HETATM 4 O O3G GTP . . . S 4 116.267 -1.366 62.906 1 100.56 ? O3G GTP 600 G 1 HETATM 5 O O3B GTP . . . S 4 114.679 0.519 63.241 1 101.22 ? O3B GTP 600 G 1 HETATM 6 P PB GTP . . . S 4 114.482 2.001 63.153 1 102.18 ? PB GTP 600 G 1 HETATM 7 O O1B GTP . . . S 4 114.855 2.627 64.47 1 104.16 ? O1B GTP 600 G 1 HETATM 8 O O2B GTP . . . S 4 113.036 2.287 62.827 1 102.08 ? O2B GTP 600 G 1 HETATM 9 O O3A GTP . . . S 4 115.423 2.609 61.992 1 101.83 ? O3A GTP 600 G 1 HETATM 10 P PA GTP . . . S 4 115.433 3.873 61.151 1 102.63 ? PA GTP 600 G 1 HETATM 11 O O1A GTP . . . S 4 116.663 4.673 61.479 1 104.31 ? O1A GTP 600 G 1 HETATM 12 O O2A GTP . . . S 4 114.196 4.702 61.418 1 103.4 ? O2A GTP 600 G 1 HETATM 13 O O5' GTP . . . S 4 115.481 3.491 59.588 1 101.74 ? O5' GTP 600 G 1 HETATM 14 C C5' GTP . . . S 4 116.422 3.996 58.598 1 102.72 ? C5' GTP 600 G 1 HETATM 15 C C4' GTP . . . S 4 115.732 4.701 57.435 1 103.4 ? C4' GTP 600 G 1 HETATM 16 O O4' GTP . . . S 4 114.966 5.842 57.9 1 104.32 ? O4' GTP 600 G 1 HETATM 17 C C3' GTP . . . S 4 116.677 5.266 56.371 1 105.25 ? C3' GTP 600 G 1 HETATM 18 O O3' GTP . . . S 4 116.077 5.448 55.093 1 105.93 ? O3' GTP 600 G 1 HETATM 19 C C2' GTP . . . S 4 116.994 6.642 56.933 1 107.07 ? C2' GTP 600 G 1 HETATM 20 O O2' GTP . . . S 4 117.436 7.488 55.88 1 109.59 ? O2' GTP 600 G 1 HETATM 21 C C1' GTP . . . S 4 115.627 7.042 57.533 1 106.52 ? C1' GTP 600 G 1 HETATM 22 N N9 GTP . . . S 4 115.702 7.93 58.729 1 107.86 ? N9 GTP 600 G 1 HETATM 23 C C8 GTP . . . S 4 116.236 7.646 59.965 1 107.96 ? C8 GTP 600 G 1 HETATM 24 N N7 GTP . . . S 4 116.194 8.658 60.802 1 110.13 ? N7 GTP 600 G 1 HETATM 25 C C5 GTP . . . S 4 115.592 9.677 60.078 1 111.44 ? C5 GTP 600 G 1 HETATM 26 C C6 GTP . . . S 4 115.253 11.046 60.428 1 114.22 ? C6 GTP 600 G 1 HETATM 27 O O6 GTP . . . S 4 115.419 11.604 61.501 1 116.33 ? O6 GTP 600 G 1 HETATM 28 N N1 GTP . . . S 4 114.663 11.724 59.384 1 115.03 ? N1 GTP 600 G 1 HETATM 29 C C2 GTP . . . S 4 114.397 11.195 58.153 1 113.47 ? C2 GTP 600 G 1 HETATM 30 N N2 GTP . . . S 4 113.819 11.999 57.264 1 115 ? N2 GTP 600 G 1 HETATM 31 N N3 GTP . . . S 4 114.684 9.94 57.812 1 111.04 ? N3 GTP 600 G 1 HETATM 32 C C4 GTP . . . S 4 115.279 9.243 58.802 1 109.93 ? C4 GTP 600 G 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 198 _model_server_stats.query_time_ms 458 _model_server_stats.encode_time_ms 21 _model_server_stats.element_count 32 #