data_7DC9 # _model_server_result.job_id gA3KYQe7xEj9Y-t7IkXBmQ _model_server_result.datetime_utc '2024-11-15 07:37:58' _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 7dc9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":202}' # _entry.id 7DC9 # _exptl.entry_id 7DC9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 283.241 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description GUANOSINE _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 7DC9 _cell.length_a 119.812 _cell.length_b 119.812 _cell.length_c 39.884 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DC9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 169 _symmetry.space_group_name_Hall 'P 61' _symmetry.space_group_name_H-M 'P 61' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 D N N ? 3 F 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 ND1 HIS 56 A HIS 80 1_555 C ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? metalc ? metalc2 A SG CYS 86 A CYS 110 1_555 C ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? metalc ? metalc3 A SG CYS 89 A CYS 113 1_555 C ZN ZN . A ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.306 ? metalc ? metalc4 B ND1 HIS 56 D HIS 80 1_555 E ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc5 B SG CYS 86 D CYS 110 1_555 E ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.32 ? metalc ? metalc6 B SG CYS 89 D CYS 113 1_555 E ZN ZN . D ZN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? # _chem_comp.formula 'C10 H13 N5 O5' _chem_comp.formula_weight 283.241 _chem_comp.id GMP _chem_comp.mon_nstd_flag . _chem_comp.name GUANOSINE _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 O5' C5' GMP sing 129 n n O5' HO5' GMP sing 130 n n C5' C4' GMP sing 131 n n C5' "H5'1" GMP sing 132 n n C5' "H5'2" GMP sing 133 n n C4' O4' GMP sing 134 n n C4' C3' GMP sing 135 n n C4' H4' GMP sing 136 n n O4' C1' GMP sing 137 n n C3' O3' GMP sing 138 n n C3' C2' GMP sing 139 n n C3' H3' GMP sing 140 n n O3' HO3' GMP sing 141 n n C2' O2' GMP sing 142 n n C2' C1' GMP sing 143 n n C2' H2' GMP sing 144 n n O2' HO2' GMP sing 145 n n C1' N9 GMP sing 146 n n C1' H1' GMP sing 147 n n N9 C8 GMP sing 148 n y N9 C4 GMP sing 149 n y C8 N7 GMP doub 150 n y C8 H8 GMP sing 151 n n N7 C5 GMP sing 152 n y C5 C6 GMP sing 153 n n C5 C4 GMP doub 154 n y C6 O6 GMP doub 155 n n C6 N1 GMP sing 156 n n N1 C2 GMP sing 157 n n N1 HN1 GMP sing 158 n n C2 N2 GMP sing 159 n n C2 N3 GMP doub 160 n n N2 HN21 GMP sing 161 n n N2 HN22 GMP sing 162 n n N3 C4 GMP sing 163 n n # _atom_sites.entry_id 7DC9 _atom_sites.fract_transf_matrix[1][1] 0.008346 _atom_sites.fract_transf_matrix[1][2] 0.004819 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009638 _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] 0.025073 _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 ZN A 1 201 2 ZN ZN . D 3 GMP A 1 202 1 GMP GMP . E 2 ZN D 1 201 1 ZN ZN . F 3 GMP D 1 202 2 GMP GMP . G 4 HOH A 1 301 193 HOH HOH . G 4 HOH A 2 302 280 HOH HOH . G 4 HOH A 3 303 18 HOH HOH . G 4 HOH A 4 304 262 HOH HOH . G 4 HOH A 5 305 226 HOH HOH . G 4 HOH A 6 306 263 HOH HOH . G 4 HOH A 7 307 43 HOH HOH . G 4 HOH A 8 308 277 HOH HOH . G 4 HOH A 9 309 4 HOH HOH . G 4 HOH A 10 310 191 HOH HOH . G 4 HOH A 11 311 113 HOH HOH . G 4 HOH A 12 312 275 HOH HOH . G 4 HOH A 13 313 184 HOH HOH . G 4 HOH A 14 314 75 HOH HOH . G 4 HOH A 15 315 68 HOH HOH . G 4 HOH A 16 316 139 HOH HOH . G 4 HOH A 17 317 48 HOH HOH . G 4 HOH A 18 318 28 HOH HOH . G 4 HOH A 19 319 114 HOH HOH . G 4 HOH A 20 320 19 HOH HOH . G 4 HOH A 21 321 244 HOH HOH . G 4 HOH A 22 322 76 HOH HOH . G 4 HOH A 23 323 77 HOH HOH . G 4 HOH A 24 324 14 HOH HOH . G 4 HOH A 25 325 111 HOH HOH . G 4 HOH A 26 326 34 HOH HOH . G 4 HOH A 27 327 10 HOH HOH . G 4 HOH A 28 328 64 HOH HOH . G 4 HOH A 29 329 116 HOH HOH . G 4 HOH A 30 330 6 HOH HOH . G 4 HOH A 31 331 102 HOH HOH . G 4 HOH A 32 332 99 HOH HOH . G 4 HOH A 33 333 57 HOH HOH . G 4 HOH A 34 334 97 HOH HOH . G 4 HOH A 35 335 35 HOH HOH . G 4 HOH A 36 336 71 HOH HOH . G 4 HOH A 37 337 140 HOH HOH . G 4 HOH A 38 338 106 HOH HOH . G 4 HOH A 39 339 199 HOH HOH . G 4 HOH A 40 340 20 HOH HOH . G 4 HOH A 41 341 107 HOH HOH . G 4 HOH A 42 342 78 HOH HOH . G 4 HOH A 43 343 22 HOH HOH . G 4 HOH A 44 344 44 HOH HOH . G 4 HOH A 45 345 176 HOH HOH . G 4 HOH A 46 346 7 HOH HOH . G 4 HOH A 47 347 154 HOH HOH . G 4 HOH A 48 348 25 HOH HOH . G 4 HOH A 49 349 232 HOH HOH . G 4 HOH A 50 350 96 HOH HOH . G 4 HOH A 51 351 151 HOH HOH . G 4 HOH A 52 352 121 HOH HOH . G 4 HOH A 53 353 177 HOH HOH . G 4 HOH A 54 354 259 HOH HOH . G 4 HOH A 55 355 254 HOH HOH . G 4 HOH A 56 356 79 HOH HOH . G 4 HOH A 57 357 74 HOH HOH . G 4 HOH A 58 358 11 HOH HOH . G 4 HOH A 59 359 94 HOH HOH . G 4 HOH A 60 360 145 HOH HOH . G 4 HOH A 61 361 83 HOH HOH . G 4 HOH A 62 362 104 HOH HOH . G 4 HOH A 63 363 147 HOH HOH . G 4 HOH A 64 364 98 HOH HOH . G 4 HOH A 65 365 66 HOH HOH . G 4 HOH A 66 366 279 HOH HOH . G 4 HOH A 67 367 81 HOH HOH . G 4 HOH A 68 368 161 HOH HOH . G 4 HOH A 69 369 67 HOH HOH . G 4 HOH A 70 370 9 HOH HOH . G 4 HOH A 71 371 36 HOH HOH . G 4 HOH A 72 372 93 HOH HOH . G 4 HOH A 73 373 85 HOH HOH . G 4 HOH A 74 374 1 HOH HOH . G 4 HOH A 75 375 274 HOH HOH . G 4 HOH A 76 376 268 HOH HOH . G 4 HOH A 77 377 221 HOH HOH . G 4 HOH A 78 378 179 HOH HOH . G 4 HOH A 79 379 249 HOH HOH . G 4 HOH A 80 380 245 HOH HOH . G 4 HOH A 81 381 215 HOH HOH . G 4 HOH A 82 382 243 HOH HOH . G 4 HOH A 83 383 190 HOH HOH . G 4 HOH A 84 384 228 HOH HOH . G 4 HOH A 85 385 168 HOH HOH . G 4 HOH A 86 386 55 HOH HOH . G 4 HOH A 87 387 105 HOH HOH . G 4 HOH A 88 388 197 HOH HOH . G 4 HOH A 89 389 265 HOH HOH . G 4 HOH A 90 390 117 HOH HOH . G 4 HOH A 91 391 166 HOH HOH . G 4 HOH A 92 392 194 HOH HOH . G 4 HOH A 93 393 131 HOH HOH . G 4 HOH A 94 394 237 HOH HOH . G 4 HOH A 95 395 41 HOH HOH . G 4 HOH A 96 396 216 HOH HOH . G 4 HOH A 97 397 122 HOH HOH . G 4 HOH A 98 398 136 HOH HOH . G 4 HOH A 99 399 233 HOH HOH . G 4 HOH A 100 400 119 HOH HOH . G 4 HOH A 101 401 124 HOH HOH . G 4 HOH A 102 402 218 HOH HOH . G 4 HOH A 103 403 133 HOH HOH . G 4 HOH A 104 404 273 HOH HOH . G 4 HOH A 105 405 110 HOH HOH . G 4 HOH A 106 406 150 HOH HOH . H 4 HOH D 1 301 241 HOH HOH . H 4 HOH D 2 302 284 HOH HOH . H 4 HOH D 3 303 206 HOH HOH . H 4 HOH D 4 304 230 HOH HOH . H 4 HOH D 5 305 195 HOH HOH . H 4 HOH D 6 306 72 HOH HOH . H 4 HOH D 7 307 63 HOH HOH . H 4 HOH D 8 308 169 HOH HOH . H 4 HOH D 9 309 271 HOH HOH . H 4 HOH D 10 310 65 HOH HOH . H 4 HOH D 11 311 88 HOH HOH . H 4 HOH D 12 312 159 HOH HOH . H 4 HOH D 13 313 138 HOH HOH . H 4 HOH D 14 314 3 HOH HOH . H 4 HOH D 15 315 69 HOH HOH . H 4 HOH D 16 316 56 HOH HOH . H 4 HOH D 17 317 164 HOH HOH . H 4 HOH D 18 318 58 HOH HOH . H 4 HOH D 19 319 80 HOH HOH . H 4 HOH D 20 320 50 HOH HOH . H 4 HOH D 21 321 89 HOH HOH . H 4 HOH D 22 322 211 HOH HOH . H 4 HOH D 23 323 92 HOH HOH . H 4 HOH D 24 324 16 HOH HOH . H 4 HOH D 25 325 15 HOH HOH . H 4 HOH D 26 326 165 HOH HOH . H 4 HOH D 27 327 38 HOH HOH . H 4 HOH D 28 328 61 HOH HOH . H 4 HOH D 29 329 62 HOH HOH . H 4 HOH D 30 330 49 HOH HOH . H 4 HOH D 31 331 5 HOH HOH . H 4 HOH D 32 332 100 HOH HOH . H 4 HOH D 33 333 272 HOH HOH . H 4 HOH D 34 334 45 HOH HOH . H 4 HOH D 35 335 87 HOH HOH . H 4 HOH D 36 336 17 HOH HOH . H 4 HOH D 37 337 24 HOH HOH . H 4 HOH D 38 338 46 HOH HOH . H 4 HOH D 39 339 47 HOH HOH . H 4 HOH D 40 340 59 HOH HOH . H 4 HOH D 41 341 182 HOH HOH . H 4 HOH D 42 342 73 HOH HOH . H 4 HOH D 43 343 132 HOH HOH . H 4 HOH D 44 344 21 HOH HOH . H 4 HOH D 45 345 30 HOH HOH . H 4 HOH D 46 346 39 HOH HOH . H 4 HOH D 47 347 84 HOH HOH . H 4 HOH D 48 348 109 HOH HOH . H 4 HOH D 49 349 283 HOH HOH . H 4 HOH D 50 350 51 HOH HOH . H 4 HOH D 51 351 276 HOH HOH . H 4 HOH D 52 352 130 HOH HOH . H 4 HOH D 53 353 12 HOH HOH . H 4 HOH D 54 354 31 HOH HOH . H 4 HOH D 55 355 278 HOH HOH . H 4 HOH D 56 356 128 HOH HOH . H 4 HOH D 57 357 40 HOH HOH . H 4 HOH D 58 358 108 HOH HOH . H 4 HOH D 59 359 37 HOH HOH . H 4 HOH D 60 360 125 HOH HOH . H 4 HOH D 61 361 201 HOH HOH . H 4 HOH D 62 362 142 HOH HOH . H 4 HOH D 63 363 120 HOH HOH . H 4 HOH D 64 364 281 HOH HOH . H 4 HOH D 65 365 2 HOH HOH . H 4 HOH D 66 366 95 HOH HOH . H 4 HOH D 67 367 167 HOH HOH . H 4 HOH D 68 368 135 HOH HOH . H 4 HOH D 69 369 23 HOH HOH . H 4 HOH D 70 370 8 HOH HOH . H 4 HOH D 71 371 189 HOH HOH . H 4 HOH D 72 372 223 HOH HOH . H 4 HOH D 73 373 209 HOH HOH . H 4 HOH D 74 374 54 HOH HOH . H 4 HOH D 75 375 33 HOH HOH . H 4 HOH D 76 376 103 HOH HOH . H 4 HOH D 77 377 173 HOH HOH . H 4 HOH D 78 378 172 HOH HOH . H 4 HOH D 79 379 198 HOH HOH . H 4 HOH D 80 380 26 HOH HOH . H 4 HOH D 81 381 157 HOH HOH . H 4 HOH D 82 382 91 HOH HOH . H 4 HOH D 83 383 90 HOH HOH . H 4 HOH D 84 384 101 HOH HOH . H 4 HOH D 85 385 163 HOH HOH . H 4 HOH D 86 386 282 HOH HOH . H 4 HOH D 87 387 158 HOH HOH . H 4 HOH D 88 388 242 HOH HOH . H 4 HOH D 89 389 152 HOH HOH . H 4 HOH D 90 390 27 HOH HOH . H 4 HOH D 91 391 187 HOH HOH . H 4 HOH D 92 392 148 HOH HOH . H 4 HOH D 93 393 42 HOH HOH . H 4 HOH D 94 394 183 HOH HOH . H 4 HOH D 95 395 126 HOH HOH . H 4 HOH D 96 396 266 HOH HOH . H 4 HOH D 97 397 255 HOH HOH . H 4 HOH D 98 398 256 HOH HOH . H 4 HOH D 99 399 220 HOH HOH . H 4 HOH D 100 400 170 HOH HOH . H 4 HOH D 101 401 270 HOH HOH . H 4 HOH D 102 402 112 HOH HOH . H 4 HOH D 103 403 192 HOH HOH . H 4 HOH D 104 404 70 HOH HOH . H 4 HOH D 105 405 155 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 O O5' GMP . . . F 3 -40.318 -30.446 1.322 0.91 37.66 ? O5' GMP 202 D 1 HETATM 2 C C5' GMP . . . F 3 -41.119 -29.629 2.182 0.83 35.74 ? C5' GMP 202 D 1 HETATM 3 C C4' GMP . . . F 3 -40.648 -29.727 3.612 0.93 35.37 ? C4' GMP 202 D 1 HETATM 4 O O4' GMP . . . F 3 -40.916 -31.076 4.119 0.7 31.8 ? O4' GMP 202 D 1 HETATM 5 C C3' GMP . . . F 3 -39.146 -29.521 3.787 1 30.28 ? C3' GMP 202 D 1 HETATM 6 O O3' GMP . . . F 3 -38.917 -28.979 5.092 0.93 32.08 ? O3' GMP 202 D 1 HETATM 7 C C2' GMP . . . F 3 -38.627 -30.949 3.818 0.99 30.63 ? C2' GMP 202 D 1 HETATM 8 O O2' GMP . . . F 3 -37.369 -31.07 4.431 0.87 29.27 ? O2' GMP 202 D 1 HETATM 9 C C1' GMP . . . F 3 -39.708 -31.61 4.639 0.8 33.35 ? C1' GMP 202 D 1 HETATM 10 N N9 GMP . . . F 3 -39.653 -33.048 4.471 0.81 32.14 ? N9 GMP 202 D 1 HETATM 11 C C8 GMP . . . F 3 -39.192 -33.889 5.421 0.77 33.4 ? C8 GMP 202 D 1 HETATM 12 N N7 GMP . . . F 3 -39.19 -35.12 4.878 0.78 29.42 ? N7 GMP 202 D 1 HETATM 13 C C5 GMP . . . F 3 -39.59 -35.022 3.605 0.78 25.44 ? C5 GMP 202 D 1 HETATM 14 C C6 GMP . . . F 3 -39.726 -36.086 2.5 1 24.05 ? C6 GMP 202 D 1 HETATM 15 O O6 GMP . . . F 3 -39.549 -37.264 2.724 0.96 21.97 ? O6 GMP 202 D 1 HETATM 16 N N1 GMP . . . F 3 -40.15 -35.649 1.249 0.93 29.13 ? N1 GMP 202 D 1 HETATM 17 C C2 GMP . . . F 3 -40.537 -34.273 1.001 0.58 28.95 ? C2 GMP 202 D 1 HETATM 18 N N2 GMP . . . F 3 -41.019 -33.847 -0.286 0.76 27.1 ? N2 GMP 202 D 1 HETATM 19 N N3 GMP . . . F 3 -40.363 -33.262 2.018 0.71 30.21 ? N3 GMP 202 D 1 HETATM 20 C C4 GMP . . . F 3 -39.857 -33.708 3.347 0.61 28.45 ? C4 GMP 202 D 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #