data_2YZN # _model_server_result.job_id vGDoPqFLnRh5y4qJHd4oiQ _model_server_result.datetime_utc '2025-07-20 15:20:33' _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 2yzn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":403}' # _entry.id 2YZN # _exptl.entry_id 2YZN _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 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 108.56 _cell.angle_gamma 90 _cell.entry_id 2YZN _cell.length_a 167.72 _cell.length_b 56.708 _cell.length_c 141.826 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2YZN _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,D,E,G,H 1 1 C,F,I 2 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 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 E N N ? 2 F 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 2YZN _atom_sites.fract_transf_matrix[1][1] 0.005962 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002002 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017634 _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] 0.007438 _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 ANP A 1 401 401 ANP ANP . E 2 ANP B 1 402 402 ANP ANP . F 2 ANP C 1 403 403 ANP ANP . G 3 HOH A 1 402 3 HOH TIP . G 3 HOH A 2 403 4 HOH TIP . G 3 HOH A 3 404 5 HOH TIP . G 3 HOH A 4 405 7 HOH TIP . G 3 HOH A 5 406 12 HOH TIP . G 3 HOH A 6 407 15 HOH TIP . G 3 HOH A 7 408 16 HOH TIP . G 3 HOH A 8 409 26 HOH TIP . G 3 HOH A 9 410 33 HOH TIP . G 3 HOH A 10 411 34 HOH TIP . G 3 HOH A 11 412 38 HOH TIP . G 3 HOH A 12 413 41 HOH TIP . G 3 HOH A 13 414 43 HOH TIP . G 3 HOH A 14 415 44 HOH TIP . G 3 HOH A 15 416 54 HOH TIP . G 3 HOH A 16 417 56 HOH TIP . G 3 HOH A 17 418 57 HOH TIP . G 3 HOH A 18 419 60 HOH TIP . G 3 HOH A 19 420 64 HOH TIP . G 3 HOH A 20 421 70 HOH TIP . G 3 HOH A 21 422 72 HOH TIP . G 3 HOH A 22 423 74 HOH TIP . G 3 HOH A 23 424 77 HOH TIP . G 3 HOH A 24 425 79 HOH TIP . H 3 HOH B 1 403 9 HOH TIP . H 3 HOH B 2 404 13 HOH TIP . H 3 HOH B 3 405 18 HOH TIP . H 3 HOH B 4 406 19 HOH TIP . H 3 HOH B 5 407 20 HOH TIP . H 3 HOH B 6 408 25 HOH TIP . H 3 HOH B 7 409 27 HOH TIP . H 3 HOH B 8 410 29 HOH TIP . H 3 HOH B 9 411 30 HOH TIP . H 3 HOH B 10 412 32 HOH TIP . H 3 HOH B 11 413 40 HOH TIP . H 3 HOH B 12 414 47 HOH TIP . H 3 HOH B 13 415 49 HOH TIP . H 3 HOH B 14 416 50 HOH TIP . H 3 HOH B 15 417 62 HOH TIP . H 3 HOH B 16 418 65 HOH TIP . H 3 HOH B 17 419 66 HOH TIP . H 3 HOH B 18 420 67 HOH TIP . H 3 HOH B 19 421 75 HOH TIP . H 3 HOH B 20 422 76 HOH TIP . H 3 HOH B 21 423 78 HOH TIP . H 3 HOH B 22 424 82 HOH TIP . I 3 HOH C 1 404 1 HOH TIP . I 3 HOH C 2 405 6 HOH TIP . I 3 HOH C 3 406 8 HOH TIP . I 3 HOH C 4 407 10 HOH TIP . I 3 HOH C 5 408 11 HOH TIP . I 3 HOH C 6 409 14 HOH TIP . I 3 HOH C 7 410 17 HOH TIP . I 3 HOH C 8 411 21 HOH TIP . I 3 HOH C 9 412 22 HOH TIP . I 3 HOH C 10 413 23 HOH TIP . I 3 HOH C 11 414 24 HOH TIP . I 3 HOH C 12 415 28 HOH TIP . I 3 HOH C 13 416 31 HOH TIP . I 3 HOH C 14 417 35 HOH TIP . I 3 HOH C 15 418 36 HOH TIP . I 3 HOH C 16 419 37 HOH TIP . I 3 HOH C 17 420 39 HOH TIP . I 3 HOH C 18 421 42 HOH TIP . I 3 HOH C 19 422 45 HOH TIP . I 3 HOH C 20 423 46 HOH TIP . I 3 HOH C 21 424 48 HOH TIP . I 3 HOH C 22 425 51 HOH TIP . I 3 HOH C 23 426 52 HOH TIP . I 3 HOH C 24 427 53 HOH TIP . I 3 HOH C 25 428 55 HOH TIP . I 3 HOH C 26 429 58 HOH TIP . I 3 HOH C 27 430 59 HOH TIP . I 3 HOH C 28 431 61 HOH TIP . I 3 HOH C 29 432 63 HOH TIP . I 3 HOH C 30 433 68 HOH TIP . I 3 HOH C 31 434 69 HOH TIP . I 3 HOH C 32 435 71 HOH TIP . I 3 HOH C 33 436 73 HOH TIP . I 3 HOH C 34 437 80 HOH TIP . I 3 HOH C 35 438 81 HOH TIP . # 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 . . . F 2 14.537 1.809 -12.439 1 103.68 ? PG ANP 403 C 1 HETATM 2 O O1G ANP . . . F 2 14.984 3.077 -11.807 1 104.18 ? O1G ANP 403 C 1 HETATM 3 O O2G ANP . . . F 2 14.868 1.863 -14.02 1 102.88 ? O2G ANP 403 C 1 HETATM 4 O O3G ANP . . . F 2 12.951 1.628 -12.24 1 102.99 ? O3G ANP 403 C 1 HETATM 5 P PB ANP . . . F 2 15.193 0.464 -10.037 1 98.23 ? PB ANP 403 C 1 HETATM 6 O O1B ANP . . . F 2 15.76 1.697 -9.443 1 98.65 ? O1B ANP 403 C 1 HETATM 7 O O2B ANP . . . F 2 13.64 0.358 -9.63 1 98.67 ? O2B ANP 403 C 1 HETATM 8 N N3B ANP . . . F 2 15.376 0.49 -11.742 1 100.97 ? N3B ANP 403 C 1 HETATM 9 P PA ANP . . . F 2 15.451 -2.212 -10.058 1 91.03 ? PA ANP 403 C 1 HETATM 10 O O1A ANP . . . F 2 14.728 -2.96 -9.009 1 92.25 ? O1A ANP 403 C 1 HETATM 11 O O2A ANP . . . F 2 14.452 -1.961 -11.3 1 92.22 ? O2A ANP 403 C 1 HETATM 12 O O3A ANP . . . F 2 15.995 -0.811 -9.42 1 95.07 ? O3A ANP 403 C 1 HETATM 13 O O5' ANP . . . F 2 16.7 -3.109 -10.557 1 90.28 ? O5' ANP 403 C 1 HETATM 14 C C5' ANP . . . F 2 17.419 -2.379 -11.565 1 87.08 ? C5' ANP 403 C 1 HETATM 15 C C4' ANP . . . F 2 18.351 -3.327 -12.339 1 85.09 ? C4' ANP 403 C 1 HETATM 16 O O4' ANP . . . F 2 19.08 -4.211 -11.425 1 83.8 ? O4' ANP 403 C 1 HETATM 17 C C3' ANP . . . F 2 17.556 -4.224 -13.298 1 84.8 ? C3' ANP 403 C 1 HETATM 18 O O3' ANP . . . F 2 17.45 -3.629 -14.598 1 84.48 ? O3' ANP 403 C 1 HETATM 19 C C2' ANP . . . F 2 18.33 -5.549 -13.297 1 83.98 ? C2' ANP 403 C 1 HETATM 20 O O2' ANP . . . F 2 19.238 -5.63 -14.394 1 85.15 ? O2' ANP 403 C 1 HETATM 21 C C1' ANP . . . F 2 19.062 -5.582 -11.944 1 83.03 ? C1' ANP 403 C 1 HETATM 22 N N9 ANP . . . F 2 18.372 -6.503 -10.999 1 81.87 ? N9 ANP 403 C 1 HETATM 23 C C8 ANP . . . F 2 17.655 -6.151 -9.878 1 80.45 ? C8 ANP 403 C 1 HETATM 24 N N7 ANP . . . F 2 17.203 -7.212 -9.265 1 79.74 ? N7 ANP 403 C 1 HETATM 25 C C5 ANP . . . F 2 17.59 -8.322 -9.941 1 79.83 ? C5 ANP 403 C 1 HETATM 26 C C6 ANP . . . F 2 17.409 -9.731 -9.767 1 78.72 ? C6 ANP 403 C 1 HETATM 27 N N6 ANP . . . F 2 16.685 -10.221 -8.693 1 76.88 ? N6 ANP 403 C 1 HETATM 28 N N1 ANP . . . F 2 17.959 -10.576 -10.674 1 77.3 ? N1 ANP 403 C 1 HETATM 29 C C2 ANP . . . F 2 18.667 -10.122 -11.725 1 77.88 ? C2 ANP 403 C 1 HETATM 30 N N3 ANP . . . F 2 18.863 -8.812 -11.927 1 78.72 ? N3 ANP 403 C 1 HETATM 31 C C4 ANP . . . F 2 18.35 -7.886 -11.072 1 80.58 ? C4 ANP 403 C 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 403 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 31 #