0.041736
0.000000
0.002384
0.000000
0.020429
0.000000
0.000000
0.000000
0.031068
0.00000
0.00000
0.00000
Abrescia, N.G.A.
Thompson, A.
Huynh-Dinh, T.
Subirana, J.A.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
8
90.00
93.27
90.00
23.960
48.950
32.240
C9 H12 Br N2 O8 P
387.078
n
5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
DNA linking
C10 H14 N5 O6 P
331.222
y
2'-DEOXYADENOSINE-5'-MONOPHOSPHATE
DNA linking
C10 H15 N2 O8 P
322.208
y
THYMIDINE-5'-MONOPHOSPHATE
DNA linking
H2 O
18.015
WATER
non-polymer
N
1
N
N
N
2
N
C
N
3
N
N
N
4
N
C
N
5
N
C
N
6
N
C
N
7
N
O
N
8
N
O
N
9
N
BR
N
10
R
C
N
11
N
C
N
12
S
C
N
13
R
C
N
14
N
O
N
15
N
O
N
16
N
C
N
17
N
O
N
18
N
P
N
19
N
O
N
20
N
O
N
21
N
O
N
22
N
H
N
23
N
H
N
24
N
H
N
25
N
H
N
26
N
H
N
27
N
H
N
28
N
H
N
29
N
H
N
30
N
H
N
31
N
H
N
32
N
H
N
33
N
H
N
34
N
O
N
35
N
P
N
36
N
O
N
37
N
O
N
38
N
O
N
39
N
C
N
40
R
C
N
41
N
O
N
42
S
C
N
43
N
O
N
44
N
C
N
45
R
C
Y
46
N
N
Y
47
N
C
Y
48
N
N
Y
49
N
C
Y
50
N
C
N
51
N
N
Y
52
N
N
Y
53
N
C
Y
54
N
N
Y
55
N
C
N
56
N
H
N
57
N
H
N
58
N
H
N
59
N
H
N
60
N
H
N
61
N
H
N
62
N
H
N
63
N
H
N
64
N
H
N
65
N
H
N
66
N
H
N
67
N
H
N
68
N
H
N
69
N
H
N
70
N
O
N
71
N
P
N
72
N
O
N
73
N
O
N
74
N
O
N
75
N
C
N
76
R
C
N
77
N
O
N
78
S
C
N
79
N
O
N
80
N
C
N
81
R
C
N
82
N
N
N
83
N
C
N
84
N
O
N
85
N
N
N
86
N
C
N
87
N
O
N
88
N
C
N
89
N
C
N
90
N
C
N
91
N
H
N
92
N
H
N
93
N
H
N
94
N
H
N
95
N
H
N
96
N
H
N
97
N
H
N
98
N
H
N
99
N
H
N
100
N
H
N
101
N
H
N
102
N
H
N
103
N
H
N
104
N
H
N
105
N
H
N
106
N
O
N
107
N
H
N
108
N
H
N
1
N
sing
N
2
N
sing
N
3
N
sing
N
4
N
sing
N
5
N
doub
N
6
N
sing
N
7
N
sing
N
8
N
sing
N
9
N
doub
N
10
N
doub
N
11
N
sing
N
12
N
sing
N
13
N
sing
N
14
N
sing
N
15
N
sing
N
16
N
sing
N
17
N
sing
N
18
N
sing
N
19
N
sing
N
20
N
sing
N
21
N
sing
N
22
N
sing
N
23
N
sing
N
24
N
sing
N
25
N
sing
N
26
N
sing
N
27
N
sing
N
28
N
sing
N
29
N
sing
N
30
N
doub
N
31
N
sing
N
32
N
sing
N
33
N
sing
N
34
N
sing
N
35
N
sing
N
36
N
sing
N
37
N
doub
N
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
sing
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
sing
N
50
N
sing
N
51
N
sing
N
52
N
sing
N
53
N
sing
N
54
N
sing
N
55
N
sing
N
56
N
sing
N
57
N
sing
Y
58
N
sing
Y
59
N
sing
Y
60
N
doub
N
61
N
sing
Y
62
N
sing
Y
63
N
sing
Y
64
N
doub
N
65
N
sing
Y
66
N
doub
N
67
N
sing
N
68
N
sing
Y
69
N
sing
Y
70
N
doub
N
71
N
sing
Y
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
doub
N
76
N
sing
N
77
N
sing
N
78
N
sing
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
sing
N
85
N
sing
N
86
N
sing
N
87
N
sing
N
88
N
sing
N
89
N
sing
N
90
N
sing
N
91
N
sing
N
92
N
sing
N
93
N
sing
N
94
N
sing
N
95
N
sing
N
96
N
sing
N
97
N
sing
N
98
N
doub
N
99
N
sing
N
100
N
sing
N
101
N
sing
N
102
N
doub
N
103
N
sing
N
104
N
sing
N
105
N
doub
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
sing
N
110
N
sing
N
111
N
sing
US
Proc.Natl.Acad.Sci.USA
PNASA6
0040
0027-8424
99
2806
10.1073/PNAS.052675499
11880632
Crystal Structure of an Antiparallel DNA Fragment with Hoogsteen Base Pairing
2002
10.2210/pdb1gqu/pdb
pdb_00001gqu
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
110.0
1
CCD
2001-03-15
MARCCD
MAD
M
x-ray
1
0.919
1.0
0.855
1.0
BM14
ESRF
0.919,0.855
SYNCHROTRON
ESRF BEAMLINE BM14
1872.111
DNA (5'(*AP*TP*AP*UP*AP*T)-3')
4
syn
polymer
18.015
water
47
nat
water
no
yes
(DA)(DT)(DA)(BRU)(DA)(DT)
ATAUAT
A,B,C,D
polydeoxyribonucleotide
n
n
n
n
n
n
1
2.52
51.20
FOR MORE DETAILS ON DATA STATISTICS SEE PAPER
6.00
pH 6.00
-15.024
3
23
B
7
A
6
67.942
B_DA7:DT6_A
1
24.077
0.779
1.546
-3.761
-21.961
3
23
B
8
A
5
-62.026
B_DT8:DA5_A
2
3.037
0.227
0.639
3.411
5.525
3
23
B
9
A
4
66.288
B_DA9:BRU4_A
3
10.827
0.178
-0.331
-3.516
-8.238
3
23
B
10
A
3
-62.434
B_BRU10:DA3_A
4
-4.263
-0.269
0.192
3.454
16.497
3
23
B
11
A
2
57.511
B_DA11:DT2_A
5
-3.693
0.184
-0.607
-3.774
10.571
3
23
B
12
A
1
-64.774
B_DT12:DA1_A
6
-20.982
-0.416
-0.860
3.578
10.304
3
23
C
16
D
19
-65.392
C_BRU16:DA19_D
7
-19.316
-0.382
-0.387
3.625
8.844
3
23
C
15
D
20
66.787
C_DA15:DT20_D
8
-0.681
0.745
-0.303
-3.720
-9.406
3
23
C
14
D
21
-61.758
C_DT14:DA21_D
9
0.915
-0.554
0.382
3.880
-2.368
3
23
C
13
D
22
61.505
C_DA13:BRU22_D
10
20.199
0.148
0.258
-3.611
0.156
174.995
B
B
7
8
-73.149
A
A
6
5
-1.718
-144.876
-1.051
-3.656
BB_DA7DT8:DA5DT6_AA
1
92.215
-46.560
105.421
-2.052
0.385
0.242
-176.023
B
B
8
9
37.440
A
A
5
4
-3.017
-74.214
-1.831
4.582
BB_DT8DA9:BRU4DA5_AA
2
157.550
79.481
-94.229
-2.524
-1.409
0.167
-176.558
B
B
9
10
-75.384
A
A
4
3
3.035
149.353
1.419
3.461
BB_DA9BRU10:DA3BRU4_AA
3
-92.362
-46.618
-76.864
-2.389
0.303
-0.116
-179.191
B
B
10
11
33.296
A
A
3
2
-0.811
-66.569
-3.185
4.834
BB_BRU10DA11:DT2DA3_AA
4
161.154
80.604
-163.488
-2.430
-1.624
-0.217
-178.008
B
B
11
12
-74.111
A
A
2
1
1.329
147.802
0.881
4.074
BB_DA11DT12:DA1DT2_AA
5
-95.135
-47.703
-123.754
-2.154
0.365
-0.118
-175.969
B
C
12
16
29.236
A
D
1
19
-1.207
-58.121
-0.518
4.303
BC_DT12BRU16:DA19DA1_DA
6
161.523
81.250
-122.134
-2.211
-0.420
-0.328
-179.788
C
C
16
15
-74.214
D
D
19
20
0.145
148.416
0.325
4.705
CC_BRU16DA15:DT20DA19_DD
7
-98.855
-49.431
-165.485
-2.347
0.166
0.039
179.960
C
C
15
14
31.186
D
D
20
21
0.099
62.373
3.407
-4.889
CC_DA15DT14:DA21DT20_DD
8
-165.332
82.666
178.601
-2.445
-1.704
0.307
-178.538
C
C
14
13
-73.166
D
D
21
22
2.368
145.978
0.586
4.192
CC_DT14DA13:BRU22DA21_DD
9
-100.619
-50.431
-114.568
-2.419
0.071
chem_comp_atom
chem_comp_bond
database_2
pdbx_database_status
struct_conn
repository
Initial release
Version format compliance
Version format compliance
Data collection
Database references
Derived calculations
Other
1
0
2002-12-05
1
1
2011-05-08
1
2
2011-07-13
1
3
2024-05-08
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_database_status.status_code_sf
_struct_conn.pdbx_leaving_atom_flag
PDBE
Y
PDBE
2001-12-05
REL
REL
HOH
water
HOH
2001
2
HOH
HOH
2001
A
HOH
2002
2
HOH
HOH
2002
A
HOH
2003
2
HOH
HOH
2003
A
HOH
2004
2
HOH
HOH
2004
A
HOH
2005
2
HOH
HOH
2005
A
HOH
2006
2
HOH
HOH
2006
A
HOH
2007
2
HOH
HOH
2007
A
HOH
2008
2
HOH
HOH
2008
A
HOH
2009
2
HOH
HOH
2009
A
HOH
2010
2
HOH
HOH
2010
A
HOH
2011
2
HOH
HOH
2011
A
HOH
2012
2
HOH
HOH
2012
A
HOH
2013
2
HOH
HOH
2013
A
HOH
2014
2
HOH
HOH
2014
A
HOH
2001
2
HOH
HOH
2001
B
HOH
2002
2
HOH
HOH
2002
B
HOH
2003
2
HOH
HOH
2003
B
HOH
2004
2
HOH
HOH
2004
B
HOH
2005
2
HOH
HOH
2005
B
HOH
2006
2
HOH
HOH
2006
B
HOH
2007
2
HOH
HOH
2007
B
HOH
2008
2
HOH
HOH
2008
B
HOH
2009
2
HOH
HOH
2009
B
HOH
2010
2
HOH
HOH
2010
B
HOH
2011
2
HOH
HOH
2011
B
HOH
2012
2
HOH
HOH
2012
B
HOH
2001
2
HOH
HOH
2001
C
HOH
2002
2
HOH
HOH
2002
C
HOH
2003
2
HOH
HOH
2003
C
HOH
2004
2
HOH
HOH
2004
C
HOH
2005
2
HOH
HOH
2005
C
HOH
2006
2
HOH
HOH
2006
C
HOH
2007
2
HOH
HOH
2007
C
HOH
2008
2
HOH
HOH
2008
C
HOH
2001
2
HOH
HOH
2001
D
HOH
2002
2
HOH
HOH
2002
D
HOH
2003
2
HOH
HOH
2003
D
HOH
2004
2
HOH
HOH
2004
D
HOH
2005
2
HOH
HOH
2005
D
HOH
2006
2
HOH
HOH
2006
D
HOH
2007
2
HOH
HOH
2007
D
HOH
2009
2
HOH
HOH
2009
D
HOH
2010
2
HOH
HOH
2010
D
HOH
2011
2
HOH
HOH
2011
D
HOH
2012
2
HOH
HOH
2012
D
HOH
2013
2
HOH
HOH
2013
D
HOH
2014
2
HOH
HOH
2014
D
DA
1
n
1
DA
1
A
DT
2
n
2
DT
2
A
DA
3
n
3
DA
3
A
BRU
4
n
4
BRU
4
A
DA
5
n
5
DA
5
A
DT
6
n
6
DT
6
A
DA
7
n
1
DA
7
B
DT
8
n
2
DT
8
B
DA
9
n
3
DA
9
B
BRU
10
n
4
BRU
10
B
DA
11
n
5
DA
11
B
DT
12
n
6
DT
12
B
DA
13
n
1
DA
13
C
DT
14
n
2
DT
14
C
DA
15
n
3
DA
15
C
BRU
16
n
4
BRU
16
C
DA
17
n
5
DA
17
C
DT
18
n
6
DT
18
C
DA
19
n
1
DA
19
D
DT
20
n
2
DT
20
D
DA
21
n
3
DA
21
D
BRU
22
n
4
BRU
22
D
DA
23
n
5
DA
23
D
DT
24
n
6
DT
24
D
author_and_software_defined_assembly
PQS
2
dimeric
author_and_software_defined_assembly
PQS
2
dimeric
A
BRU
4
A
BRU
4
DU
B
BRU
10
B
BRU
4
DU
C
BRU
16
C
BRU
4
DU
D
BRU
22
D
BRU
4
DU
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
B
DA
7
0.054
SIDE CHAIN
DNA-RNA.PARAM
DNA-RNA.TOP
WATER_REP.PARAM
WATER_REP.TOP
FOR MORE DETAILS ON DATA STATISTICS SEE PAPER
0.22
0.22
2.5
15.00
240
2547
9.2
97.2
RANDOM
1
THROUGHOUT
0.0
MAD
FLAT MODEL
2.5
15.00
47
527
0
480
0
0.0089
1.17
2.61
273
8
2.500
30.000
1GQU
2591
2.000
0.06000
1
10.300
90.3
2.50
1
68.6
refinement
CNS
1.0
data reduction
DENZO
data scaling
SCALEPACK
data scaling
SCALEIT
phasing
MLPHARE
Crystal structure of an alternating A-T oligonucleotide fragment with Hoogsteen base pairing
1
N
N
1
N
N
1
N
N
1
N
N
2
N
N
2
N
N
2
N
N
2
N
N
covale
1.613
both
A
DA
3
A
O3'
DA
3
1_555
A
BRU
4
A
P
BRU
4
1_555
covale
1.601
both
A
BRU
4
A
O3'
BRU
4
1_555
A
DA
5
A
P
DA
5
1_555
covale
1.602
both
B
DA
9
B
O3'
DA
3
1_555
B
BRU
10
B
P
BRU
4
1_555
covale
1.598
both
B
BRU
10
B
O3'
BRU
4
1_555
B
DA
11
B
P
DA
5
1_555
covale
1.609
both
C
DA
15
C
O3'
DA
3
1_555
C
BRU
16
C
P
BRU
4
1_555
covale
1.601
both
C
BRU
16
C
O3'
BRU
4
1_555
C
DA
17
C
P
DA
5
1_555
covale
1.613
both
D
DA
21
D
O3'
DA
3
1_555
D
BRU
22
D
P
BRU
4
1_555
covale
1.605
both
D
BRU
22
D
O3'
BRU
4
1_555
D
DA
23
D
P
DA
5
1_555
hydrog
HOOGSTEEN
A
DA
1
A
N6
DA
1
1_555
B
DT
12
B
O4
DT
6
1_555
hydrog
HOOGSTEEN
A
DA
1
A
N7
DA
1
1_555
B
DT
12
B
N3
DT
6
1_555
hydrog
HOOGSTEEN
A
DT
2
A
N3
DT
2
1_555
B
DA
11
B
N7
DA
5
1_555
hydrog
HOOGSTEEN
A
DT
2
A
O4
DT
2
1_555
B
DA
11
B
N6
DA
5
1_555
hydrog
HOOGSTEEN
A
DA
3
A
N6
DA
3
1_555
B
BRU
10
B
O4
BRU
4
1_555
hydrog
HOOGSTEEN
A
DA
3
A
N7
DA
3
1_555
B
BRU
10
B
N3
BRU
4
1_555
hydrog
HOOGSTEEN
A
BRU
4
A
N3
BRU
4
1_555
B
DA
9
B
N7
DA
3
1_555
hydrog
HOOGSTEEN
A
BRU
4
A
O4
BRU
4
1_555
B
DA
9
B
N6
DA
3
1_555
hydrog
HOOGSTEEN
A
DA
5
A
N6
DA
5
1_555
B
DT
8
B
O4
DT
2
1_555
hydrog
HOOGSTEEN
A
DA
5
A
N7
DA
5
1_555
B
DT
8
B
N3
DT
2
1_555
hydrog
HOOGSTEEN
A
DT
6
A
N3
DT
6
1_555
B
DA
7
B
N7
DA
1
1_555
hydrog
HOOGSTEEN
A
DT
6
A
O4
DT
6
1_555
B
DA
7
B
N6
DA
1
1_555
hydrog
HOOGSTEEN
C
DA
13
C
N6
DA
1
1_555
D
BRU
22
D
O4
BRU
4
1_555
hydrog
HOOGSTEEN
C
DA
13
C
N7
DA
1
1_555
D
BRU
22
D
N3
BRU
4
1_555
hydrog
DT-DA PAIR
C
DT
14
C
O2
DT
2
1_555
C
DA
17
C
N6
DA
5
1_555
hydrog
HOOGSTEEN
C
DT
14
C
N3
DT
2
1_555
D
DA
21
D
N7
DA
3
1_555
hydrog
HOOGSTEEN
C
DT
14
C
O4
DT
2
1_555
D
DA
21
D
N6
DA
3
1_555
hydrog
HOOGSTEEN
C
DA
15
C
N6
DA
3
1_555
D
DT
20
D
O4
DT
2
1_555
hydrog
HOOGSTEEN
C
DA
15
C
N7
DA
3
1_555
D
DT
20
D
N3
DT
2
1_555
hydrog
HOOGSTEEN
C
BRU
16
C
N3
BRU
4
1_555
D
DA
19
D
N7
DA
1
1_555
hydrog
HOOGSTEEN
C
BRU
16
C
O4
BRU
4
1_555
D
DA
19
D
N6
DA
1
1_555
DNA
DNA, DNA/RNA, NEW DNA STRUCTURE, HOOGSTEEN BASE PAIRING
1GQU
PDB
1
1GQU
1
6
1GQU
1
6
1GQU
A
1
1
6
7
12
1GQU
7
12
1GQU
B
1
1
6
13
18
1GQU
13
18
1GQU
C
1
1
6
19
24
1GQU
19
24
1GQU
D
1
1
6
4
P 1 21 1