data_4B8L # _model_server_result.job_id swPjZoMigi-5BQFN_beaXA _model_server_result.datetime_utc '2024-12-26 13:38:11' _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 4b8l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1352}' # _entry.id 4B8L # _exptl.entry_id 4B8L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 9-{5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonoamino)phosphoryl]oxy}phosphoryl]-alpha-L-arabinofuranosyl}-9H-purin-6-amine _entity.pdbx_number_of_molecules 1 _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 4B8L _cell.length_a 60.896 _cell.length_b 66.314 _cell.length_c 89.562 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4B8L _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 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 _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id A0P _chem_comp.mon_nstd_flag . _chem_comp.name 9-{5-O-[(R)-hydroxy{[(R)-hydroxy(phosphonoamino)phosphoryl]oxy}phosphoryl]-alpha-L-arabinofuranosyl}-9H-purin-6-amine _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 C2 N1 A0P doub 1 n y C6 N1 A0P sing 2 n y N3 C2 A0P sing 3 n y C2 H2 A0P sing 4 n n C4 N3 A0P doub 5 n y N9 C4 A0P sing 6 n y C4 C5 A0P sing 7 n y N7 C5 A0P sing 8 n y C5 C6 A0P doub 9 n y C6 N6 A0P sing 10 n n N6 HN6 A0P sing 11 n n N6 HN6A A0P sing 12 n n C8 N7 A0P doub 13 n y N9 C8 A0P sing 14 n y C8 H8 A0P sing 15 n n C1' N9 A0P sing 16 n n O3A PA A0P sing 17 n n O5' PA A0P sing 18 n n PA O1A A0P doub 19 n n PA O2A A0P sing 20 n n O2B PB A0P doub 21 n n PB N3B A0P sing 22 n n PB O1B A0P sing 23 n n PB O3A A0P sing 24 n n O3G PG A0P doub 25 n n PG O2G A0P sing 26 n n PG O1G A0P sing 27 n n PG N3B A0P sing 28 n n O4' C1' A0P sing 29 n n C1' C2' A0P sing 30 n n C1' H1' A0P sing 31 n n O1B HO1B A0P sing 32 n n O1G HO1G A0P sing 33 n n C3' C2' A0P sing 34 n n O2' C2' A0P sing 35 n n C2' H2' A0P sing 36 n n O2' HO2' A0P sing 37 n n O2A HO2A A0P sing 38 n n O2G HO2G A0P sing 39 n n C4' C3' A0P sing 40 n n C3' O3' A0P sing 41 n n C3' H3' A0P sing 42 n n O3' HO3' A0P sing 43 n n N3B HN3B A0P sing 44 n n C5' C4' A0P sing 45 n n C4' O4' A0P sing 46 n n C4' H4' A0P sing 47 n n C5' O5' A0P sing 48 n n C5' H5' A0P sing 49 n n C5' "H5'A" A0P sing 50 n n # _atom_sites.entry_id 4B8L _atom_sites.fract_transf_matrix[1][1] 0.016421 _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] 0.01508 _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] 0.011165 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id C _pdbx_nonpoly_scheme.entity_id 3 _pdbx_nonpoly_scheme.mon_id A0P _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 1352 _pdbx_nonpoly_scheme.auth_seq_num 1352 _pdbx_nonpoly_scheme.pdb_mon_id A0P _pdbx_nonpoly_scheme.auth_mon_id A0P _pdbx_nonpoly_scheme.pdb_ins_code . # 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 N N1 A0P . . . C 3 16.34 14.715 24.263 1 59.03 ? N1 A0P 1352 A 1 HETATM 2 C C2 A0P . . . C 3 16.823 13.744 25.059 1 59.06 ? C2 A0P 1352 A 1 HETATM 3 N N3 A0P . . . C 3 18.114 13.357 25.074 1 59.09 ? N3 A0P 1352 A 1 HETATM 4 C C4 A0P . . . C 3 19.025 13.94 24.258 1 59.06 ? C4 A0P 1352 A 1 HETATM 5 C C5 A0P . . . C 3 18.568 15.009 23.354 1 58.93 ? C5 A0P 1352 A 1 HETATM 6 C C6 A0P . . . C 3 17.136 15.381 23.399 1 58.99 ? C6 A0P 1352 A 1 HETATM 7 N N6 A0P . . . C 3 16.647 16.357 22.596 1 59.02 ? N6 A0P 1352 A 1 HETATM 8 N N7 A0P . . . C 3 19.64 15.417 22.658 1 58.83 ? N7 A0P 1352 A 1 HETATM 9 C C8 A0P . . . C 3 20.692 14.677 23.08 1 58.99 ? C8 A0P 1352 A 1 HETATM 10 N N9 A0P . . . C 3 20.334 13.787 24.027 1 59.19 ? N9 A0P 1352 A 1 HETATM 11 P PA A0P . . . C 3 24.476 14.849 21.387 1 64.64 ? PA A0P 1352 A 1 HETATM 12 P PB A0P . . . C 3 26.472 15.937 19.744 1 66.85 ? PB A0P 1352 A 1 HETATM 13 P PG A0P . . . C 3 27.704 13.704 18.157 0.5 67.04 ? PG A0P 1352 A 1 HETATM 14 C C1' A0P . . . C 3 21.276 12.848 24.698 1 59.41 ? C1' A0P 1352 A 1 HETATM 15 O O1A A0P . . . C 3 24.543 13.756 20.347 1 64.71 ? O1A A0P 1352 A 1 HETATM 16 O O1B A0P . . . C 3 27.206 17.262 19.715 1 66.66 ? O1B A0P 1352 A 1 HETATM 17 O O1G A0P . . . C 3 27.998 14.704 17.063 0.5 66.98 ? O1G A0P 1352 A 1 HETATM 18 C C2' A0P . . . C 3 21.23 11.427 24.153 1 59.85 ? C2' A0P 1352 A 1 HETATM 19 O O2' A0P . . . C 3 21.24 10.5 25.238 1 59.74 ? O2' A0P 1352 A 1 HETATM 20 O O2A A0P . . . C 3 23.247 15.715 21.495 1 64.52 ? O2A A0P 1352 A 1 HETATM 21 O O2B A0P . . . C 3 25.414 15.675 18.691 1 66.64 ? O2B A0P 1352 A 1 HETATM 22 O O2G A0P . . . C 3 28.81 12.7 18.387 0.5 66.99 ? O2G A0P 1352 A 1 HETATM 23 C C3' A0P . . . C 3 22.506 11.256 23.354 1 60.32 ? C3' A0P 1352 A 1 HETATM 24 O O3' A0P . . . C 3 22.231 10.686 22.072 1 60.47 ? O3' A0P 1352 A 1 HETATM 25 O O3A A0P . . . C 3 25.751 15.815 21.183 1 65.71 ? O3A A0P 1352 A 1 HETATM 26 N N3B A0P . . . C 3 27.655 14.653 19.625 1 66.86 ? N3B A0P 1352 A 1 HETATM 27 O O3G A0P . . . C 3 26.324 13.095 18.071 0.5 67.03 ? O3G A0P 1352 A 1 HETATM 28 C C4' A0P . . . C 3 23.018 12.676 23.218 1 60.83 ? C4' A0P 1352 A 1 HETATM 29 O O4' A0P . . . C 3 22.588 13.323 24.411 1 60.17 ? O4' A0P 1352 A 1 HETATM 30 C C5' A0P . . . C 3 24.52 12.81 23.067 1 62.1 ? C5' A0P 1352 A 1 HETATM 31 O O5' A0P . . . C 3 24.773 14.193 22.829 1 63.72 ? O5' A0P 1352 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 341 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 31 #