data_3K8O # _model_server_result.job_id 3B7amzx9jPkXGYA-7uIFUw _model_server_result.datetime_utc '2024-11-23 02:23:29' _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 3k8o # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":9005}' # _entry.id 3K8O # _exptl.entry_id 3K8O _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 268.269 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 7-({[(1R,2S)-2,3-DIHYDROXY-1-(HYDROXYMETHYL)PROPYL]AMINO}METHYL)-3,5-DIHYDRO-4H-PYRROLO[3,2-D]PYRIMIDIN-4-ONE _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.44 _cell.angle_gamma 90 _cell.entry_id 3K8O _cell.length_a 269.212 _cell.length_b 51.875 _cell.length_c 129.069 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3K8O _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # 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 trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 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,B,F,G,H,I,J,K,L,M,N,Z,AA,BA,CA,DA,HA 1 1 C,D,E,O,P,Q,R,S,T,U,V,W,X,Y,EA,FA,GA 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 ? 3 J N N ? 3 N N N ? 3 R N N ? 3 U N N ? 3 Y N N ? 3 BA N N # _chem_comp.formula 'C11 H16 N4 O4' _chem_comp.formula_weight 268.269 _chem_comp.id 229 _chem_comp.mon_nstd_flag . _chem_comp.name 7-({[(1R,2S)-2,3-DIHYDROXY-1-(HYDROXYMETHYL)PROPYL]AMINO}METHYL)-3,5-DIHYDRO-4H-PYRROLO[3,2-D]PYRIMIDIN-4-ONE _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 O4 C11 229 sing 1 n n O4 HO4 229 sing 2 n n C11 C6 229 sing 3 n n C11 H111 229 sing 4 n n C11 H112 229 sing 5 n n C6 C8 229 sing 6 n n C6 O3 229 sing 7 n n C6 H6 229 sing 8 n n O3 HO3 229 sing 9 n n C8 C3 229 sing 10 n n C8 N2 229 sing 11 n n C8 H8 229 sing 12 n n C3 O2 229 sing 13 n n C3 H31 229 sing 14 n n C3 H32 229 sing 15 n n O2 HO2 229 sing 16 n n N2 C10 229 sing 17 n n N2 HN2 229 sing 18 n n C10 C4 229 sing 19 n n C10 H101 229 sing 20 n n C10 H102 229 sing 21 n n C4 C1 229 sing 22 n n C4 C9 229 doub 23 n n C1 N4 229 sing 24 n n C1 C2 229 doub 25 n n N4 C7 229 doub 26 n n C7 N3 229 sing 27 n n C7 H7 229 sing 28 n n N3 C5 229 sing 29 n n N3 HN3 229 sing 30 n n C9 N1 229 sing 31 n n C9 H9 229 sing 32 n n N1 C2 229 sing 33 n n N1 HN1 229 sing 34 n n C2 C5 229 sing 35 n n C5 O1 229 doub 36 n n # _atom_sites.entry_id 3K8O _atom_sites.fract_transf_matrix[1][1] 0.003715 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000029 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.019277 _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] 0.007748 _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 2 SO4 E 1 1002 1002 SO4 SO4 . H 2 SO4 E 1 1003 1003 SO4 SO4 . I 2 SO4 E 1 1006 1006 SO4 SO4 . J 3 229 E 1 9006 9006 229 229 . K 2 SO4 Q 1 1005 1005 SO4 SO4 . L 2 SO4 Q 1 1012 1012 SO4 SO4 . M 2 SO4 Q 1 2001 2001 SO4 SO4 . N 3 229 Q 1 9002 9002 229 229 . O 2 SO4 S 1 1010 1010 SO4 SO4 . P 2 SO4 S 1 1013 1013 SO4 SO4 . Q 2 SO4 S 1 3001 3001 SO4 SO4 . R 3 229 S 1 9005 9005 229 229 . S 2 SO4 T 1 1007 1007 SO4 SO4 . T 2 SO4 T 1 5001 5001 SO4 SO4 . U 3 229 T 1 9004 9004 229 229 . V 2 SO4 U 1 1008 1008 SO4 SO4 . W 2 SO4 U 1 1009 1009 SO4 SO4 . X 2 SO4 U 1 4001 4001 SO4 SO4 . Y 3 229 U 1 9003 9003 229 229 . Z 2 SO4 Y 1 1001 1001 SO4 SO4 . AA 2 SO4 Y 1 1004 1004 SO4 SO4 . BA 3 229 Y 1 9001 9001 229 229 . CA 4 HOH E 1 290 290 HOH HOH . CA 4 HOH E 2 291 291 HOH HOH . CA 4 HOH E 3 292 292 HOH HOH . CA 4 HOH E 4 293 293 HOH HOH . CA 4 HOH E 5 294 294 HOH HOH . CA 4 HOH E 6 295 295 HOH HOH . CA 4 HOH E 7 296 296 HOH HOH . CA 4 HOH E 8 297 297 HOH HOH . CA 4 HOH E 9 298 298 HOH HOH . CA 4 HOH E 10 299 299 HOH HOH . CA 4 HOH E 11 300 300 HOH HOH . CA 4 HOH E 12 301 301 HOH HOH . CA 4 HOH E 13 302 302 HOH HOH . CA 4 HOH E 14 303 303 HOH HOH . CA 4 HOH E 15 304 304 HOH HOH . CA 4 HOH E 16 305 305 HOH HOH . CA 4 HOH E 17 306 306 HOH HOH . CA 4 HOH E 18 307 307 HOH HOH . CA 4 HOH E 19 308 308 HOH HOH . CA 4 HOH E 20 309 309 HOH HOH . CA 4 HOH E 21 310 310 HOH HOH . CA 4 HOH E 22 311 311 HOH HOH . CA 4 HOH E 23 312 312 HOH HOH . CA 4 HOH E 24 313 313 HOH HOH . CA 4 HOH E 25 315 315 HOH HOH . DA 4 HOH Q 1 290 290 HOH HOH . DA 4 HOH Q 2 291 291 HOH HOH . DA 4 HOH Q 3 292 292 HOH HOH . DA 4 HOH Q 4 293 293 HOH HOH . DA 4 HOH Q 5 294 294 HOH HOH . DA 4 HOH Q 6 295 295 HOH HOH . DA 4 HOH Q 7 296 296 HOH HOH . DA 4 HOH Q 8 297 297 HOH HOH . DA 4 HOH Q 9 298 298 HOH HOH . DA 4 HOH Q 10 299 299 HOH HOH . DA 4 HOH Q 11 300 300 HOH HOH . DA 4 HOH Q 12 301 301 HOH HOH . DA 4 HOH Q 13 302 302 HOH HOH . DA 4 HOH Q 14 303 303 HOH HOH . DA 4 HOH Q 15 304 304 HOH HOH . DA 4 HOH Q 16 305 305 HOH HOH . DA 4 HOH Q 17 306 306 HOH HOH . DA 4 HOH Q 18 307 307 HOH HOH . DA 4 HOH Q 19 308 308 HOH HOH . DA 4 HOH Q 20 309 309 HOH HOH . DA 4 HOH Q 21 310 310 HOH HOH . DA 4 HOH Q 22 311 311 HOH HOH . DA 4 HOH Q 23 312 312 HOH HOH . DA 4 HOH Q 24 313 313 HOH HOH . DA 4 HOH Q 25 314 314 HOH HOH . DA 4 HOH Q 26 315 315 HOH HOH . DA 4 HOH Q 27 316 316 HOH HOH . DA 4 HOH Q 28 317 317 HOH HOH . DA 4 HOH Q 29 318 318 HOH HOH . DA 4 HOH Q 30 319 319 HOH HOH . DA 4 HOH Q 31 320 320 HOH HOH . EA 4 HOH S 1 290 290 HOH HOH . EA 4 HOH S 2 291 291 HOH HOH . EA 4 HOH S 3 292 292 HOH HOH . EA 4 HOH S 4 293 293 HOH HOH . EA 4 HOH S 5 294 294 HOH HOH . EA 4 HOH S 6 295 295 HOH HOH . EA 4 HOH S 7 296 296 HOH HOH . EA 4 HOH S 8 297 297 HOH HOH . EA 4 HOH S 9 298 298 HOH HOH . EA 4 HOH S 10 299 299 HOH HOH . EA 4 HOH S 11 300 300 HOH HOH . EA 4 HOH S 12 301 301 HOH HOH . EA 4 HOH S 13 302 302 HOH HOH . EA 4 HOH S 14 303 303 HOH HOH . EA 4 HOH S 15 304 304 HOH HOH . EA 4 HOH S 16 305 305 HOH HOH . EA 4 HOH S 17 306 306 HOH HOH . EA 4 HOH S 18 307 307 HOH HOH . EA 4 HOH S 19 308 308 HOH HOH . EA 4 HOH S 20 309 309 HOH HOH . EA 4 HOH S 21 310 310 HOH HOH . EA 4 HOH S 22 311 311 HOH HOH . EA 4 HOH S 23 312 312 HOH HOH . EA 4 HOH S 24 313 313 HOH HOH . EA 4 HOH S 25 314 314 HOH HOH . EA 4 HOH S 26 315 315 HOH HOH . EA 4 HOH S 27 316 316 HOH HOH . EA 4 HOH S 28 317 317 HOH HOH . FA 4 HOH T 1 290 290 HOH HOH . FA 4 HOH T 2 291 291 HOH HOH . FA 4 HOH T 3 292 292 HOH HOH . FA 4 HOH T 4 293 293 HOH HOH . FA 4 HOH T 5 294 294 HOH HOH . FA 4 HOH T 6 295 295 HOH HOH . FA 4 HOH T 7 296 296 HOH HOH . FA 4 HOH T 8 297 297 HOH HOH . FA 4 HOH T 9 298 298 HOH HOH . FA 4 HOH T 10 299 299 HOH HOH . FA 4 HOH T 11 300 300 HOH HOH . FA 4 HOH T 12 301 301 HOH HOH . FA 4 HOH T 13 302 302 HOH HOH . FA 4 HOH T 14 303 303 HOH HOH . FA 4 HOH T 15 304 304 HOH HOH . FA 4 HOH T 16 305 305 HOH HOH . GA 4 HOH U 1 290 290 HOH HOH . GA 4 HOH U 2 291 291 HOH HOH . GA 4 HOH U 3 292 292 HOH HOH . GA 4 HOH U 4 293 293 HOH HOH . GA 4 HOH U 5 294 294 HOH HOH . GA 4 HOH U 6 295 295 HOH HOH . GA 4 HOH U 7 296 296 HOH HOH . GA 4 HOH U 8 297 297 HOH HOH . GA 4 HOH U 9 298 298 HOH HOH . GA 4 HOH U 10 299 299 HOH HOH . GA 4 HOH U 11 300 300 HOH HOH . GA 4 HOH U 12 301 301 HOH HOH . GA 4 HOH U 13 302 302 HOH HOH . GA 4 HOH U 14 303 303 HOH HOH . GA 4 HOH U 15 304 304 HOH HOH . GA 4 HOH U 16 305 305 HOH HOH . HA 4 HOH Y 1 290 290 HOH HOH . HA 4 HOH Y 2 291 291 HOH HOH . HA 4 HOH Y 3 292 292 HOH HOH . HA 4 HOH Y 4 293 293 HOH HOH . HA 4 HOH Y 5 294 294 HOH HOH . HA 4 HOH Y 6 295 295 HOH HOH . HA 4 HOH Y 7 296 296 HOH HOH . HA 4 HOH Y 8 297 297 HOH HOH . HA 4 HOH Y 9 298 298 HOH HOH . HA 4 HOH Y 10 299 299 HOH HOH . HA 4 HOH Y 11 300 300 HOH HOH . HA 4 HOH Y 12 301 301 HOH HOH . HA 4 HOH Y 13 302 302 HOH HOH . HA 4 HOH Y 14 303 303 HOH HOH . HA 4 HOH Y 15 304 304 HOH HOH . HA 4 HOH Y 16 305 305 HOH HOH . HA 4 HOH Y 17 306 306 HOH HOH . HA 4 HOH Y 18 307 307 HOH HOH . HA 4 HOH Y 19 308 308 HOH HOH . HA 4 HOH Y 20 309 309 HOH HOH . HA 4 HOH Y 21 310 310 HOH HOH . HA 4 HOH Y 22 311 311 HOH HOH . HA 4 HOH Y 23 312 312 HOH HOH . HA 4 HOH Y 24 313 313 HOH HOH . HA 4 HOH Y 25 314 314 HOH HOH . HA 4 HOH Y 26 315 315 HOH HOH . HA 4 HOH Y 27 316 316 HOH HOH . HA 4 HOH Y 28 317 317 HOH HOH . HA 4 HOH Y 29 318 318 HOH HOH . HA 4 HOH Y 30 319 319 HOH HOH . HA 4 HOH Y 31 320 320 HOH HOH . HA 4 HOH Y 32 321 321 HOH HOH . HA 4 HOH Y 33 322 322 HOH HOH . HA 4 HOH Y 34 323 323 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 O4 229 . . . R 3 21.516 18.749 -63.868 1 45.41 ? O4 229 9005 S 1 HETATM 2 C C11 229 . . . R 3 22.596 19.715 -63.889 1 41.92 ? C11 229 9005 S 1 HETATM 3 C C6 229 . . . R 3 22.46 20.595 -62.658 1 41.28 ? C6 229 9005 S 1 HETATM 4 O O3 229 . . . R 3 21.194 21.273 -62.685 1 38.99 ? O3 229 9005 S 1 HETATM 5 C C8 229 . . . R 3 22.491 19.777 -61.382 1 40.91 ? C8 229 9005 S 1 HETATM 6 C C3 229 . . . R 3 22.127 20.746 -60.274 1 41.35 ? C3 229 9005 S 1 HETATM 7 O O2 229 . . . R 3 22.437 20.166 -59.012 1 42.26 ? O2 229 9005 S 1 HETATM 8 N N2 229 . . . R 3 21.543 18.675 -61.432 1 39.07 ? N2 229 9005 S 1 HETATM 9 C C10 229 . . . R 3 21.716 17.533 -60.546 1 39.95 ? C10 229 9005 S 1 HETATM 10 C C4 229 . . . R 3 22.431 16.443 -61.3 1 39.98 ? C4 229 9005 S 1 HETATM 11 C C1 229 . . . R 3 23.882 16.31 -61.524 1 40.53 ? C1 229 9005 S 1 HETATM 12 N N4 229 . . . R 3 24.93 17.086 -61.129 1 41.09 ? N4 229 9005 S 1 HETATM 13 C C7 229 . . . R 3 26.179 16.706 -61.477 1 40.72 ? C7 229 9005 S 1 HETATM 14 N N3 229 . . . R 3 26.424 15.592 -62.212 1 41.85 ? N3 229 9005 S 1 HETATM 15 C C9 229 . . . R 3 21.863 15.349 -61.962 1 38.12 ? C9 229 9005 S 1 HETATM 16 N N1 229 . . . R 3 22.824 14.586 -62.556 1 39.17 ? N1 229 9005 S 1 HETATM 17 C C2 229 . . . R 3 24.046 15.09 -62.319 1 39.79 ? C2 229 9005 S 1 HETATM 18 C C5 229 . . . R 3 25.444 14.763 -62.662 1 41.15 ? C5 229 9005 S 1 HETATM 19 O O1 229 . . . R 3 25.694 13.751 -63.349 1 41.1 ? O1 229 9005 S 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 218 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 19 #