data_8CLE # _model_server_result.job_id Otyn4-_4OTBwgr57l9JzFA _model_server_result.datetime_utc '2024-11-16 20:26:46' _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 8cle # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":502}' # _entry.id 8CLE # _exptl.entry_id 8CLE _exptl.method 'X-RAY DIFFRACTION' # _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 2 _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 8CLE _cell.length_a 106.39 _cell.length_b 159.74 _cell.length_c 182.24 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8CLE _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _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,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 ? 5 G N N ? 5 K 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 OD1 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.658 ? metalc ? metalc2 A OD2 ASP 39 A ASP 39 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.198 ? metalc ? metalc3 A O THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.091 ? metalc ? metalc4 A OG1 THR 41 A THR 41 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? metalc ? metalc5 A O GLY 44 A GLY 44 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc6 A OE1 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.002 ? metalc ? metalc7 A OE2 GLU 55 A GLU 55 1_555 I CA CA . A CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.254 ? metalc ? metalc8 G O2G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.285 ? metalc ? metalc9 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.353 ? metalc ? metalc10 B OD1 ASP 39 C ASP 39 1_555 M CA CA . C CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc11 B OD2 ASP 39 C ASP 39 1_555 M CA CA . C CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.343 ? metalc ? metalc12 B O THR 41 C THR 41 1_555 M CA CA . C CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.389 ? metalc ? metalc13 B OG1 THR 41 C THR 41 1_555 M CA CA . C CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.166 ? metalc ? metalc14 B OE1 GLU 55 C GLU 55 1_555 M CA CA . C CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.858 ? metalc ? metalc15 B OE2 GLU 55 C GLU 55 1_555 M CA CA . C CA 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.931 ? metalc ? metalc16 K O1G GTP . C GTP 502 1_555 L MG MG . C MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.847 ? metalc ? metalc17 K O1B GTP . C GTP 502 1_555 L MG MG . C MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.726 ? # _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 8CLE _atom_sites.fract_transf_matrix[1][1] 0.009399 _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] 0.00626 _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] 0.005487 _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 5 GTP A 1 501 501 GTP GTP . H 6 MG A 1 502 502 MG MG . I 7 CA A 1 503 503 CA CA . J 8 VLB C 1 501 505 VLB VLB . K 5 GTP C 1 502 506 GTP GTP . L 6 MG C 1 503 507 MG MG . M 7 CA C 1 504 509 CA CA . N 9 GDP D 1 501 508 GDP GDP . O 9 GDP B 1 501 504 GDP GDP . P 10 HOH A 1 601 21 HOH HOH . P 10 HOH A 2 602 8 HOH HOH . Q 10 HOH C 1 601 1 HOH HOH . Q 10 HOH C 2 602 36 HOH HOH . Q 10 HOH C 3 603 12 HOH HOH . Q 10 HOH C 4 604 39 HOH HOH . Q 10 HOH C 5 605 34 HOH HOH . Q 10 HOH C 6 606 38 HOH HOH . R 10 HOH D 1 601 27 HOH HOH . R 10 HOH D 2 602 29 HOH HOH . R 10 HOH D 3 603 26 HOH HOH . R 10 HOH D 4 604 25 HOH HOH . R 10 HOH D 5 605 28 HOH HOH . S 10 HOH E 1 201 22 HOH HOH . T 10 HOH F 1 401 2 HOH HOH . T 10 HOH F 2 402 11 HOH HOH . T 10 HOH F 3 403 33 HOH HOH . T 10 HOH F 4 404 42 HOH HOH . T 10 HOH F 5 405 43 HOH HOH . T 10 HOH F 6 406 17 HOH HOH . T 10 HOH F 7 407 44 HOH HOH . T 10 HOH F 8 408 13 HOH HOH . U 10 HOH B 1 601 16 HOH HOH . U 10 HOH B 2 602 10 HOH HOH . U 10 HOH B 3 603 45 HOH HOH . U 10 HOH B 4 604 18 HOH HOH . U 10 HOH B 5 605 7 HOH HOH . U 10 HOH B 6 606 19 HOH HOH . U 10 HOH B 7 607 14 HOH HOH . U 10 HOH B 8 608 46 HOH HOH . U 10 HOH B 9 609 37 HOH HOH . U 10 HOH B 10 610 35 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 PG GTP . . . K 5 19.803 19.481 -16.791 1 46.51 ? PG GTP 502 C 1 HETATM 2 O O1G GTP . . . K 5 18.534 19.005 -17.418 1 48.19 ? O1G GTP 502 C 1 HETATM 3 O O2G GTP . . . K 5 20.668 18.358 -16.311 1 44.49 ? O2G GTP 502 C 1 HETATM 4 O O3G GTP . . . K 5 20.546 20.454 -17.652 1 47.46 ? O3G GTP 502 C 1 HETATM 5 O O3B GTP . . . K 5 19.353 20.299 -15.488 1 46.83 ? O3B GTP 502 C 1 HETATM 6 P PB GTP . . . K 5 18.164 21.329 -15.206 1 48.36 ? PB GTP 502 C 1 HETATM 7 O O1B GTP . . . K 5 18.035 22.25 -16.361 1 47.29 ? O1B GTP 502 C 1 HETATM 8 O O2B GTP . . . K 5 18.321 21.891 -13.841 1 45.37 ? O2B GTP 502 C 1 HETATM 9 O O3A GTP . . . K 5 16.903 20.352 -15.186 1 48.84 ? O3A GTP 502 C 1 HETATM 10 P PA GTP . . . K 5 15.478 20.56 -14.497 1 44.32 ? PA GTP 502 C 1 HETATM 11 O O1A GTP . . . K 5 14.437 19.961 -15.376 1 46.78 ? O1A GTP 502 C 1 HETATM 12 O O2A GTP . . . K 5 15.356 21.994 -14.115 1 44.26 ? O2A GTP 502 C 1 HETATM 13 O O5' GTP . . . K 5 15.636 19.669 -13.181 1 43.81 ? O5' GTP 502 C 1 HETATM 14 C C5' GTP . . . K 5 14.76 18.529 -13.021 1 45.29 ? C5' GTP 502 C 1 HETATM 15 C C4' GTP . . . K 5 13.829 18.782 -11.862 1 44.64 ? C4' GTP 502 C 1 HETATM 16 O O4' GTP . . . K 5 13.341 20.143 -11.952 1 43.24 ? O4' GTP 502 C 1 HETATM 17 C C3' GTP . . . K 5 12.578 17.897 -11.791 1 46.57 ? C3' GTP 502 C 1 HETATM 18 O O3' GTP . . . K 5 12.239 17.595 -10.446 1 47.59 ? O3' GTP 502 C 1 HETATM 19 C C2' GTP . . . K 5 11.501 18.78 -12.417 1 45.18 ? C2' GTP 502 C 1 HETATM 20 O O2' GTP . . . K 5 10.213 18.474 -11.935 1 45.83 ? O2' GTP 502 C 1 HETATM 21 C C1' GTP . . . K 5 11.935 20.152 -11.927 1 43.41 ? C1' GTP 502 C 1 HETATM 22 N N9 GTP . . . K 5 11.468 21.251 -12.759 1 41.5 ? N9 GTP 502 C 1 HETATM 23 C C8 GTP . . . K 5 11.884 21.563 -14.027 1 45.2 ? C8 GTP 502 C 1 HETATM 24 N N7 GTP . . . K 5 11.286 22.618 -14.521 1 44.1 ? N7 GTP 502 C 1 HETATM 25 C C5 GTP . . . K 5 10.427 23.025 -13.511 1 44.67 ? C5 GTP 502 C 1 HETATM 26 C C6 GTP . . . K 5 9.521 24.111 -13.469 1 45.41 ? C6 GTP 502 C 1 HETATM 27 O O6 GTP . . . K 5 9.298 24.957 -14.341 1 44.82 ? O6 GTP 502 C 1 HETATM 28 N N1 GTP . . . K 5 8.843 24.161 -12.254 1 45.51 ? N1 GTP 502 C 1 HETATM 29 C C2 GTP . . . K 5 9.012 23.284 -11.215 1 43.45 ? C2 GTP 502 C 1 HETATM 30 N N2 GTP . . . K 5 8.266 23.5 -10.126 1 43.27 ? N2 GTP 502 C 1 HETATM 31 N N3 GTP . . . K 5 9.859 22.26 -11.248 1 41.86 ? N3 GTP 502 C 1 HETATM 32 C C4 GTP . . . K 5 10.53 22.193 -12.422 1 43.51 ? C4 GTP 502 C 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 395 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 32 #