data_1NF7 # _model_server_result.job_id Pz6Vyi8YSs3hP1YbuksCoA _model_server_result.datetime_utc '2024-12-02 18:32:53' _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 1nf7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":701}' # _entry.id 1NF7 # _exptl.entry_id 1NF7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 645.45 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '{[5-(6-AMINO-PURIN-7-YL)-3,4-DIHYDROXY-TETRAHYDRO-FURAN-2-YLMETHOXY]-HYDROXY-PHOSPHORYLMETHYL}-PHOSPHONIC ACID MONO-[2-(4-HYDROXY-6-METHOXY-7-METHYL-3-OXO-1,3-DIHYDRO-ISOBENZOFURAN-5-YL)-ETHYL] ESTER' _entity.pdbx_number_of_molecules 2 _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 1NF7 _cell.length_a 146.58 _cell.length_b 146.58 _cell.length_c 128.92 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NF7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 79 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 4' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,T 1 1,2,3,4 B,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,U 2 1,2,3,4 # 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_665 -x+1,-y+1,z -1 0 0 0 -1 0 0 0 1 146.58 146.58 0 3 'crystal symmetry operation' 3_655 -y+1,x,z 0 -1 0 1 0 0 0 0 1 146.58 0 0 4 'crystal symmetry operation' 4_565 y,-x+1,z 0 1 0 -1 0 0 0 0 1 0 146.58 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 H N N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order metalc ? metalc1 A O GLY 328 A GLY 328 1_555 C K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.902 ? metalc ? metalc2 A O CYS 331 A CYS 331 1_555 C K K . A K 902 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.748 ? metalc ? metalc3 B O GLY 328 B GLY 328 1_555 F K K . B K 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.955 ? metalc ? metalc4 B O CYS 331 B CYS 331 1_555 F K K . B K 901 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.799 ? # _chem_comp.formula 'C23 H29 N5 O13 P2' _chem_comp.formula_weight 645.45 _chem_comp.id MYD _chem_comp.mon_nstd_flag . _chem_comp.name '{[5-(6-AMINO-PURIN-7-YL)-3,4-DIHYDROXY-TETRAHYDRO-FURAN-2-YLMETHOXY]-HYDROXY-PHOSPHORYLMETHYL}-PHOSPHONIC ACID MONO-[2-(4-HYDROXY-6-METHOXY-7-METHYL-3-OXO-1,3-DIHYDRO-ISOBENZOFURAN-5-YL)-ETHYL] ESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'C2-MYCOPHENOLIC ADENINE DINUCLEOTIDE' # 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 C53 O51 MYD sing 237 n n C53 H531 MYD sing 238 n n C53 H532 MYD sing 239 n n C53 H533 MYD sing 240 n n O51 C46 MYD sing 241 n n C46 C47 MYD doub 242 n y C46 C39 MYD sing 243 n y C47 C52 MYD sing 244 n n C47 C48 MYD sing 245 n y C52 H521 MYD sing 246 n n C52 H522 MYD sing 247 n n C52 H523 MYD sing 248 n n C48 C49 MYD sing 249 n n C48 C41 MYD doub 250 n y C49 O50 MYD sing 251 n n C49 H491 MYD sing 252 n n C49 H492 MYD sing 253 n n O50 C42 MYD sing 254 n n C42 O43 MYD doub 255 n n C42 C41 MYD sing 256 n n C41 C40 MYD sing 257 n y C40 O31 MYD sing 258 n n C40 C39 MYD doub 259 n y O31 H31 MYD sing 260 n n C39 C38 MYD sing 261 n n C38 C37 MYD sing 262 n n C38 H381 MYD sing 263 n n C38 H382 MYD sing 264 n n C37 O36 MYD sing 265 n n C37 H371 MYD sing 266 n n C37 H372 MYD sing 267 n n O36 P35 MYD sing 268 n n P35 O45 MYD sing 269 n n P35 O30 MYD doub 270 n n P35 C34 MYD sing 271 n n O45 H45 MYD sing 272 n n C34 P33 MYD sing 273 n n C34 H341 MYD sing 274 n n C34 H342 MYD sing 275 n n P33 O44 MYD sing 276 n n P33 O29 MYD doub 277 n n P33 O32 MYD sing 278 n n O44 H44 MYD sing 279 n n O32 C28 MYD sing 280 n n C28 C27 MYD sing 281 n n C28 H281 MYD sing 282 n n C28 H282 MYD sing 283 n n C27 O24 MYD sing 284 n n C27 C26 MYD sing 285 n n C27 H27 MYD sing 286 n n O24 C23 MYD sing 287 n n C26 O25 MYD sing 288 n n C26 C22 MYD sing 289 n n C26 H26 MYD sing 290 n n O25 H25 MYD sing 291 n n C22 O21 MYD sing 292 n n C22 C23 MYD sing 293 n n C22 H22 MYD sing 294 n n O21 H21 MYD sing 295 n n C23 N20 MYD sing 296 n n C23 H23 MYD sing 297 n n N20 C16 MYD sing 298 n y N20 C19 MYD sing 299 n y C16 N15 MYD doub 300 n y C16 H16 MYD sing 301 n n N15 C14 MYD sing 302 n y C14 C19 MYD doub 303 n y C14 C13 MYD sing 304 n y C19 N18 MYD sing 305 n y N18 C17 MYD doub 306 n y C17 N12 MYD sing 307 n y C17 H17 MYD sing 308 n n N12 C13 MYD doub 309 n y C13 N11 MYD sing 310 n n N11 H111 MYD sing 311 n n N11 H112 MYD sing 312 n n # _atom_sites.entry_id 1NF7 _atom_sites.fract_transf_matrix[1][1] 0.006822 _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] 0.006822 _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] 0.007757 _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 C 2 K A 1 902 902 K K . D 3 RVP A 1 600 600 RVP RMP . E 4 MYD A 1 701 701 MYD MAD . F 2 K B 1 901 901 K K . G 3 RVP B 1 601 601 RVP RMP . H 4 MYD B 1 702 702 MYD MAD . I 5 UNK B 1 801 801 UNK DUM . J 5 UNK B 1 802 802 UNK DUM . K 5 UNK B 1 803 803 UNK DUM . L 5 UNK B 1 804 804 UNK DUM . M 5 UNK B 1 805 805 UNK DUM . N 5 UNK B 1 806 806 UNK DUM . O 5 UNK B 1 807 807 UNK DUM . P 5 UNK B 1 808 808 UNK DUM . Q 5 UNK B 1 809 809 UNK DUM . R 5 UNK B 1 810 810 UNK DUM . S 5 UNK B 1 811 811 UNK DUM . T 6 HOH A 1 903 1 HOH HOH . T 6 HOH A 2 904 2 HOH HOH . T 6 HOH A 3 905 3 HOH HOH . T 6 HOH A 4 906 4 HOH HOH . T 6 HOH A 5 907 5 HOH HOH . T 6 HOH A 6 908 6 HOH HOH . T 6 HOH A 7 909 7 HOH HOH . T 6 HOH A 8 910 8 HOH HOH . T 6 HOH A 9 911 9 HOH HOH . T 6 HOH A 10 912 10 HOH HOH . T 6 HOH A 11 913 11 HOH HOH . T 6 HOH A 12 914 12 HOH HOH . T 6 HOH A 13 915 13 HOH HOH . T 6 HOH A 14 916 14 HOH HOH . T 6 HOH A 15 917 15 HOH HOH . T 6 HOH A 16 918 16 HOH HOH . T 6 HOH A 17 919 17 HOH HOH . T 6 HOH A 18 920 18 HOH HOH . T 6 HOH A 19 921 21 HOH HOH . T 6 HOH A 20 922 22 HOH HOH . T 6 HOH A 21 923 23 HOH HOH . T 6 HOH A 22 924 24 HOH HOH . T 6 HOH A 23 925 25 HOH HOH . T 6 HOH A 24 926 26 HOH HOH . T 6 HOH A 25 927 27 HOH HOH . T 6 HOH A 26 928 28 HOH HOH . T 6 HOH A 27 929 61 HOH HOH . T 6 HOH A 28 930 62 HOH HOH . T 6 HOH A 29 931 63 HOH HOH . T 6 HOH A 30 932 64 HOH HOH . T 6 HOH A 31 933 65 HOH HOH . T 6 HOH A 32 934 66 HOH HOH . T 6 HOH A 33 935 67 HOH HOH . T 6 HOH A 34 936 68 HOH HOH . T 6 HOH A 35 937 69 HOH HOH . T 6 HOH A 36 938 70 HOH HOH . T 6 HOH A 37 939 71 HOH HOH . T 6 HOH A 38 940 72 HOH HOH . T 6 HOH A 39 941 73 HOH HOH . T 6 HOH A 40 942 74 HOH HOH . T 6 HOH A 41 943 75 HOH HOH . T 6 HOH A 42 944 90 HOH HOH . T 6 HOH A 43 945 91 HOH HOH . T 6 HOH A 44 946 92 HOH HOH . T 6 HOH A 45 947 93 HOH HOH . T 6 HOH A 46 948 94 HOH HOH . U 6 HOH B 1 902 19 HOH HOH . U 6 HOH B 2 903 20 HOH HOH . U 6 HOH B 3 904 29 HOH HOH . U 6 HOH B 4 905 30 HOH HOH . U 6 HOH B 5 906 31 HOH HOH . U 6 HOH B 6 907 32 HOH HOH . U 6 HOH B 7 908 33 HOH HOH . U 6 HOH B 8 909 34 HOH HOH . U 6 HOH B 9 910 35 HOH HOH . U 6 HOH B 10 911 36 HOH HOH . U 6 HOH B 11 912 37 HOH HOH . U 6 HOH B 12 913 38 HOH HOH . U 6 HOH B 13 914 39 HOH HOH . U 6 HOH B 14 915 40 HOH HOH . U 6 HOH B 15 916 41 HOH HOH . U 6 HOH B 16 917 42 HOH HOH . U 6 HOH B 17 918 43 HOH HOH . U 6 HOH B 18 919 44 HOH HOH . U 6 HOH B 19 920 45 HOH HOH . U 6 HOH B 20 921 46 HOH HOH . U 6 HOH B 21 922 47 HOH HOH . U 6 HOH B 22 923 48 HOH HOH . U 6 HOH B 23 924 49 HOH HOH . U 6 HOH B 24 925 50 HOH HOH . U 6 HOH B 25 926 52 HOH HOH . U 6 HOH B 26 927 53 HOH HOH . U 6 HOH B 27 928 54 HOH HOH . U 6 HOH B 28 929 55 HOH HOH . U 6 HOH B 29 930 56 HOH HOH . U 6 HOH B 30 931 57 HOH HOH . U 6 HOH B 31 932 58 HOH HOH . U 6 HOH B 32 933 59 HOH HOH . U 6 HOH B 33 934 60 HOH HOH . U 6 HOH B 34 935 76 HOH HOH . U 6 HOH B 35 936 77 HOH HOH . U 6 HOH B 36 937 78 HOH HOH . U 6 HOH B 37 938 79 HOH HOH . U 6 HOH B 38 939 80 HOH HOH . U 6 HOH B 39 940 81 HOH HOH . U 6 HOH B 40 941 82 HOH HOH . U 6 HOH B 41 942 83 HOH HOH . U 6 HOH B 42 943 84 HOH HOH . U 6 HOH B 43 944 85 HOH HOH . U 6 HOH B 44 945 86 HOH HOH . U 6 HOH B 45 946 87 HOH HOH . U 6 HOH B 46 947 88 HOH HOH . U 6 HOH B 47 948 89 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 C C53 MYD . . . E 4 55.38 48.039 -3.649 1 58.39 ? C53 MYD 701 A 1 HETATM 2 O O51 MYD . . . E 4 56.716 48.518 -3.795 1 58.38 ? O51 MYD 701 A 1 HETATM 3 C C46 MYD . . . E 4 57.181 49.746 -3.23 1 58.39 ? C46 MYD 701 A 1 HETATM 4 C C47 MYD . . . E 4 58.236 49.703 -2.29 1 58.39 ? C47 MYD 701 A 1 HETATM 5 C C52 MYD . . . E 4 58.855 48.351 -1.909 1 58.38 ? C52 MYD 701 A 1 HETATM 6 C C48 MYD . . . E 4 58.732 50.9 -1.704 1 58.4 ? C48 MYD 701 A 1 HETATM 7 C C49 MYD . . . E 4 59.869 51.115 -0.662 1 58.4 ? C49 MYD 701 A 1 HETATM 8 O O50 MYD . . . E 4 59.832 52.566 -0.512 1 58.41 ? O50 MYD 701 A 1 HETATM 9 C C42 MYD . . . E 4 58.822 53.138 -1.346 1 58.41 ? C42 MYD 701 A 1 HETATM 10 O O43 MYD . . . E 4 58.592 54.363 -1.399 1 58.41 ? O43 MYD 701 A 1 HETATM 11 C C41 MYD . . . E 4 58.145 52.141 -2.071 1 58.4 ? C41 MYD 701 A 1 HETATM 12 C C40 MYD . . . E 4 57.091 52.181 -3.016 1 58.4 ? C40 MYD 701 A 1 HETATM 13 O O31 MYD . . . E 4 56.545 53.393 -3.346 1 58.4 ? O31 MYD 701 A 1 HETATM 14 C C39 MYD . . . E 4 56.586 50.981 -3.615 1 58.4 ? C39 MYD 701 A 1 HETATM 15 C C38 MYD . . . E 4 55.423 51.032 -4.634 1 58.39 ? C38 MYD 701 A 1 HETATM 16 C C37 MYD . . . E 4 54.092 51.195 -3.885 1 58.38 ? C37 MYD 701 A 1 HETATM 17 O O36 MYD . . . E 4 53.778 50.134 -2.967 1 58.38 ? O36 MYD 701 A 1 HETATM 18 P P35 MYD . . . E 4 52.436 50.378 -2.072 1 58.43 ? P35 MYD 701 A 1 HETATM 19 O O45 MYD . . . E 4 51.422 50.624 -3.347 1 58.4 ? O45 MYD 701 A 1 HETATM 20 O O30 MYD . . . E 4 52.606 51.722 -1.456 1 58.41 ? O30 MYD 701 A 1 HETATM 21 C C34 MYD . . . E 4 52.062 49.471 -1.143 1 58.41 ? C34 MYD 701 A 1 HETATM 22 P P33 MYD . . . E 4 51.222 48.507 -1.582 1 58.45 ? P33 MYD 701 A 1 HETATM 23 O O44 MYD . . . E 4 50.928 47.256 -0.526 1 58.38 ? O44 MYD 701 A 1 HETATM 24 O O29 MYD . . . E 4 51.598 47.8 -2.863 1 58.42 ? O29 MYD 701 A 1 HETATM 25 O O32 MYD . . . E 4 49.619 48.965 -1.839 1 58.39 ? O32 MYD 701 A 1 HETATM 26 C C28 MYD . . . E 4 48.903 49.292 -0.654 1 58.4 ? C28 MYD 701 A 1 HETATM 27 C C27 MYD . . . E 4 47.416 49.478 -0.652 1 58.38 ? C27 MYD 701 A 1 HETATM 28 O O24 MYD . . . E 4 46.738 48.304 -1.246 1 58.41 ? O24 MYD 701 A 1 HETATM 29 C C26 MYD . . . E 4 46.832 49.743 0.831 1 58.39 ? C26 MYD 701 A 1 HETATM 30 O O25 MYD . . . E 4 46.945 51.145 0.986 1 58.38 ? O25 MYD 701 A 1 HETATM 31 C C22 MYD . . . E 4 45.362 49.44 0.403 1 58.43 ? C22 MYD 701 A 1 HETATM 32 O O21 MYD . . . E 4 44.7 50.552 -0.321 1 58.41 ? O21 MYD 701 A 1 HETATM 33 C C23 MYD . . . E 4 45.5 48.127 -0.465 1 58.41 ? C23 MYD 701 A 1 HETATM 34 N N20 MYD . . . E 4 45.697 46.941 0.39 1 58.4 ? N20 MYD 701 A 1 HETATM 35 C C16 MYD . . . E 4 46.788 46.336 0.787 1 58.39 ? C16 MYD 701 A 1 HETATM 36 N N15 MYD . . . E 4 46.473 45.146 1.351 1 58.41 ? N15 MYD 701 A 1 HETATM 37 C C14 MYD . . . E 4 45.105 45.025 1.354 1 58.41 ? C14 MYD 701 A 1 HETATM 38 C C19 MYD . . . E 4 44.604 46.162 0.75 1 58.41 ? C19 MYD 701 A 1 HETATM 39 N N18 MYD . . . E 4 43.25 46.3 0.594 1 58.38 ? N18 MYD 701 A 1 HETATM 40 C C17 MYD . . . E 4 42.396 45.396 1.081 1 58.39 ? C17 MYD 701 A 1 HETATM 41 N N12 MYD . . . E 4 42.857 44.323 1.716 1 58.4 ? N12 MYD 701 A 1 HETATM 42 C C13 MYD . . . E 4 44.187 44.108 1.885 1 58.4 ? C13 MYD 701 A 1 HETATM 43 N N11 MYD . . . E 4 44.62 43.055 2.606 1 58.4 ? N11 MYD 701 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 307 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #