data_5VQ2 # _model_server_result.job_id s3eVuc7Kg50NAwrLsXq4PA _model_server_result.datetime_utc '2024-11-22 04:11:32' _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 5vq2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":201}' # _entry.id 5VQ2 # _exptl.entry_id 5VQ2 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 523.18 _entity.id 2 _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 120 _cell.entry_id 5VQ2 _cell.length_a 94.919 _cell.length_b 94.919 _cell.length_c 120.5 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5VQ2 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 ? 2 C N N ? 2 E 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 covale ? covale1 A NE2 GLN 26 A GLN 25 1_555 B NE2 GLN 26 B GLN 25 6_445 ? ? ? ? ? ? ? ? ? ? ? ? 1.301 ? metalc ? metalc1 A OG SER 18 A SER 17 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? metalc ? metalc2 C O2G GTP . A GTP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.164 ? metalc ? metalc3 C O2B GTP . A GTP 201 1_555 D MG MG . A MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.414 ? metalc ? metalc4 D MG MG . A MG 202 1_555 G O HOH . A HOH 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.69 ? metalc ? metalc5 B OG SER 18 B SER 17 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.417 ? metalc ? metalc6 E O3G GTP . B GTP 201 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc7 E O1B GTP . B GTP 201 1_555 F MG MG . B MG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.48 ? metalc ? metalc8 F MG MG . B MG 202 1_555 H O HOH . B HOH 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.505 ? # _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 129 n n PG O2G GTP sing 130 n n PG O3G GTP sing 131 n n PG O3B GTP sing 132 n n O2G HOG2 GTP sing 133 n n O3G HOG3 GTP sing 134 n n O3B PB GTP sing 135 n n PB O1B GTP doub 136 n n PB O2B GTP sing 137 n n PB O3A GTP sing 138 n n O2B HOB2 GTP sing 139 n n O3A PA GTP sing 140 n n PA O1A GTP doub 141 n n PA O2A GTP sing 142 n n PA O5' GTP sing 143 n n O2A HOA2 GTP sing 144 n n O5' C5' GTP sing 145 n n C5' C4' GTP sing 146 n n C5' H5' GTP sing 147 n n C5' "H5''" GTP sing 148 n n C4' O4' GTP sing 149 n n C4' C3' GTP sing 150 n n C4' H4' GTP sing 151 n n O4' C1' GTP sing 152 n n C3' O3' GTP sing 153 n n C3' C2' GTP sing 154 n n C3' H3' GTP sing 155 n n O3' HO3' GTP sing 156 n n C2' O2' GTP sing 157 n n C2' C1' GTP sing 158 n n C2' H2' GTP sing 159 n n O2' HO2' GTP sing 160 n n C1' N9 GTP sing 161 n n C1' H1' GTP sing 162 n n N9 C8 GTP sing 163 n y N9 C4 GTP sing 164 n y C8 N7 GTP doub 165 n y C8 H8 GTP sing 166 n n N7 C5 GTP sing 167 n y C5 C6 GTP sing 168 n n C5 C4 GTP doub 169 n y C6 O6 GTP doub 170 n n C6 N1 GTP sing 171 n n N1 C2 GTP sing 172 n n N1 HN1 GTP sing 173 n n C2 N2 GTP sing 174 n n C2 N3 GTP doub 175 n n N2 HN21 GTP sing 176 n n N2 HN22 GTP sing 177 n n N3 C4 GTP sing 178 n n # _atom_sites.entry_id 5VQ2 _atom_sites.fract_transf_matrix[1][1] 0.010535 _atom_sites.fract_transf_matrix[1][2] 0.006083 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012165 _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] 0.008299 _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 2 GTP A 1 201 2 GTP GTP . D 3 MG A 1 202 1 MG MG . E 2 GTP B 1 201 1 GTP GTP . F 3 MG B 1 202 2 MG MG . G 4 HOH A 1 301 106 HOH HOH . G 4 HOH A 2 302 69 HOH HOH . G 4 HOH A 3 303 8 HOH HOH . G 4 HOH A 4 304 28 HOH HOH . G 4 HOH A 5 305 88 HOH HOH . G 4 HOH A 6 306 63 HOH HOH . G 4 HOH A 7 307 7 HOH HOH . G 4 HOH A 8 308 78 HOH HOH . G 4 HOH A 9 309 21 HOH HOH . G 4 HOH A 10 310 86 HOH HOH . G 4 HOH A 11 311 26 HOH HOH . G 4 HOH A 12 312 56 HOH HOH . G 4 HOH A 13 313 108 HOH HOH . G 4 HOH A 14 314 53 HOH HOH . G 4 HOH A 15 315 45 HOH HOH . G 4 HOH A 16 316 80 HOH HOH . G 4 HOH A 17 317 39 HOH HOH . G 4 HOH A 18 318 15 HOH HOH . G 4 HOH A 19 319 25 HOH HOH . G 4 HOH A 20 320 27 HOH HOH . G 4 HOH A 21 321 101 HOH HOH . G 4 HOH A 22 322 66 HOH HOH . G 4 HOH A 23 323 68 HOH HOH . G 4 HOH A 24 324 107 HOH HOH . G 4 HOH A 25 325 4 HOH HOH . G 4 HOH A 26 326 90 HOH HOH . G 4 HOH A 27 327 64 HOH HOH . G 4 HOH A 28 328 12 HOH HOH . G 4 HOH A 29 329 40 HOH HOH . G 4 HOH A 30 330 70 HOH HOH . G 4 HOH A 31 331 57 HOH HOH . G 4 HOH A 32 332 20 HOH HOH . G 4 HOH A 33 333 48 HOH HOH . G 4 HOH A 34 334 36 HOH HOH . G 4 HOH A 35 335 87 HOH HOH . G 4 HOH A 36 336 71 HOH HOH . G 4 HOH A 37 337 79 HOH HOH . G 4 HOH A 38 338 83 HOH HOH . G 4 HOH A 39 339 30 HOH HOH . G 4 HOH A 40 340 59 HOH HOH . G 4 HOH A 41 341 55 HOH HOH . G 4 HOH A 42 342 43 HOH HOH . G 4 HOH A 43 343 13 HOH HOH . G 4 HOH A 44 344 6 HOH HOH . G 4 HOH A 45 345 11 HOH HOH . G 4 HOH A 46 346 14 HOH HOH . G 4 HOH A 47 347 100 HOH HOH . G 4 HOH A 48 348 77 HOH HOH . G 4 HOH A 49 349 72 HOH HOH . G 4 HOH A 50 350 92 HOH HOH . G 4 HOH A 51 351 93 HOH HOH . G 4 HOH A 52 352 34 HOH HOH . G 4 HOH A 53 353 94 HOH HOH . G 4 HOH A 54 354 31 HOH HOH . G 4 HOH A 55 355 99 HOH HOH . H 4 HOH B 1 301 85 HOH HOH . H 4 HOH B 2 302 104 HOH HOH . H 4 HOH B 3 303 16 HOH HOH . H 4 HOH B 4 304 19 HOH HOH . H 4 HOH B 5 305 73 HOH HOH . H 4 HOH B 6 306 17 HOH HOH . H 4 HOH B 7 307 105 HOH HOH . H 4 HOH B 8 308 91 HOH HOH . H 4 HOH B 9 309 49 HOH HOH . H 4 HOH B 10 310 98 HOH HOH . H 4 HOH B 11 311 60 HOH HOH . H 4 HOH B 12 312 44 HOH HOH . H 4 HOH B 13 313 3 HOH HOH . H 4 HOH B 14 314 96 HOH HOH . H 4 HOH B 15 315 67 HOH HOH . H 4 HOH B 16 316 37 HOH HOH . H 4 HOH B 17 317 58 HOH HOH . H 4 HOH B 18 318 54 HOH HOH . H 4 HOH B 19 319 89 HOH HOH . H 4 HOH B 20 320 22 HOH HOH . H 4 HOH B 21 321 5 HOH HOH . H 4 HOH B 22 322 32 HOH HOH . H 4 HOH B 23 323 82 HOH HOH . H 4 HOH B 24 324 46 HOH HOH . H 4 HOH B 25 325 52 HOH HOH . H 4 HOH B 26 326 51 HOH HOH . H 4 HOH B 27 327 1 HOH HOH . H 4 HOH B 28 328 9 HOH HOH . H 4 HOH B 29 329 50 HOH HOH . H 4 HOH B 30 330 10 HOH HOH . H 4 HOH B 31 331 74 HOH HOH . H 4 HOH B 32 332 35 HOH HOH . H 4 HOH B 33 333 41 HOH HOH . H 4 HOH B 34 334 42 HOH HOH . H 4 HOH B 35 335 81 HOH HOH . H 4 HOH B 36 336 29 HOH HOH . H 4 HOH B 37 337 62 HOH HOH . H 4 HOH B 38 338 102 HOH HOH . H 4 HOH B 39 339 47 HOH HOH . H 4 HOH B 40 340 75 HOH HOH . H 4 HOH B 41 341 103 HOH HOH . H 4 HOH B 42 342 2 HOH HOH . H 4 HOH B 43 343 65 HOH HOH . H 4 HOH B 44 344 61 HOH HOH . H 4 HOH B 45 345 23 HOH HOH . H 4 HOH B 46 346 95 HOH HOH . H 4 HOH B 47 347 24 HOH HOH . H 4 HOH B 48 348 18 HOH HOH . H 4 HOH B 49 349 76 HOH HOH . H 4 HOH B 50 350 33 HOH HOH . H 4 HOH B 51 351 84 HOH HOH . H 4 HOH B 52 352 97 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 . . . E 2 -32.477 -28.165 -20.963 1 71.76 ? PG GTP 201 B 1 HETATM 2 O O1G GTP . . . E 2 -33.303 -27.28 -21.889 1 71.2 ? O1G GTP 201 B 1 HETATM 3 O O2G GTP . . . E 2 -33.173 -29.467 -20.589 1 67.76 ? O2G GTP 201 B 1 HETATM 4 O O3G GTP . . . E 2 -31.036 -28.343 -21.401 1 61.23 ? O3G GTP 201 B 1 HETATM 5 O O3B GTP . . . E 2 -32.413 -27.289 -19.596 1 38.01 ? O3B GTP 201 B 1 HETATM 6 P PB GTP . . . E 2 -31.323 -27.437 -18.432 1 25.83 ? PB GTP 201 B 1 HETATM 7 O O1B GTP . . . E 2 -29.975 -27.832 -18.905 1 24.85 ? O1B GTP 201 B 1 HETATM 8 O O2B GTP . . . E 2 -31.873 -28.341 -17.35 1 25.17 ? O2B GTP 201 B 1 HETATM 9 O O3A GTP . . . E 2 -31.351 -25.943 -17.789 1 24.18 ? O3A GTP 201 B 1 HETATM 10 P PA GTP . . . E 2 -30.199 -24.823 -17.867 1 24.5 ? PA GTP 201 B 1 HETATM 11 O O1A GTP . . . E 2 -30.175 -24.237 -19.241 1 26.38 ? O1A GTP 201 B 1 HETATM 12 O O2A GTP . . . E 2 -28.927 -25.329 -17.249 1 23.61 ? O2A GTP 201 B 1 HETATM 13 O O5' GTP . . . E 2 -30.798 -23.747 -16.868 1 23.67 ? O5' GTP 201 B 1 HETATM 14 C C5' GTP . . . E 2 -32.123 -23.265 -17.108 1 25.69 ? C5' GTP 201 B 1 HETATM 15 C C4' GTP . . . E 2 -32.242 -21.825 -16.593 1 25.28 ? C4' GTP 201 B 1 HETATM 16 O O4' GTP . . . E 2 -32.173 -21.817 -15.159 1 21.48 ? O4' GTP 201 B 1 HETATM 17 C C3' GTP . . . E 2 -31.094 -20.942 -17.093 1 25.39 ? C3' GTP 201 B 1 HETATM 18 O O3' GTP . . . E 2 -31.557 -19.608 -17.315 1 26.88 ? O3' GTP 201 B 1 HETATM 19 C C2' GTP . . . E 2 -30.116 -20.925 -15.955 1 23.62 ? C2' GTP 201 B 1 HETATM 20 O O2' GTP . . . E 2 -29.371 -19.712 -15.853 1 22.57 ? O2' GTP 201 B 1 HETATM 21 C C1' GTP . . . E 2 -31.05 -21.032 -14.764 1 22.33 ? C1' GTP 201 B 1 HETATM 22 N N9 GTP . . . E 2 -30.414 -21.713 -13.634 1 20.48 ? N9 GTP 201 B 1 HETATM 23 C C8 GTP . . . E 2 -29.826 -22.917 -13.69 1 20.36 ? C8 GTP 201 B 1 HETATM 24 N N7 GTP . . . E 2 -29.425 -23.304 -12.454 1 20.15 ? N7 GTP 201 B 1 HETATM 25 C C5 GTP . . . E 2 -29.7 -22.295 -11.624 1 19.89 ? C5 GTP 201 B 1 HETATM 26 C C6 GTP . . . E 2 -29.57 -22.048 -10.187 1 19.03 ? C6 GTP 201 B 1 HETATM 27 O O6 GTP . . . E 2 -29.028 -22.876 -9.46 1 17.92 ? O6 GTP 201 B 1 HETATM 28 N N1 GTP . . . E 2 -30.016 -20.894 -9.7 1 21.11 ? N1 GTP 201 B 1 HETATM 29 C C2 GTP . . . E 2 -30.626 -19.98 -10.482 1 20.92 ? C2 GTP 201 B 1 HETATM 30 N N2 GTP . . . E 2 -31.043 -18.826 -9.933 1 23.04 ? N2 GTP 201 B 1 HETATM 31 N N3 GTP . . . E 2 -30.817 -20.147 -11.797 1 21.53 ? N3 GTP 201 B 1 HETATM 32 C C4 GTP . . . E 2 -30.365 -21.251 -12.41 1 20.41 ? C4 GTP 201 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 26 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 32 #