1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Lescrinier, E. Esnouf, R.M. Schraml, J. Busson, R. Herdewijn, P. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.0 90.0 90.0 1.0 1.0 1.0 C10 H16 N3 O7 P 321.224 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(CYTOSIN-1-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking C11 H16 N5 O7 P 361.248 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(GUANIN-9-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking C11 H17 N2 O8 P 336.235 n 1',5'-ANHYDRO-2',3'-DIDEOXY-2'-(THYMIN-1-YL)-6'-O-PHOSPHORYL-D-ARABINO-HEXITOL DNA linking UK Chem.Biol. CBOLE2 2050 1074-5521 7 719 731 10.1016/S1074-5521(00)00017-X 10980452 Solution structure of a HNA-RNA hybrid 2000 US J.Am.Chem.Soc. JACSAT 0004 0002-7863 120 5381 5394 10.1021/ja973721f Minor groove hydration contributes to the relative stability of HNA/RNA hybrids as compared to HNA/DNA complexes 1998 10.2210/pdb1ec4/pdb pdb_00001ec4 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 SINGLE WAVELENGTH M 1 1.0 THE SUGAR MOIETIES ARE NOT DEOXYRIBOSE BUT D-ARABINO-HEXITOL 3813.688 HEXITOL DODECANUCLEOTIDE 2 syn polymer no yes (6HG)(6HC)(6HG)(6HC)(6HT)(6HT)(6HT)(6HT)(6HG)(6HC)(6HG)(6HC) GCGCTTTTGCGC A,B polydeoxyribonucleotide n n n n n n n n n n n n -9.374 1 19 A 1 B 24 3.143 A_6HG1:6HC24_B 1 -7.654 -0.606 -0.347 -0.420 -4.045 1 19 A 2 B 23 -1.528 A_6HC2:6HG23_B 2 -8.578 0.224 -0.014 -0.586 4.332 1 19 A 3 B 22 -1.115 A_6HG3:6HC22_B 3 2.663 -0.150 -0.074 -0.556 8.908 1 19 A 4 B 21 1.038 A_6HC4:6HG21_B 4 10.702 0.399 -0.371 -0.542 4.379 1 16 A 5 B 20 6.663 A_6HT5:6HT20_B 5 0.433 2.267 0.256 -1.981 8.379 1 16 A 6 B 19 13.205 A_6HT6:6HT19_B 6 -0.517 2.586 -0.634 -2.311 -8.620 1 16 A 7 B 18 12.802 A_6HT7:6HT18_B 7 -1.312 -2.583 -0.410 -2.302 -3.466 1 16 A 8 B 17 5.790 A_6HT8:6HT17_B 8 2.720 -2.162 0.298 -1.961 -6.755 1 19 A 9 B 16 -0.224 A_6HG9:6HC16_B 9 9.762 -0.273 -0.409 -0.562 -1.093 1 19 A 10 B 15 1.333 A_6HC10:6HG15_B 10 2.043 0.254 -0.172 -0.466 -1.298 1 19 A 11 B 14 -1.978 A_6HG11:6HC14_B 11 -3.730 -0.240 -0.058 -0.520 12.332 1 19 A 12 B 13 -0.681 A_6HC12:6HG13_B 12 -5.248 0.213 -0.412 -0.360 2.642 32.304 A A 1 2 10.112 B B 24 23 2.999 5.592 -0.514 -2.062 AA_6HG16HC2:6HG236HC24_BB 1 -2.972 5.375 31.694 -4.569 0.465 2.642 30.751 A A 2 3 8.906 B B 23 22 3.005 4.704 -0.023 -2.197 AA_6HC26HG3:6HC226HG23_BB 2 -0.999 1.892 30.382 -4.943 -0.127 3.251 27.109 A A 3 4 -1.353 B B 22 21 3.201 -0.634 0.398 -2.441 AA_6HG36HC4:6HG216HC22_BB 3 -0.357 0.762 27.100 -5.050 -0.938 2.906 40.732 A A 4 5 9.437 B B 21 20 3.334 6.542 0.804 -2.359 AA_6HC46HT5:6HT206HG21_BB 4 -1.215 1.753 40.208 -4.083 -1.284 3.311 26.770 A A 5 6 -4.364 B B 20 19 3.191 -2.012 -0.134 -2.445 AA_6HT56HT6:6HT196HT20_BB 5 3.900 -8.461 26.415 -4.759 1.301 4.065 11.568 A A 6 7 -1.095 B B 19 18 4.033 -0.220 -0.007 -2.896 AA_6HT66HT7:6HT186HT19_BB 6 -1.242 6.173 11.500 -13.988 -2.119 3.191 26.805 A A 7 8 -3.563 B B 18 17 3.075 -1.647 0.084 -2.553 AA_6HT76HT8:6HT176HT18_BB 7 -3.261 7.055 26.559 -5.099 -0.992 2.916 40.484 A A 8 9 8.038 B B 17 16 3.316 5.543 -0.972 -2.332 AA_6HT86HG9:6HC166HT17_BB 8 2.568 -3.725 40.040 -3.964 1.680 3.253 26.326 A A 9 10 -1.351 B B 16 15 3.198 -0.615 -0.038 -2.463 AA_6HG96HC10:6HG156HC16_BB 9 -0.015 0.034 26.319 -5.244 0.080 2.538 29.318 A A 10 11 15.177 B B 15 14 3.273 7.597 -0.460 -2.483 AA_6HC106HG11:6HC146HG15_BB 10 -0.153 0.306 28.337 -6.386 0.878 2.678 29.342 A A 11 12 4.336 B B 14 13 2.830 2.190 0.268 -2.159 AA_6HG116HC12:6HG136HC14_BB 11 3.168 -6.271 29.094 -4.661 0.048 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_conn repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2003-04-22 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-02-16 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_conn.pdbx_leaving_atom_flag RNA duplex; internal loop with two consecutive U:U RNA duplex; internal loop with two consecutive U:U RCSB Y RCSB 2000-01-25 REL structures closest to the average of all refined structures 100 1 2D NOESY DQF-COSY H,P-Hetcor watergate NOESY 7 ambient 293 K 7 ambient 273 K torsion angle dynamics, and 'gentle' refinement 1 closest to the average 2mM HNA; 0.3M NaCl D2O 2mM HNA; 0.3M NaCl 10% D2O, 90% H2O varian collection VNMR 5.3 biosym data analysis Felix 97 A.T. Brunger structure solution X-PLOR 3.851 A.T. Brunger refinement X-PLOR 3.851 500 Varian UNITY 6HG 1 n 1 6HG 1 A 6HC 2 n 2 6HC 2 A 6HG 3 n 3 6HG 3 A 6HC 4 n 4 6HC 4 A 6HT 5 n 5 6HT 5 A 6HT 6 n 6 6HT 6 A 6HT 7 n 7 6HT 7 A 6HT 8 n 8 6HT 8 A 6HG 9 n 9 6HG 9 A 6HC 10 n 10 6HC 10 A 6HG 11 n 11 6HG 11 A 6HC 12 n 12 6HC 12 A 6HG 13 n 1 6HG 13 B 6HC 14 n 2 6HC 14 B 6HG 15 n 3 6HG 15 B 6HC 16 n 4 6HC 16 B 6HT 17 n 5 6HT 17 B 6HT 18 n 6 6HT 18 B 6HT 19 n 7 6HT 19 B 6HT 20 n 8 6HT 20 B 6HG 21 n 9 6HG 21 B 6HC 22 n 10 6HC 22 B 6HG 23 n 11 6HG 23 B 6HC 24 n 12 6HC 24 B author_defined_assembly 2 dimeric A 6HG 1 A 6HG 1 DG A 6HC 2 A 6HC 2 DC A 6HG 3 A 6HG 3 DG A 6HC 4 A 6HC 4 DC A 6HT 5 A 6HT 5 DT A 6HT 6 A 6HT 6 DT A 6HT 7 A 6HT 7 DT A 6HT 8 A 6HT 8 DT A 6HG 9 A 6HG 9 DG A 6HC 10 A 6HC 10 DC A 6HG 11 A 6HG 11 DG A 6HC 12 A 6HC 12 DC B 6HG 13 B 6HG 1 DG B 6HC 14 B 6HC 2 DC B 6HG 15 B 6HG 3 DG B 6HC 16 B 6HC 4 DC B 6HT 17 B 6HT 5 DT B 6HT 18 B 6HT 6 DT B 6HT 19 B 6HT 7 DT B 6HT 20 B 6HT 8 DT B 6HG 21 B 6HG 9 DG B 6HC 22 B 6HC 10 DC B 6HG 23 B 6HG 11 DG B 6HC 24 B 6HC 12 DC 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 1 A B O2 H21 6HC 6HG 10 15 1.38 1 A B H22 O2 6HG 6HC 3 22 1.39 1 A B H21 O2 6HG 6HC 9 16 1.40 1 A B H3 O2 6HT 6HT 7 18 1.41 1 A B O2 H21 6HC 6HG 4 21 1.42 1 A B H42 O6 6HC 6HG 2 23 1.44 1 A B O2 H3 6HT 6HT 6 19 1.46 1 A B O4 H3 6HT 6HT 7 18 1.46 1 A B O6 H42 6HG 6HC 3 22 1.47 1 A B O6 H41 6HG 6HC 11 14 1.48 1 A B H22 O2 6HG 6HC 1 24 1.48 1 A B H21 O2 6HG 6HC 11 14 1.49 1 A B N3 H1 6HC 6HG 2 23 1.49 1 A B H1 N3 6HG 6HC 3 22 1.49 1 A B O2 H21 6HC 6HG 2 23 1.50 1 A B H1 N3 6HG 6HC 9 16 1.50 1 A B N3 H1 6HC 6HG 4 21 1.53 1 A B H3 O4 6HT 6HT 6 19 1.54 1 A B H1 N3 6HG 6HC 11 14 1.55 1 A B N3 H1 6HC 6HG 10 15 1.57 1 A B O2 H21 6HC 6HG 12 13 1.58 SOLUTION STRUCTURE OF A HEXITOL NUCLEIC ACID DUPLEX WITH FOUR CONSECUTIVE T:T BASE PAIRS 1 N N 1 N N covale 1.610 both A 6HG 1 A O3' 6HG 1 1_555 A 6HC 2 A P 6HC 2 1_555 covale 1.609 both A 6HC 2 A O3' 6HC 2 1_555 A 6HG 3 A P 6HG 3 1_555 covale 1.613 both A 6HG 3 A O3' 6HG 3 1_555 A 6HC 4 A P 6HC 4 1_555 covale 1.610 both A 6HC 4 A O3' 6HC 4 1_555 A 6HT 5 A P 6HT 5 1_555 covale 1.612 both A 6HT 5 A O3' 6HT 5 1_555 A 6HT 6 A P 6HT 6 1_555 covale 1.611 both A 6HT 6 A O3' 6HT 6 1_555 A 6HT 7 A P 6HT 7 1_555 covale 1.612 both A 6HT 7 A O3' 6HT 7 1_555 A 6HT 8 A P 6HT 8 1_555 covale 1.607 both A 6HT 8 A O3' 6HT 8 1_555 A 6HG 9 A P 6HG 9 1_555 covale 1.612 both A 6HG 9 A O3' 6HG 9 1_555 A 6HC 10 A P 6HC 10 1_555 covale 1.607 both A 6HC 10 A O3' 6HC 10 1_555 A 6HG 11 A P 6HG 11 1_555 covale 1.612 both A 6HG 11 A O3' 6HG 11 1_555 A 6HC 12 A P 6HC 12 1_555 covale 1.611 both B 6HG 13 B O3' 6HG 1 1_555 B 6HC 14 B P 6HC 2 1_555 covale 1.608 both B 6HC 14 B O3' 6HC 2 1_555 B 6HG 15 B P 6HG 3 1_555 covale 1.611 both B 6HG 15 B O3' 6HG 3 1_555 B 6HC 16 B P 6HC 4 1_555 covale 1.612 both B 6HC 16 B O3' 6HC 4 1_555 B 6HT 17 B P 6HT 5 1_555 covale 1.611 both B 6HT 17 B O3' 6HT 5 1_555 B 6HT 18 B P 6HT 6 1_555 covale 1.610 both B 6HT 18 B O3' 6HT 6 1_555 B 6HT 19 B P 6HT 7 1_555 covale 1.613 both B 6HT 19 B O3' 6HT 7 1_555 B 6HT 20 B P 6HT 8 1_555 covale 1.606 both B 6HT 20 B O3' 6HT 8 1_555 B 6HG 21 B P 6HG 9 1_555 covale 1.612 both B 6HG 21 B O3' 6HG 9 1_555 B 6HC 22 B P 6HC 10 1_555 covale 1.609 both B 6HC 22 B O3' 6HC 10 1_555 B 6HG 23 B P 6HG 11 1_555 covale 1.610 both B 6HG 23 B O3' 6HG 11 1_555 B 6HC 24 B P 6HC 12 1_555 hydrog WATSON-CRICK A 6HG 1 A N1 6HG 1 1_555 B 6HC 24 B N3 6HC 12 1_555 hydrog WATSON-CRICK A 6HG 1 A N2 6HG 1 1_555 B 6HC 24 B O2 6HC 12 1_555 hydrog WATSON-CRICK A 6HG 1 A O6 6HG 1 1_555 B 6HC 24 B N4 6HC 12 1_555 hydrog WATSON-CRICK A 6HC 2 A N3 6HC 2 1_555 B 6HG 23 B N1 6HG 11 1_555 hydrog WATSON-CRICK A 6HC 2 A N4 6HC 2 1_555 B 6HG 23 B O6 6HG 11 1_555 hydrog WATSON-CRICK A 6HC 2 A O2 6HC 2 1_555 B 6HG 23 B N2 6HG 11 1_555 hydrog WATSON-CRICK A 6HG 3 A N1 6HG 3 1_555 B 6HC 22 B N3 6HC 10 1_555 hydrog WATSON-CRICK A 6HG 3 A N2 6HG 3 1_555 B 6HC 22 B O2 6HC 10 1_555 hydrog WATSON-CRICK A 6HG 3 A O6 6HG 3 1_555 B 6HC 22 B N4 6HC 10 1_555 hydrog WATSON-CRICK A 6HC 4 A N3 6HC 4 1_555 B 6HG 21 B N1 6HG 9 1_555 hydrog WATSON-CRICK A 6HC 4 A N4 6HC 4 1_555 B 6HG 21 B O6 6HG 9 1_555 hydrog WATSON-CRICK A 6HC 4 A O2 6HC 4 1_555 B 6HG 21 B N2 6HG 9 1_555 hydrog TYPE_16_PAIR A 6HT 5 A N3 6HT 5 1_555 B 6HT 20 B O4 6HT 8 1_555 hydrog TYPE_16_PAIR A 6HT 5 A O2 6HT 5 1_555 B 6HT 20 B N3 6HT 8 1_555 hydrog TYPE_16_PAIR A 6HT 6 A N3 6HT 6 1_555 B 6HT 19 B O4 6HT 7 1_555 hydrog TYPE_16_PAIR A 6HT 6 A O2 6HT 6 1_555 B 6HT 19 B N3 6HT 7 1_555 hydrog TYPE_16_PAIR A 6HT 7 A N3 6HT 7 1_555 B 6HT 18 B O2 6HT 6 1_555 hydrog TYPE_16_PAIR A 6HT 7 A O4 6HT 7 1_555 B 6HT 18 B N3 6HT 6 1_555 hydrog TYPE_16_PAIR A 6HT 8 A N3 6HT 8 1_555 B 6HT 17 B O2 6HT 5 1_555 hydrog TYPE_16_PAIR A 6HT 8 A O4 6HT 8 1_555 B 6HT 17 B N3 6HT 5 1_555 hydrog WATSON-CRICK A 6HG 9 A N1 6HG 9 1_555 B 6HC 16 B N3 6HC 4 1_555 hydrog WATSON-CRICK A 6HG 9 A N2 6HG 9 1_555 B 6HC 16 B O2 6HC 4 1_555 hydrog WATSON-CRICK A 6HG 9 A O6 6HG 9 1_555 B 6HC 16 B N4 6HC 4 1_555 hydrog WATSON-CRICK A 6HC 10 A N3 6HC 10 1_555 B 6HG 15 B N1 6HG 3 1_555 hydrog WATSON-CRICK A 6HC 10 A N4 6HC 10 1_555 B 6HG 15 B O6 6HG 3 1_555 hydrog WATSON-CRICK A 6HC 10 A O2 6HC 10 1_555 B 6HG 15 B N2 6HG 3 1_555 hydrog WATSON-CRICK A 6HG 11 A N1 6HG 11 1_555 B 6HC 14 B N3 6HC 2 1_555 hydrog WATSON-CRICK A 6HG 11 A N2 6HG 11 1_555 B 6HC 14 B O2 6HC 2 1_555 hydrog WATSON-CRICK A 6HG 11 A O6 6HG 11 1_555 B 6HC 14 B N4 6HC 2 1_555 hydrog WATSON-CRICK A 6HC 12 A N3 6HC 12 1_555 B 6HG 13 B N1 6HG 1 1_555 hydrog WATSON-CRICK A 6HC 12 A N4 6HC 12 1_555 B 6HG 13 B O6 6HG 1 1_555 hydrog WATSON-CRICK A 6HC 12 A O2 6HC 12 1_555 B 6HG 13 B N2 6HG 1 1_555 DNA double helix, antisense, hexitol nucleic acid, DNA 1EC4 PDB 1 1EC4 1 12 1EC4 1 12 1EC4 A 1 1 12 13 24 1EC4 13 24 1EC4 B 1 1 12 1 P 1