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