data_3GGS # _model_server_result.job_id lS1kSXM9FLJkbqovy5xNbg _model_server_result.datetime_utc '2024-11-13 08:01:30' _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 3ggs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Z","auth_seq_id":300}' # _entry.id 3GGS # _exptl.entry_id 3GGS _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 269.232 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 5-(6-AMINO-2-FLUORO-PURIN-9-YL)-2-HYDROXYMETHYL-TETRAHYDRO-FURAN-3-OL _entity.pdbx_number_of_molecules 4 _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 3GGS _cell.length_a 71.24 _cell.length_b 130.646 _cell.length_c 149.433 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GGS _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA _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 ? 2 D N N ? 2 O N N ? 2 Z N N ? 2 KA N N # _chem_comp.formula 'C10 H12 F N5 O3' _chem_comp.formula_weight 269.232 _chem_comp.id 2FD _chem_comp.mon_nstd_flag . _chem_comp.name 5-(6-AMINO-2-FLUORO-PURIN-9-YL)-2-HYDROXYMETHYL-TETRAHYDRO-FURAN-3-OL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2-FLUORO-2'-DEOXYADENOSINE" # 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' 2FD sing 1 n n O5' H5' 2FD sing 2 n n C5' C4' 2FD sing 3 n n C5' "H5'1" 2FD sing 4 n n C5' "H5'2" 2FD sing 5 n n C4' O4' 2FD sing 6 n n C4' C3' 2FD sing 7 n n C4' H4' 2FD sing 8 n n O4' C1' 2FD sing 9 n n C1' N9 2FD sing 10 n n C1' C2' 2FD sing 11 n n C1' H1' 2FD sing 12 n n N9 C4 2FD sing 13 n y N9 C8 2FD sing 14 n y C4 N3 2FD doub 15 n y C4 C5 2FD sing 16 n y N3 C2 2FD sing 17 n y C2 F 2FD sing 18 n n C2 N1 2FD doub 19 n y N1 C6 2FD sing 20 n y C6 N6 2FD sing 21 n n C6 C5 2FD doub 22 n y N6 HN61 2FD sing 23 n n N6 HN62 2FD sing 24 n n C5 N7 2FD sing 25 n y N7 C8 2FD doub 26 n y C8 H8 2FD sing 27 n n C2' C3' 2FD sing 28 n n C2' "H2'1" 2FD sing 29 n n C2' "H2'2" 2FD sing 30 n n C3' O3' 2FD sing 31 n n C3' H3' 2FD sing 32 n n O3' H1 2FD sing 33 n n # _atom_sites.entry_id 3GGS _atom_sites.fract_transf_matrix[1][1] 0.014037 _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] 0.007654 _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] 0.006692 _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 D 2 2FD A 1 300 300 2FD 2FD . E 3 SO4 A 1 290 3 SO4 SO4 . F 3 SO4 A 1 291 4 SO4 SO4 . G 3 SO4 A 1 292 6 SO4 SO4 . H 3 SO4 A 1 293 10 SO4 SO4 . I 3 SO4 A 1 294 13 SO4 SO4 . J 3 SO4 A 1 295 14 SO4 SO4 . K 3 SO4 A 1 296 18 SO4 SO4 . L 3 SO4 A 1 297 20 SO4 SO4 . M 3 SO4 A 1 298 21 SO4 SO4 . N 3 SO4 A 1 299 24 SO4 SO4 . O 2 2FD B 1 300 300 2FD 2FD . P 3 SO4 B 1 290 2 SO4 SO4 . Q 3 SO4 B 1 291 5 SO4 SO4 . R 3 SO4 B 1 292 9 SO4 SO4 . S 3 SO4 B 1 293 15 SO4 SO4 . T 3 SO4 B 1 294 16 SO4 SO4 . U 3 SO4 B 1 295 17 SO4 SO4 . V 3 SO4 B 1 296 19 SO4 SO4 . W 3 SO4 B 1 297 23 SO4 SO4 . X 3 SO4 B 1 298 25 SO4 SO4 . Y 3 SO4 B 1 299 26 SO4 SO4 . Z 2 2FD C 1 300 300 2FD 2FD . AA 3 SO4 C 1 290 1 SO4 SO4 . BA 3 SO4 C 1 291 7 SO4 SO4 . CA 3 SO4 C 1 292 8 SO4 SO4 . DA 3 SO4 C 1 293 11 SO4 SO4 . EA 3 SO4 C 1 294 12 SO4 SO4 . FA 3 SO4 C 1 295 22 SO4 SO4 . GA 3 SO4 C 1 296 28 SO4 SO4 . HA 3 SO4 C 1 297 29 SO4 SO4 . IA 3 SO4 C 1 298 30 SO4 SO4 . JA 3 SO4 C 1 299 31 SO4 SO4 . KA 2 2FD C 1 301 32 2FD 2FD . LA 4 HOH A 1 306 38 HOH HOH . LA 4 HOH A 2 311 43 HOH HOH . LA 4 HOH A 3 317 49 HOH HOH . LA 4 HOH A 4 318 50 HOH HOH . LA 4 HOH A 5 319 51 HOH HOH . LA 4 HOH A 6 321 53 HOH HOH . LA 4 HOH A 7 322 54 HOH HOH . LA 4 HOH A 8 324 56 HOH HOH . LA 4 HOH A 9 327 59 HOH HOH . LA 4 HOH A 10 329 61 HOH HOH . LA 4 HOH A 11 330 62 HOH HOH . LA 4 HOH A 12 331 63 HOH HOH . LA 4 HOH A 13 335 67 HOH HOH . LA 4 HOH A 14 338 70 HOH HOH . LA 4 HOH A 15 339 71 HOH HOH . LA 4 HOH A 16 342 74 HOH HOH . LA 4 HOH A 17 344 76 HOH HOH . LA 4 HOH A 18 347 80 HOH HOH . LA 4 HOH A 19 349 82 HOH HOH . LA 4 HOH A 20 350 83 HOH HOH . LA 4 HOH A 21 352 85 HOH HOH . LA 4 HOH A 22 358 91 HOH HOH . LA 4 HOH A 23 360 93 HOH HOH . LA 4 HOH A 24 362 95 HOH HOH . LA 4 HOH A 25 364 97 HOH HOH . MA 4 HOH B 1 308 40 HOH HOH . MA 4 HOH B 2 309 41 HOH HOH . MA 4 HOH B 3 310 42 HOH HOH . MA 4 HOH B 4 312 44 HOH HOH . MA 4 HOH B 5 313 45 HOH HOH . MA 4 HOH B 6 314 46 HOH HOH . MA 4 HOH B 7 316 48 HOH HOH . MA 4 HOH B 8 320 52 HOH HOH . MA 4 HOH B 9 333 65 HOH HOH . MA 4 HOH B 10 334 66 HOH HOH . MA 4 HOH B 11 337 69 HOH HOH . MA 4 HOH B 12 340 72 HOH HOH . MA 4 HOH B 13 343 75 HOH HOH . MA 4 HOH B 14 345 77 HOH HOH . MA 4 HOH B 15 348 81 HOH HOH . MA 4 HOH B 16 353 86 HOH HOH . MA 4 HOH B 17 356 89 HOH HOH . MA 4 HOH B 18 357 90 HOH HOH . MA 4 HOH B 19 363 96 HOH HOH . NA 4 HOH C 1 302 34 HOH HOH . NA 4 HOH C 2 303 35 HOH HOH . NA 4 HOH C 3 304 36 HOH HOH . NA 4 HOH C 4 305 37 HOH HOH . NA 4 HOH C 5 306 33 HOH HOH . NA 4 HOH C 6 307 39 HOH HOH . NA 4 HOH C 7 315 47 HOH HOH . NA 4 HOH C 8 323 55 HOH HOH . NA 4 HOH C 9 325 57 HOH HOH . NA 4 HOH C 10 326 58 HOH HOH . NA 4 HOH C 11 328 60 HOH HOH . NA 4 HOH C 12 332 64 HOH HOH . NA 4 HOH C 13 336 68 HOH HOH . NA 4 HOH C 14 341 73 HOH HOH . NA 4 HOH C 15 346 79 HOH HOH . NA 4 HOH C 16 351 84 HOH HOH . NA 4 HOH C 17 354 87 HOH HOH . NA 4 HOH C 18 355 88 HOH HOH . NA 4 HOH C 19 359 92 HOH HOH . NA 4 HOH C 20 361 94 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' 2FD . . . Z 2 -13.455 20.11 -14.571 1 83.1 ? O5' 2FD 300 C 1 HETATM 2 C C5' 2FD . . . Z 2 -13.82 20.676 -15.834 1 82.5 ? C5' 2FD 300 C 1 HETATM 3 C C4' 2FD . . . Z 2 -14.484 19.597 -16.677 1 81.91 ? C4' 2FD 300 C 1 HETATM 4 O O4' 2FD . . . Z 2 -15.915 19.686 -16.57 1 80.93 ? O4' 2FD 300 C 1 HETATM 5 C C1' 2FD . . . Z 2 -16.542 19.498 -17.85 1 80.01 ? C1' 2FD 300 C 1 HETATM 6 N N9 2FD . . . Z 2 -17.569 20.564 -18.113 1 77.88 ? N9 2FD 300 C 1 HETATM 7 C C4 2FD . . . Z 2 -17.898 21.084 -19.304 1 75.61 ? C4 2FD 300 C 1 HETATM 8 N N3 2FD . . . Z 2 -17.432 20.848 -20.549 1 74.05 ? N3 2FD 300 C 1 HETATM 9 C C2 2FD . . . Z 2 -17.915 21.514 -21.603 1 72.66 ? C2 2FD 300 C 1 HETATM 10 F F 2FD . . . Z 2 -17.386 21.21 -22.786 1 73.03 ? F 2FD 300 C 1 HETATM 11 N N1 2FD . . . Z 2 -18.889 22.446 -21.463 1 72.99 ? N1 2FD 300 C 1 HETATM 12 C C6 2FD . . . Z 2 -19.388 22.715 -20.231 1 73.72 ? C6 2FD 300 C 1 HETATM 13 N N6 2FD . . . Z 2 -20.36 23.643 -20.071 1 72.97 ? N6 2FD 300 C 1 HETATM 14 C C5 2FD . . . Z 2 -18.895 22.028 -19.123 1 74.15 ? C5 2FD 300 C 1 HETATM 15 N N7 2FD . . . Z 2 -19.165 22.057 -17.803 1 74.99 ? N7 2FD 300 C 1 HETATM 16 C C8 2FD . . . Z 2 -18.351 21.155 -17.195 1 76.73 ? C8 2FD 300 C 1 HETATM 17 C C2' 2FD . . . Z 2 -15.409 19.418 -18.888 1 80.93 ? C2' 2FD 300 C 1 HETATM 18 C C3' 2FD . . . Z 2 -14.12 19.726 -18.153 1 81.92 ? C3' 2FD 300 C 1 HETATM 19 O O3' 2FD . . . Z 2 -13.065 18.833 -18.543 1 81.91 ? O3' 2FD 300 C 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 19 #