data_8WMO # _model_server_result.job_id 1IGv1pRBduZipzD6JgFvDw _model_server_result.datetime_utc '2024-11-24 14:24:25' _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 8wmo # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":501}' # _entry.id 8WMO # _exptl.entry_id 8WMO _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 3 _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 8WMO _cell.length_a 103.82 _cell.length_b 156.446 _cell.length_c 179.393 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8WMO _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_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,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA _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 P N N ? 5 W 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 G O1G GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.176 ? metalc ? metalc2 G O1B GTP . A GTP 501 1_555 H MG MG . A MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.392 ? metalc ? metalc3 K O1A GDP . B GDP 501 1_555 L MG MG . B MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc4 C OD1 ASP 39 C ASP 39 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.9 ? metalc ? metalc5 C OD2 ASP 39 C ASP 39 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.113 ? metalc ? metalc6 C O THR 41 C THR 41 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc7 C OG1 THR 41 C THR 41 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc8 C O GLY 44 C GLY 44 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc9 C OE1 GLU 55 C GLU 55 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc10 C OE2 GLU 55 C GLU 55 1_555 R CA CA . C CA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.24 ? metalc ? metalc11 P O1G GTP . C GTP 501 1_555 Q MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.298 ? metalc ? metalc12 P O1B GTP . C GTP 501 1_555 Q MG MG . C MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.943 ? metalc ? metalc13 W O1A GTP . D GTP 501 1_555 X MG MG . D MG 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.08 ? # _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 234 n n PG O2G GTP sing 235 n n PG O3G GTP sing 236 n n PG O3B GTP sing 237 n n O2G HOG2 GTP sing 238 n n O3G HOG3 GTP sing 239 n n O3B PB GTP sing 240 n n PB O1B GTP doub 241 n n PB O2B GTP sing 242 n n PB O3A GTP sing 243 n n O2B HOB2 GTP sing 244 n n O3A PA GTP sing 245 n n PA O1A GTP doub 246 n n PA O2A GTP sing 247 n n PA O5' GTP sing 248 n n O2A HOA2 GTP sing 249 n n O5' C5' GTP sing 250 n n C5' C4' GTP sing 251 n n C5' H5' GTP sing 252 n n C5' "H5''" GTP sing 253 n n C4' O4' GTP sing 254 n n C4' C3' GTP sing 255 n n C4' H4' GTP sing 256 n n O4' C1' GTP sing 257 n n C3' O3' GTP sing 258 n n C3' C2' GTP sing 259 n n C3' H3' GTP sing 260 n n O3' HO3' GTP sing 261 n n C2' O2' GTP sing 262 n n C2' C1' GTP sing 263 n n C2' H2' GTP sing 264 n n O2' HO2' GTP sing 265 n n C1' N9 GTP sing 266 n n C1' H1' GTP sing 267 n n N9 C8 GTP sing 268 n y N9 C4 GTP sing 269 n y C8 N7 GTP doub 270 n y C8 H8 GTP sing 271 n n N7 C5 GTP sing 272 n y C5 C6 GTP sing 273 n n C5 C4 GTP doub 274 n y C6 O6 GTP doub 275 n n C6 N1 GTP sing 276 n n N1 C2 GTP sing 277 n n N1 HN1 GTP sing 278 n n C2 N2 GTP sing 279 n n C2 N3 GTP doub 280 n n N2 HN21 GTP sing 281 n n N2 HN22 GTP sing 282 n n N3 C4 GTP sing 283 n n # _atom_sites.entry_id 8WMO _atom_sites.fract_transf_matrix[1][1] 0.009632 _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] 0.006392 _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] 0.005574 _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 EDO A 1 503 505 EDO EDO . J 8 PEG A 1 504 506 PEG PEG . K 9 GDP B 1 501 501 GDP GDP . L 6 MG B 1 502 502 MG MG . M 10 MES B 1 503 503 MES MES . N 11 WIW B 1 504 504 WIW B1N . O 7 EDO B 1 505 505 EDO EDO . P 5 GTP C 1 501 501 GTP GTP . Q 6 MG C 1 502 502 MG MG . R 12 CA C 1 503 503 CA CA . S 7 EDO C 1 504 504 EDO EDO . T 7 EDO C 1 505 505 EDO EDO . U 7 EDO C 1 506 506 EDO EDO . V 7 EDO C 1 507 507 EDO EDO . W 5 GTP D 1 501 501 GTP GTP . X 6 MG D 1 502 502 MG MG . Y 7 EDO D 1 503 503 EDO EDO . Z 7 EDO D 1 504 504 EDO EDO . AA 13 ACP F 1 401 401 ACP ACP . BA 14 HOH A 1 601 31 HOH HOH . BA 14 HOH A 2 602 30 HOH HOH . BA 14 HOH A 3 603 17 HOH HOH . BA 14 HOH A 4 604 11 HOH HOH . BA 14 HOH A 5 605 26 HOH HOH . BA 14 HOH A 6 606 27 HOH HOH . BA 14 HOH A 7 607 29 HOH HOH . CA 14 HOH B 1 601 18 HOH HOH . CA 14 HOH B 2 602 5 HOH HOH . CA 14 HOH B 3 603 1 HOH HOH . CA 14 HOH B 4 604 28 HOH HOH . CA 14 HOH B 5 605 25 HOH HOH . CA 14 HOH B 6 606 2 HOH HOH . DA 14 HOH C 1 601 12 HOH HOH . DA 14 HOH C 2 602 3 HOH HOH . DA 14 HOH C 3 603 4 HOH HOH . DA 14 HOH C 4 604 6 HOH HOH . DA 14 HOH C 5 605 24 HOH HOH . DA 14 HOH C 6 606 7 HOH HOH . EA 14 HOH D 1 601 9 HOH HOH . EA 14 HOH D 2 602 13 HOH HOH . EA 14 HOH D 3 603 22 HOH HOH . EA 14 HOH D 4 604 23 HOH HOH . EA 14 HOH D 5 605 10 HOH HOH . EA 14 HOH D 6 606 21 HOH HOH . EA 14 HOH D 7 607 16 HOH HOH . EA 14 HOH D 8 608 14 HOH HOH . EA 14 HOH D 9 609 8 HOH HOH . FA 14 HOH F 1 501 19 HOH HOH . FA 14 HOH F 2 502 15 HOH HOH . FA 14 HOH F 3 503 20 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 . . . G 5 -27.115 72.758 -45.861 1 49.29 ? PG GTP 501 A 1 HETATM 2 O O1G GTP . . . G 5 -25.91 73.347 -45.099 1 56.26 ? O1G GTP 501 A 1 HETATM 3 O O2G GTP . . . G 5 -28.381 73.262 -45.197 1 54.68 ? O2G GTP 501 A 1 HETATM 4 O O3G GTP . . . G 5 -27.132 71.257 -46.092 1 52.01 ? O3G GTP 501 A 1 HETATM 5 O O3B GTP . . . G 5 -27.248 73.307 -47.397 1 60.8 ? O3B GTP 501 A 1 HETATM 6 P PB GTP . . . G 5 -26.543 74.654 -47.941 1 53.56 ? PB GTP 501 A 1 HETATM 7 O O1B GTP . . . G 5 -26.487 75.692 -46.849 1 47.59 ? O1B GTP 501 A 1 HETATM 8 O O2B GTP . . . G 5 -27.414 75.124 -49.056 1 55.11 ? O2B GTP 501 A 1 HETATM 9 O O3A GTP . . . G 5 -25.148 74.015 -48.401 1 48.38 ? O3A GTP 501 A 1 HETATM 10 P PA GTP . . . G 5 -24.095 74.734 -49.402 1 57.1 ? PA GTP 501 A 1 HETATM 11 O O1A GTP . . . G 5 -22.85 74.993 -48.581 1 53.9 ? O1A GTP 501 A 1 HETATM 12 O O2A GTP . . . G 5 -24.614 76.004 -50.067 1 54.8 ? O2A GTP 501 A 1 HETATM 13 O O5' GTP . . . G 5 -23.818 73.655 -50.565 1 51.52 ? O5' GTP 501 A 1 HETATM 14 C C5' GTP . . . G 5 -22.692 72.829 -50.593 1 52.93 ? C5' GTP 501 A 1 HETATM 15 C C4' GTP . . . G 5 -22.004 73.107 -51.928 1 50.41 ? C4' GTP 501 A 1 HETATM 16 O O4' GTP . . . G 5 -21.779 74.488 -52.079 1 49.9 ? O4' GTP 501 A 1 HETATM 17 C C3' GTP . . . G 5 -20.642 72.44 -52.006 1 49.45 ? C3' GTP 501 A 1 HETATM 18 O O3' GTP . . . G 5 -20.544 71.837 -53.266 1 43.37 ? O3' GTP 501 A 1 HETATM 19 C C2' GTP . . . G 5 -19.607 73.539 -51.88 1 53.48 ? C2' GTP 501 A 1 HETATM 20 O O2' GTP . . . G 5 -18.63 73.363 -52.869 1 61.45 ? O2' GTP 501 A 1 HETATM 21 C C1' GTP . . . G 5 -20.4 74.739 -52.299 1 52.55 ? C1' GTP 501 A 1 HETATM 22 N N9 GTP . . . G 5 -20.18 75.967 -51.564 1 50.12 ? N9 GTP 501 A 1 HETATM 23 C C8 GTP . . . G 5 -20.564 76.281 -50.294 1 50.3 ? C8 GTP 501 A 1 HETATM 24 N N7 GTP . . . G 5 -20.226 77.562 -50.046 1 51.03 ? N7 GTP 501 A 1 HETATM 25 C C5 GTP . . . G 5 -19.672 78.093 -51.185 1 53.84 ? C5 GTP 501 A 1 HETATM 26 C C6 GTP . . . G 5 -19.172 79.36 -51.524 1 52.71 ? C6 GTP 501 A 1 HETATM 27 O O6 GTP . . . G 5 -19.178 80.308 -50.719 1 52.84 ? O6 GTP 501 A 1 HETATM 28 N N1 GTP . . . G 5 -18.667 79.533 -52.791 1 53.04 ? N1 GTP 501 A 1 HETATM 29 C C2 GTP . . . G 5 -18.675 78.488 -53.709 1 53.64 ? C2 GTP 501 A 1 HETATM 30 N N2 GTP . . . G 5 -18.199 78.631 -54.936 1 55.94 ? N2 GTP 501 A 1 HETATM 31 N N3 GTP . . . G 5 -19.179 77.26 -53.399 1 54.27 ? N3 GTP 501 A 1 HETATM 32 C C4 GTP . . . G 5 -19.665 77.079 -52.146 1 53.29 ? C4 GTP 501 A 1 # _model_server_stats.io_time_ms 81 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 20 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 18 _model_server_stats.element_count 32 #