data_3B60 # _model_server_result.job_id NRYf1Sw-5sgbJ-lu7qQTKA _model_server_result.datetime_utc '2025-03-04 14:08:41' _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 3b60 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":5001}' # _entry.id 3B60 # _exptl.entry_id 3B60 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 506.196 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 120.61 _cell.angle_gamma 90 _cell.entry_id 3B60 _cell.length_a 249.641 _cell.length_b 119.904 _cell.length_c 168.8 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3B60 _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 dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 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,E,F 1 1 C,D,G,H 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 E N N ? 2 F N N ? 2 G N N ? 2 H N N # _chem_comp.formula 'C10 H17 N6 O12 P3' _chem_comp.formula_weight 506.196 _chem_comp.id ANP _chem_comp.mon_nstd_flag . _chem_comp.name 'PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER' _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 PG O1G ANP doub 13 n n PG O2G ANP sing 14 n n PG O3G ANP sing 15 n n PG N3B ANP sing 16 n n O2G HOG2 ANP sing 17 n n O3G HOG3 ANP sing 18 n n PB O1B ANP doub 19 n n PB O2B ANP sing 20 n n PB N3B ANP sing 21 n n PB O3A ANP sing 22 n n O2B HOB2 ANP sing 23 n n N3B HNB1 ANP sing 24 n n PA O1A ANP doub 25 n n PA O2A ANP sing 26 n n PA O3A ANP sing 27 n n PA O5' ANP sing 28 n n O2A HOA2 ANP sing 29 n n O5' C5' ANP sing 30 n n C5' C4' ANP sing 31 n n C5' "H5'1" ANP sing 32 n n C5' "H5'2" ANP sing 33 n n C4' O4' ANP sing 34 n n C4' C3' ANP sing 35 n n C4' H4' ANP sing 36 n n O4' C1' ANP sing 37 n n C3' O3' ANP sing 38 n n C3' C2' ANP sing 39 n n C3' H3' ANP sing 40 n n O3' HO3' ANP sing 41 n n C2' O2' ANP sing 42 n n C2' C1' ANP sing 43 n n C2' H2' ANP sing 44 n n O2' HO2' ANP sing 45 n n C1' N9 ANP sing 46 n n C1' H1' ANP sing 47 n n N9 C8 ANP sing 48 n y N9 C4 ANP sing 49 n y C8 N7 ANP doub 50 n y C8 H8 ANP sing 51 n n N7 C5 ANP sing 52 n y C5 C6 ANP sing 53 n y C5 C4 ANP doub 54 n y C6 N6 ANP sing 55 n n C6 N1 ANP doub 56 n y N6 HN61 ANP sing 57 n n N6 HN62 ANP sing 58 n n N1 C2 ANP sing 59 n y C2 N3 ANP doub 60 n y C2 H2 ANP sing 61 n n N3 C4 ANP sing 62 n y # _atom_sites.entry_id 3B60 _atom_sites.fract_transf_matrix[1][1] 0.004006 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00237 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00834 _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] 0.006883 _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 E 2 ANP A 1 5001 5001 ANP ANP . F 2 ANP B 1 5002 5002 ANP ANP . G 2 ANP C 1 5003 5003 ANP ANP . H 2 ANP D 1 5004 5004 ANP ANP . # 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 PG ANP . . . E 2 93.709 16.201 45.017 1 121.69 ? PG ANP 5001 A 1 HETATM 2 O O1G ANP . . . E 2 94.853 15.634 45.771 1 121.69 ? O1G ANP 5001 A 1 HETATM 3 O O2G ANP . . . E 2 92.648 16.822 45.829 1 121.69 ? O2G ANP 5001 A 1 HETATM 4 O O3G ANP . . . E 2 94.132 16.912 43.767 1 121.69 ? O3G ANP 5001 A 1 HETATM 5 P PB ANP . . . E 2 93.646 13.658 43.968 1 121.69 ? PB ANP 5001 A 1 HETATM 6 O O1B ANP . . . E 2 93.163 13.535 42.587 1 121.69 ? O1B ANP 5001 A 1 HETATM 7 O O2B ANP . . . E 2 95.082 13.729 44.231 1 121.69 ? O2B ANP 5001 A 1 HETATM 8 N N3B ANP . . . E 2 92.953 14.938 44.539 1 121.69 ? N3B ANP 5001 A 1 HETATM 9 P PA ANP . . . E 2 92.25 11.269 44.272 1 121.69 ? PA ANP 5001 A 1 HETATM 10 O O1A ANP . . . E 2 93.329 10.412 43.863 1 121.69 ? O1A ANP 5001 A 1 HETATM 11 O O2A ANP . . . E 2 91.112 11.482 43.383 1 121.69 ? O2A ANP 5001 A 1 HETATM 12 O O3A ANP . . . E 2 92.922 12.583 44.729 1 121.69 ? O3A ANP 5001 A 1 HETATM 13 O O5' ANP . . . E 2 91.74 10.694 45.559 1 121.69 ? O5' ANP 5001 A 1 HETATM 14 C C5' ANP . . . E 2 90.672 11.192 46.338 1 121.69 ? C5' ANP 5001 A 1 HETATM 15 C C4' ANP . . . E 2 89.346 10.685 45.83 1 121.69 ? C4' ANP 5001 A 1 HETATM 16 O O4' ANP . . . E 2 89.36 9.25 45.867 1 121.69 ? O4' ANP 5001 A 1 HETATM 17 C C3' ANP . . . E 2 88.218 11.097 46.701 1 121.69 ? C3' ANP 5001 A 1 HETATM 18 O O3' ANP . . . E 2 86.944 10.93 46.04 1 121.69 ? O3' ANP 5001 A 1 HETATM 19 C C2' ANP . . . E 2 88.418 10.125 47.849 1 121.69 ? C2' ANP 5001 A 1 HETATM 20 O O2' ANP . . . E 2 87.258 9.909 48.628 1 121.69 ? O2' ANP 5001 A 1 HETATM 21 C C1' ANP . . . E 2 88.81 8.782 47.114 1 121.69 ? C1' ANP 5001 A 1 HETATM 22 N N9 ANP . . . E 2 89.889 7.92 47.756 1 121.69 ? N9 ANP 5001 A 1 HETATM 23 C C8 ANP . . . E 2 91.273 8.002 47.652 1 121.69 ? C8 ANP 5001 A 1 HETATM 24 N N7 ANP . . . E 2 91.951 7.112 48.313 1 121.69 ? N7 ANP 5001 A 1 HETATM 25 C C5 ANP . . . E 2 90.954 6.382 48.898 1 121.69 ? C5 ANP 5001 A 1 HETATM 26 C C6 ANP . . . E 2 90.994 5.269 49.741 1 121.69 ? C6 ANP 5001 A 1 HETATM 27 N N6 ANP . . . E 2 92.148 4.752 50.097 1 121.69 ? N6 ANP 5001 A 1 HETATM 28 N N1 ANP . . . E 2 89.823 4.736 50.181 1 121.69 ? N1 ANP 5001 A 1 HETATM 29 C C2 ANP . . . E 2 88.652 5.282 49.802 1 121.69 ? C2 ANP 5001 A 1 HETATM 30 N N3 ANP . . . E 2 88.466 6.341 49.003 1 121.69 ? N3 ANP 5001 A 1 HETATM 31 C C4 ANP . . . E 2 89.686 6.855 48.576 1 121.69 ? C4 ANP 5001 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #