data_8WMO # _model_server_result.job_id OGox9d_xl1q86T8WEXjzcg _model_server_result.datetime_utc '2024-11-24 14:47:38' _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":"W","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 . . . W 5 -27.301 -11.421 45.364 1 120.62 ? PG GTP 501 D 1 HETATM 2 O O1G GTP . . . W 5 -26.226 -12.46 45.61 1 95.99 ? O1G GTP 501 D 1 HETATM 3 O O2G GTP . . . W 5 -28.646 -12.093 45.295 1 92.03 ? O2G GTP 501 D 1 HETATM 4 O O3G GTP . . . W 5 -27.262 -10.335 46.427 1 94.91 ? O3G GTP 501 D 1 HETATM 5 O O3B GTP . . . W 5 -27.083 -10.751 43.932 1 81.86 ? O3B GTP 501 D 1 HETATM 6 P PB GTP . . . W 5 -25.747 -9.915 43.698 1 76.35 ? PB GTP 501 D 1 HETATM 7 O O1B GTP . . . W 5 -25.145 -9.449 45.004 1 81.07 ? O1B GTP 501 D 1 HETATM 8 O O2B GTP . . . W 5 -26.07 -8.753 42.8 1 87.05 ? O2B GTP 501 D 1 HETATM 9 O O3A GTP . . . W 5 -24.821 -11.004 42.979 1 80.31 ? O3A GTP 501 D 1 HETATM 10 P PA GTP . . . W 5 -23.215 -10.956 43.054 1 72.53 ? PA GTP 501 D 1 HETATM 11 O O1A GTP . . . W 5 -22.644 -11.79 44.172 1 94.51 ? O1A GTP 501 D 1 HETATM 12 O O2A GTP . . . W 5 -22.669 -9.57 43.212 1 73.15 ? O2A GTP 501 D 1 HETATM 13 O O5' GTP . . . W 5 -22.97 -11.661 41.627 1 80.95 ? O5' GTP 501 D 1 HETATM 14 C C5' GTP . . . W 5 -22.501 -12.975 41.42 1 82.71 ? C5' GTP 501 D 1 HETATM 15 C C4' GTP . . . W 5 -21.276 -12.905 40.517 1 78.44 ? C4' GTP 501 D 1 HETATM 16 O O4' GTP . . . W 5 -20.504 -11.81 40.956 1 69.12 ? O4' GTP 501 D 1 HETATM 17 C C3' GTP . . . W 5 -20.389 -14.143 40.58 1 79.72 ? C3' GTP 501 D 1 HETATM 18 O O3' GTP . . . W 5 -20.324 -14.795 39.319 1 75.72 ? O3' GTP 501 D 1 HETATM 19 C C2' GTP . . . W 5 -19.042 -13.591 41.049 1 73.08 ? C2' GTP 501 D 1 HETATM 20 O O2' GTP . . . W 5 -17.982 -14.123 40.288 1 83.28 ? O2' GTP 501 D 1 HETATM 21 C C1' GTP . . . W 5 -19.138 -12.098 40.819 1 69.1 ? C1' GTP 501 D 1 HETATM 22 N N9 GTP . . . W 5 -18.486 -11.169 41.748 1 71.28 ? N9 GTP 501 D 1 HETATM 23 C C8 GTP . . . W 5 -18.88 -10.827 43.025 1 75.1 ? C8 GTP 501 D 1 HETATM 24 N N7 GTP . . . W 5 -18.048 -9.862 43.498 1 69.75 ? N7 GTP 501 D 1 HETATM 25 C C5 GTP . . . W 5 -17.152 -9.561 42.514 1 69.82 ? C5 GTP 501 D 1 HETATM 26 C C6 GTP . . . W 5 -16.095 -8.644 42.459 1 69.65 ? C6 GTP 501 D 1 HETATM 27 O O6 GTP . . . W 5 -15.838 -7.927 43.434 1 71.74 ? O6 GTP 501 D 1 HETATM 28 N N1 GTP . . . W 5 -15.346 -8.555 41.302 1 63.6 ? N1 GTP 501 D 1 HETATM 29 C C2 GTP . . . W 5 -15.676 -9.376 40.232 1 65.78 ? C2 GTP 501 D 1 HETATM 30 N N2 GTP . . . W 5 -14.945 -9.302 39.131 1 68.65 ? N2 GTP 501 D 1 HETATM 31 N N3 GTP . . . W 5 -16.726 -10.282 40.273 1 62.39 ? N3 GTP 501 D 1 HETATM 32 C C4 GTP . . . W 5 -17.441 -10.366 41.407 1 66.47 ? C4 GTP 501 D 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 18 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #