data_7W0J # _model_server_result.job_id XPwKvKtPeAhvkrff0vR4Gw _model_server_result.datetime_utc '2024-12-27 18:53:33' _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 7w0j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":401}' # _entry.id 7W0J # _exptl.entry_id 7W0J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 560.347 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4S)-5-azanyl-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate' _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90.19 _cell.angle_beta 91.93 _cell.angle_gamma 112.09 _cell.entry_id 7W0J _cell.length_a 85.124 _cell.length_b 88.908 _cell.length_c 97.178 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7W0J _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 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 tetrameric 4 author_and_software_defined_assembly 1 PISA tetrameric 4 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,C,D 1 1 E,F,G,H,I,J,K 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 I N N ? 2 J N N ? 2 K N N # _chem_comp.formula 'C15 H26 N6 O13 P2' _chem_comp.formula_weight 560.347 _chem_comp.id 875 _chem_comp.mon_nstd_flag . _chem_comp.name '[[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-oxidanyl-phosphoryl] [(2R,3S,4S)-5-azanyl-2,3,4-tris(oxidanyl)pentyl] hydrogen phosphate' _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 N10 C1' 875 sing 1 n n C1' C2' 875 sing 2 n n O3' C3' 875 sing 3 n n O1P P 875 doub 4 n n C3' C2' 875 sing 5 n n C3' C4' 875 sing 6 n n C2' O2' 875 sing 7 n n O5' P 875 sing 8 n n O5' C5' 875 sing 9 n n P O2P 875 sing 10 n n P O3P 875 sing 11 n n C4' C5' 875 sing 12 n n C4' O4' 875 sing 13 n n O5B C5B 875 sing 14 n n O5B PA 875 sing 15 n n O3P PA 875 sing 16 n n O3B C3B 875 sing 17 n n C5B C4B 875 sing 18 n n C3B C4B 875 sing 19 n n C3B C2B 875 sing 20 n n O2A PA 875 doub 21 n n C4B O4B 875 sing 22 n n PA O1A 875 sing 23 n n C2B O2B 875 sing 24 n n C2B C1B 875 sing 25 n n O4B C1B 875 sing 26 n n C1B N9A 875 sing 27 n n N9A C8A 875 sing 28 n y N9A C4A 875 sing 29 n y C8A N7A 875 doub 30 n y C4A N3A 875 doub 31 n y C4A C5A 875 sing 32 n y N3A C2A 875 sing 33 n y N7A C5A 875 sing 34 n y C5A C6A 875 doub 35 n y C2A N1A 875 doub 36 n y C6A N1A 875 sing 37 n y C6A N6A 875 sing 38 n n O1A H1 875 sing 39 n n C5B H2 875 sing 40 n n C5B H3 875 sing 41 n n C4B H4 875 sing 42 n n C3B H5 875 sing 43 n n O3B H6 875 sing 44 n n C2B H7 875 sing 45 n n O2B H8 875 sing 46 n n C1B H9 875 sing 47 n n C8A H10 875 sing 48 n n N6A H11 875 sing 49 n n N6A H12 875 sing 50 n n C2A H13 875 sing 51 n n N10 H14 875 sing 52 n n N10 H15 875 sing 53 n n C1' H17 875 sing 54 n n C1' H18 875 sing 55 n n C2' H19 875 sing 56 n n O2' H20 875 sing 57 n n C3' H21 875 sing 58 n n O3' H22 875 sing 59 n n C4' H23 875 sing 60 n n O4' H24 875 sing 61 n n C5' H25 875 sing 62 n n C5' H26 875 sing 63 n n O2P H27 875 sing 64 n n # _atom_sites.entry_id 7W0J _atom_sites.fract_transf_matrix[1][1] 0.011748 _atom_sites.fract_transf_matrix[1][2] 0.004767 _atom_sites.fract_transf_matrix[1][3] 0.000477 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012138 _atom_sites.fract_transf_matrix[2][3] 0.000209 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.010298 _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 I 2 875 E 1 401 401 875 FDA . J 2 875 E 1 402 401 875 FDA . K 2 875 H 1 401 401 875 FDA . # 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 PA 875 . . . I 2 -57.783 -49.823 41.583 0.64 103.9 ? PA 875 401 E 1 HETATM 2 O O1A 875 . . . I 2 -57.959 -48.609 40.729 0.64 86.78 -1 O1A 875 401 E 1 HETATM 3 O O2A 875 . . . I 2 -58.695 -50.979 41.34 0.64 88.73 ? O2A 875 401 E 1 HETATM 4 O O5B 875 . . . I 2 -56.274 -50.313 41.434 0.64 81.03 ? O5B 875 401 E 1 HETATM 5 C C5B 875 . . . I 2 -55.85 -50.37 40.055 0.64 69.35 ? C5B 875 401 E 1 HETATM 6 C C4B 875 . . . I 2 -54.547 -49.628 39.938 0.64 65.21 ? C4B 875 401 E 1 HETATM 7 O O4B 875 . . . I 2 -54.437 -49.064 38.608 0.64 68.9 ? O4B 875 401 E 1 HETATM 8 C C3B 875 . . . I 2 -54.434 -48.409 40.856 0.64 61.05 ? C3B 875 401 E 1 HETATM 9 O O3B 875 . . . I 2 -53.088 -47.985 40.973 0.64 56.35 ? O3B 875 401 E 1 HETATM 10 C C2B 875 . . . I 2 -55.201 -47.355 40.058 0.64 64.65 ? C2B 875 401 E 1 HETATM 11 O O2B 875 . . . I 2 -54.801 -46.037 40.353 0.64 68.91 ? O2B 875 401 E 1 HETATM 12 C C1B 875 . . . I 2 -54.904 -47.733 38.61 0.64 63.85 ? C1B 875 401 E 1 HETATM 13 N N9A 875 . . . I 2 -56.064 -47.611 37.734 0.64 62.95 ? N9A 875 401 E 1 HETATM 14 C C8A 875 . . . I 2 -57.199 -48.377 37.722 0.64 69.82 ? C8A 875 401 E 1 HETATM 15 N N7A 875 . . . I 2 -58.058 -47.993 36.806 0.64 76.27 ? N7A 875 401 E 1 HETATM 16 C C5A 875 . . . I 2 -57.448 -46.916 36.175 0.64 64.89 ? C5A 875 401 E 1 HETATM 17 C C6A 875 . . . I 2 -57.846 -46.076 35.117 0.64 59.59 ? C6A 875 401 E 1 HETATM 18 N N6A 875 . . . I 2 -59.008 -46.185 34.472 0.64 60.2 ? N6A 875 401 E 1 HETATM 19 N N1A 875 . . . I 2 -56.982 -45.102 34.746 0.64 56.63 ? N1A 875 401 E 1 HETATM 20 C C2A 875 . . . I 2 -55.814 -44.995 35.394 0.64 58.77 ? C2A 875 401 E 1 HETATM 21 N N3A 875 . . . I 2 -55.341 -45.721 36.402 0.64 57.44 ? N3A 875 401 E 1 HETATM 22 C C4A 875 . . . I 2 -56.217 -46.677 36.745 0.64 61.14 ? C4A 875 401 E 1 HETATM 23 N N10 875 . . . I 2 -58.875 -47.119 51.726 0.64 70.27 ? N10 875 401 E 1 HETATM 24 C C1' 875 . . . I 2 -59.207 -47.865 50.48 0.64 71.69 ? C1' 875 401 E 1 HETATM 25 C C2' 875 . . . I 2 -59.478 -46.955 49.282 0.64 67.49 ? C2' 875 401 E 1 HETATM 26 O O2' 875 . . . I 2 -60.629 -46.155 49.532 0.64 73 ? O2' 875 401 E 1 HETATM 27 C C3' 875 . . . I 2 -59.693 -47.752 47.989 0.64 76.62 ? C3' 875 401 E 1 HETATM 28 O O3' 875 . . . I 2 -58.577 -48.61 47.788 0.64 76.86 ? O3' 875 401 E 1 HETATM 29 C C4' 875 . . . I 2 -59.883 -46.908 46.724 0.64 82.38 ? C4' 875 401 E 1 HETATM 30 O O4' 875 . . . I 2 -61.006 -46.026 46.877 0.64 74.2 ? O4' 875 401 E 1 HETATM 31 C C5' 875 . . . I 2 -60.017 -47.751 45.469 0.64 81.04 ? C5' 875 401 E 1 HETATM 32 O O5' 875 . . . I 2 -59.031 -48.84 45.359 0.64 82.46 ? O5' 875 401 E 1 HETATM 33 P P 875 . . . I 2 -59.092 -49.861 44.107 0.64 106.33 ? P 875 401 E 1 HETATM 34 O O1P 875 . . . I 2 -58.859 -51.274 44.5 0.64 84.96 -1 O1P 875 401 E 1 HETATM 35 O O2P 875 . . . I 2 -60.35 -49.69 43.35 0.64 99.72 ? O2P 875 401 E 1 HETATM 36 O O3P 875 . . . I 2 -57.888 -49.437 43.139 0.64 94.29 ? O3P 875 401 E 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 30 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 36 #