0.055648
-0.007328
-0.010360
0.000000
0.037468
-0.000285
0.000000
0.000000
0.030118
0.00000
0.00000
0.00000
Rasmussen, H.
Kastrup, J.S.
http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic
4
88.20
79.40
82.50
17.970
26.920
33.780
C11 H16 N7 O3 1
294.290
2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-ADENINE
peptide-like
C10 H16 N5 O4 1
270.265
2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-CYTOSINE
peptide-like
C11 H16 N7 O4 1
310.289
2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-GUANINE
peptide-like
H2 O
18.015
WATER
non-polymer
H2 N
16.023
AMINO GROUP
non-polymer
C11 H17 N4 O5 1
285.276
2-AMINOETHYLGLYCINE-CARBONYLMETHYLENE-THYMINE
peptide-like
N
1
N
C
N
2
N
C
N
3
N
O
N
4
N
C
N
5
N
C
N
6
N
O
N
7
N
O
N
8
N
N
N
9
N
C
N
10
N
C
N
11
N
N
Y
12
N
N
Y
13
N
C
Y
14
N
N
Y
15
N
C
Y
16
N
C
N
17
N
N
Y
18
N
N
Y
19
N
C
Y
20
N
N
Y
21
N
C
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
H
N
35
N
H
N
36
N
H
N
37
N
H
N
38
N
C
N
39
N
C
N
40
N
O
N
41
N
C
N
42
N
C
N
43
N
O
N
44
N
O
N
45
N
N
N
46
N
C
N
47
N
C
N
48
N
N
N
49
N
N
N
50
N
C
N
51
N
N
N
52
N
C
N
53
N
C
N
54
N
C
N
55
N
O
N
56
N
N
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
H
N
71
N
H
N
72
N
H
N
73
N
C
N
74
N
C
N
75
N
O
N
76
N
C
N
77
N
C
N
78
N
O
N
79
N
O
N
80
N
N
N
81
N
C
N
82
N
C
N
83
N
N
Y
84
N
N
Y
85
N
C
Y
86
N
N
Y
87
N
C
N
88
N
C
N
89
N
O
N
90
N
N
N
91
N
C
N
92
N
N
N
93
N
N
Y
94
N
C
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
H
N
107
N
H
N
108
N
H
N
109
N
H
N
110
N
H
N
111
N
O
N
112
N
H
N
113
N
H
N
114
N
N
N
115
N
H
N
116
N
H
N
117
N
C
N
118
N
C
N
119
N
O
N
120
N
C
N
121
N
C
N
122
N
O
N
123
N
O
N
124
N
N
N
125
N
C
N
126
N
C
N
127
N
N
N
128
N
N
N
129
N
C
N
130
N
C
N
131
N
O
N
132
N
N
N
133
N
C
N
134
N
O
N
135
N
C
N
136
N
C
N
137
N
H
N
138
N
H
N
139
N
H
N
140
N
H
N
141
N
H
N
142
N
H
N
143
N
H
N
144
N
H
N
145
N
H
N
146
N
H
N
147
N
H
N
148
N
H
N
149
N
H
N
150
N
H
N
151
N
H
N
152
N
H
N
153
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
sing
N
10
N
sing
N
11
N
doub
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
Y
24
N
sing
Y
25
N
sing
Y
26
N
doub
N
27
N
sing
Y
28
N
sing
Y
29
N
sing
Y
30
N
doub
N
31
N
sing
Y
32
N
doub
N
33
N
sing
N
34
N
sing
Y
35
N
sing
Y
36
N
doub
N
37
N
sing
Y
38
N
sing
N
39
N
sing
N
40
N
sing
N
41
N
sing
N
42
N
sing
N
43
N
doub
N
44
N
sing
N
45
N
sing
N
46
N
sing
N
47
N
sing
N
48
N
sing
N
49
N
doub
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
N
58
N
sing
N
59
N
sing
N
60
N
sing
N
61
N
sing
N
62
N
sing
N
63
N
sing
N
64
N
sing
N
65
N
doub
N
66
N
doub
N
67
N
sing
N
68
N
sing
N
69
N
doub
N
70
N
sing
N
71
N
sing
N
72
N
sing
N
73
N
sing
N
74
N
sing
N
75
N
sing
N
76
N
sing
N
77
N
sing
N
78
N
doub
N
79
N
sing
N
80
N
sing
N
81
N
sing
N
82
N
sing
N
83
N
sing
N
84
N
doub
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
Y
97
N
sing
Y
98
N
sing
Y
99
N
doub
N
100
N
sing
Y
101
N
sing
N
102
N
sing
Y
103
N
doub
N
104
N
doub
N
105
N
sing
N
106
N
sing
N
107
N
sing
N
108
N
sing
N
109
N
doub
N
110
N
sing
N
111
N
sing
N
112
N
sing
N
113
N
sing
N
114
N
sing
N
115
N
sing
N
116
N
sing
N
117
N
sing
N
118
N
sing
N
119
N
sing
N
120
N
sing
N
121
N
doub
N
122
N
sing
N
123
N
sing
N
124
N
sing
N
125
N
sing
N
126
N
sing
N
127
N
doub
N
128
N
sing
N
129
N
sing
N
130
N
sing
N
131
N
sing
N
132
N
sing
N
133
N
sing
N
134
N
sing
N
135
N
sing
N
136
N
sing
N
137
N
sing
N
138
N
sing
N
139
N
sing
N
140
N
sing
N
141
N
sing
N
142
N
doub
N
143
N
sing
N
144
N
doub
N
145
N
sing
N
146
N
sing
N
147
N
sing
N
148
N
doub
N
149
N
sing
N
150
N
sing
N
151
N
sing
N
152
N
sing
N
153
N
sing
US
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
4
98
101
10.1038/nsb0297-98
9033585
Crystal structure of a peptide nucleic acid (PNA) duplex at 1.7 A resolution.
1997
US
Science
SCIEAS
0038
0036-8075
270
1838
1841
A Nucleic Acid Triple Helix Formed by a Peptide Nucleic Acid-DNA Complex
1995
US
Nat.Struct.Biol.
NSBIEW
2024
1072-8368
3
410
413
Solution Structure of a Petide Nucleic Acid-DNA Duplex
1996
US
Science
SCIEAS
0038
0036-8075
265
777
780
NMR Solution Structure of a Peptide Nucleic Acid Complexed with RNA
1994
10.2210/pdb1pup/pdb
pdb_00001pup
1.000000
0.000000
0.000000
0.000000
1.000000
0.000000
0.000000
0.000000
1.000000
0.00000
0.00000
0.00000
285.00
1
IMAGE PLATE
1995-09-01
RIGAKU RAXIS II
M
x-ray
1
1.0
ROTATING ANODE
RIGAKU RU200
1585.633
PNA (H-P(*CPN*GPN*TPN*APN*CPN*GPN)-NH2)
2
man
polymer
18.015
water
82
nat
water
no
yes
(CPN)(GPN)(TPN)(APN)(CPN)(GPN)(NH2)
XXXXXXX
A,B
polydeoxyribonucleotide
n
n
n
n
n
n
n
1
2.51
51.01
DERIVATIVE DATA WERE COLLECTED AT EMBL, HAMBURG AT BEAMLINE X31 TO 1.9 A RESOLUTION.
VAPOR DIFFUSION, HANGING DROP
7.00
pH 7.00, VAPOR DIFFUSION, HANGING DROP
WATER
1
NACL
1
MGCL2
1
N(C16H33)(CH3)3BR
1
10.313
1
19
A
1
B
13
-3.673
A_CPN1:GPN13_B
1
-8.306
0.045
-0.001
-0.105
3.460
1
19
A
2
B
12
-1.468
A_GPN2:CPN12_B
2
-7.788
-0.142
0.014
-0.132
-4.319
1
20
A
3
B
11
0.114
A_TPN3:APN11_B
3
-6.060
-0.150
0.216
-0.124
5.139
1
20
A
4
B
10
-0.387
A_APN4:TPN10_B
4
-5.282
0.200
0.210
-0.088
-2.534
1
19
A
5
B
9
-1.784
A_CPN5:GPN9_B
5
-6.474
0.115
-0.054
-0.081
-11.868
1
19
A
6
B
8
-3.347
A_GPN6:CPN8_B
6
-9.429
-0.125
0.116
-0.126
2.076
20.287
A
A
1
2
24.771
B
B
13
12
3.385
8.452
0.024
-2.397
AA_CPN1GPN2:CPN12GPN13_BB
1
-1.768
5.180
18.375
-10.165
-0.769
3.617
19.318
A
A
2
3
-3.360
B
B
12
11
3.462
-1.126
0.081
-2.980
AA_GPN2TPN3:APN11CPN12_BB
2
-1.163
3.469
19.250
-8.270
-0.871
2.946
22.092
A
A
3
4
1.122
B
B
11
10
2.988
0.430
0.114
-2.010
AA_TPN3APN4:TPN10APN11_BB
3
-0.468
1.220
22.083
-5.394
-0.459
3.578
17.899
A
A
4
5
-2.520
B
B
10
9
3.470
-0.783
-0.068
-3.070
AA_APN4CPN5:GPN9TPN10_BB
4
1.676
-5.397
17.804
-9.374
1.272
2.367
22.395
A
A
5
6
21.243
B
B
9
8
3.415
8.069
-0.321
-2.296
AA_CPN5GPN6:CPN8GPN9_BB
5
0.391
-1.030
20.904
-8.653
0.960
atom_site
chem_comp_atom
chem_comp_bond
database_2
pdbx_validate_close_contact
struct_conn
struct_site
repository
Initial release
Version format compliance
Non-polymer description
Version format compliance
Other
Advisory
Atomic model
Data collection
Database references
Derived calculations
1
0
1997-02-25
1
1
2008-05-22
1
2
2011-07-13
1
3
2012-03-28
2
0
2023-11-15
_atom_site.auth_atom_id
_atom_site.label_atom_id
_database_2.pdbx_DOI
_database_2.pdbx_database_accession
_pdbx_validate_close_contact.auth_atom_id_1
_struct_conn.pdbx_leaving_atom_flag
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr2_label_atom_id
_struct_site.pdbx_auth_asym_id
_struct_site.pdbx_auth_comp_id
_struct_site.pdbx_auth_seq_id
NDB
Y
NDB
1996-11-01
REL
HOH
water
HOH
16
2
HOH
HOH
16
A
HOH
17
2
HOH
HOH
17
A
HOH
20
2
HOH
HOH
20
A
HOH
22
2
HOH
HOH
22
A
HOH
25
2
HOH
HOH
25
A
HOH
27
2
HOH
HOH
27
A
HOH
31
2
HOH
HOH
31
A
HOH
36
2
HOH
HOH
36
A
HOH
39
2
HOH
HOH
39
A
HOH
40
2
HOH
HOH
40
A
HOH
41
2
HOH
HOH
41
A
HOH
42
2
HOH
HOH
42
A
HOH
44
2
HOH
HOH
44
A
HOH
47
2
HOH
HOH
47
A
HOH
49
2
HOH
HOH
49
A
HOH
55
2
HOH
HOH
55
A
HOH
58
2
HOH
HOH
58
A
HOH
59
2
HOH
HOH
59
A
HOH
65
2
HOH
HOH
65
A
HOH
66
2
HOH
HOH
66
A
HOH
67
2
HOH
HOH
67
A
HOH
68
2
HOH
HOH
68
A
HOH
75
2
HOH
HOH
75
A
HOH
76
2
HOH
HOH
76
A
HOH
79
2
HOH
HOH
79
A
HOH
80
2
HOH
HOH
80
A
HOH
82
2
HOH
HOH
82
A
HOH
86
2
HOH
HOH
86
A
HOH
88
2
HOH
HOH
88
A
HOH
89
2
HOH
HOH
89
A
HOH
91
2
HOH
HOH
91
A
HOH
95
2
HOH
HOH
95
A
HOH
96
2
HOH
HOH
96
A
HOH
15
2
HOH
HOH
15
B
HOH
18
2
HOH
HOH
18
B
HOH
19
2
HOH
HOH
19
B
HOH
21
2
HOH
HOH
21
B
HOH
23
2
HOH
HOH
23
B
HOH
24
2
HOH
HOH
24
B
HOH
26
2
HOH
HOH
26
B
HOH
28
2
HOH
HOH
28
B
HOH
29
2
HOH
HOH
29
B
HOH
30
2
HOH
HOH
30
B
HOH
32
2
HOH
HOH
32
B
HOH
33
2
HOH
HOH
33
B
HOH
34
2
HOH
HOH
34
B
HOH
35
2
HOH
HOH
35
B
HOH
37
2
HOH
HOH
37
B
HOH
38
2
HOH
HOH
38
B
HOH
43
2
HOH
HOH
43
B
HOH
45
2
HOH
HOH
45
B
HOH
46
2
HOH
HOH
46
B
HOH
48
2
HOH
HOH
48
B
HOH
50
2
HOH
HOH
50
B
HOH
51
2
HOH
HOH
51
B
HOH
52
2
HOH
HOH
52
B
HOH
53
2
HOH
HOH
53
B
HOH
54
2
HOH
HOH
54
B
HOH
56
2
HOH
HOH
56
B
HOH
57
2
HOH
HOH
57
B
HOH
60
2
HOH
HOH
60
B
HOH
61
2
HOH
HOH
61
B
HOH
62
2
HOH
HOH
62
B
HOH
63
2
HOH
HOH
63
B
HOH
64
2
HOH
HOH
64
B
HOH
69
2
HOH
HOH
69
B
HOH
70
2
HOH
HOH
70
B
HOH
71
2
HOH
HOH
71
B
HOH
72
2
HOH
HOH
72
B
HOH
73
2
HOH
HOH
73
B
HOH
74
2
HOH
HOH
74
B
HOH
77
2
HOH
HOH
77
B
HOH
78
2
HOH
HOH
78
B
HOH
81
2
HOH
HOH
81
B
HOH
83
2
HOH
HOH
83
B
HOH
84
2
HOH
HOH
84
B
HOH
85
2
HOH
HOH
85
B
HOH
87
2
HOH
HOH
87
B
HOH
90
2
HOH
HOH
90
B
HOH
92
2
HOH
HOH
92
B
HOH
93
2
HOH
HOH
93
B
HOH
94
2
HOH
HOH
94
B
CPN
1
n
1
CPN
1
A
GPN
2
n
2
GPN
2
A
TPN
3
n
3
TPN
3
A
APN
4
n
4
APN
4
A
CPN
5
n
5
CPN
5
A
GPN
6
n
6
GPN
6
A
NH2
7
n
7
NH2
7
A
CPN
8
n
1
CPN
8
B
GPN
9
n
2
GPN
9
B
TPN
10
n
3
TPN
10
B
APN
11
n
4
APN
11
B
CPN
12
n
5
CPN
12
B
GPN
13
n
6
GPN
13
B
NH2
14
n
7
NH2
14
B
author_defined_assembly
2
dimeric
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
A
O
O
TPN
HOH
3
65
1.92
B
1
B
B
O
O
TPN
HOH
10
33
2.15
A
PARAM.PNA
TOPH_JULY96.PNA
11.70
0.2500000
0.2050000
0.2500000
0.2050000
1.700
6.000
530
5222
10.00
77.000
RANDOM
100000.000
0.1000
1
2.000
SIR
TR
isotropic
TR
isotropic
1.700
6.000
82
318
0
0
236
0.016
2.60
0.73
0.1840000
0.2850000
1.78
21
182
8
10.00
25.00
fix
fix
15.80
1.700
25.000
1PUP
5222
1.000
0.0320000
1
13.100
1.900
77.000
0.0580000
1.700
1.900
7.300
1
1.900
37.00
phasing
MLPHARE
refinement
X-PLOR
3.1
data reduction
DENZO
data scaling
CCP4
CRYSTAL STRUCTURE OF A PEPTIDE NUCLEIC ACID (PNA) DUPLEX AT 1.7 ANGSTROMS RESOLUTION
1
N
N
1
N
N
2
N
N
2
N
N
covale
1.348
both
A
CPN
1
A
C
CPN
1
1_555
A
GPN
2
A
N
GPN
2
1_555
covale
1.341
both
A
A
GPN
2
A
C
GPN
2
1_555
A
TPN
3
A
N
TPN
3
1_555
covale
1.334
both
B
A
GPN
2
A
C
GPN
2
1_555
A
TPN
3
A
N
TPN
3
1_555
covale
1.332
both
A
A
A
TPN
3
A
C
TPN
3
1_555
A
APN
4
A
N
APN
4
1_555
covale
1.337
both
B
B
A
TPN
3
A
C
TPN
3
1_555
A
APN
4
A
N
APN
4
1_555
covale
1.354
both
A
A
APN
4
A
C
APN
4
1_555
A
CPN
5
A
N
CPN
5
1_555
covale
1.348
both
B
A
APN
4
A
C
APN
4
1_555
A
CPN
5
A
N
CPN
5
1_555
covale
1.346
both
A
CPN
5
A
C
CPN
5
1_555
A
GPN
6
A
N
GPN
6
1_555
covale
1.332
both
A
GPN
6
A
C
GPN
6
1_555
A
NH2
7
A
N
NH2
7
1_555
covale
1.323
both
B
CPN
8
B
C
CPN
1
1_555
B
GPN
9
B
N
GPN
2
1_555
covale
1.347
both
A
B
GPN
9
B
C
GPN
2
1_555
B
TPN
10
B
N
TPN
3
1_555
covale
1.342
both
B
B
GPN
9
B
C
GPN
2
1_555
B
TPN
10
B
N
TPN
3
1_555
covale
1.339
both
A
A
B
TPN
10
B
C
TPN
3
1_555
B
APN
11
B
N
APN
4
1_555
covale
1.339
both
B
B
B
TPN
10
B
C
TPN
3
1_555
B
APN
11
B
N
APN
4
1_555
covale
1.334
both
A
B
APN
11
B
C
APN
4
1_555
B
CPN
12
B
N
CPN
5
1_555
covale
1.335
both
B
B
APN
11
B
C
APN
4
1_555
B
CPN
12
B
N
CPN
5
1_555
covale
1.343
both
B
CPN
12
B
C
CPN
5
1_555
B
GPN
13
B
N
GPN
6
1_555
covale
1.249
both
B
GPN
13
B
C
GPN
6
1_555
B
NH2
14
B
N
NH2
7
1_555
hydrog
WATSON-CRICK
A
CPN
1
A
N3
CPN
1
1_555
B
GPN
13
B
N1
GPN
6
1_555
hydrog
WATSON-CRICK
A
CPN
1
A
N4
CPN
1
1_555
B
GPN
13
B
O6
GPN
6
1_555
hydrog
WATSON-CRICK
A
CPN
1
A
O2
CPN
1
1_555
B
GPN
13
B
N2
GPN
6
1_555
hydrog
WATSON-CRICK
A
GPN
2
A
N1
GPN
2
1_555
B
CPN
12
B
N3
CPN
5
1_555
hydrog
WATSON-CRICK
A
GPN
2
A
N2
GPN
2
1_555
B
CPN
12
B
O2
CPN
5
1_555
hydrog
WATSON-CRICK
A
GPN
2
A
O6
GPN
2
1_555
B
CPN
12
B
N4
CPN
5
1_555
hydrog
WATSON-CRICK
A
TPN
3
A
N3
TPN
3
1_555
B
APN
11
B
N1
APN
4
1_555
hydrog
WATSON-CRICK
A
TPN
3
A
O4
TPN
3
1_555
B
APN
11
B
N6
APN
4
1_555
hydrog
WATSON-CRICK
A
APN
4
A
N1
APN
4
1_555
B
TPN
10
B
N3
TPN
3
1_555
hydrog
WATSON-CRICK
A
APN
4
A
N6
APN
4
1_555
B
TPN
10
B
O4
TPN
3
1_555
hydrog
WATSON-CRICK
A
CPN
5
A
N3
CPN
5
1_555
B
GPN
9
B
N1
GPN
2
1_555
hydrog
WATSON-CRICK
A
CPN
5
A
N4
CPN
5
1_555
B
GPN
9
B
O6
GPN
2
1_555
hydrog
WATSON-CRICK
A
CPN
5
A
O2
CPN
5
1_555
B
GPN
9
B
N2
GPN
2
1_555
hydrog
WATSON-CRICK
A
GPN
6
A
N1
GPN
6
1_555
B
CPN
8
B
N3
CPN
1
1_555
hydrog
WATSON-CRICK
A
GPN
6
A
N2
GPN
6
1_555
B
CPN
8
B
O2
CPN
1
1_555
hydrog
WATSON-CRICK
A
GPN
6
A
O6
GPN
6
1_555
B
CPN
8
B
N4
CPN
1
1_555
PEPTIDE NUCLEIC ACID
PEPTIDE NUCLEIC ACID, DNA ANALOGUE, DOUBLE HELIX
1PUP
PDB
1
1PUP
1
7
1PUP
1
7
1PUP
A
1
1
7
8
14
1PUP
8
14
1PUP
B
1
1
7
BINDING SITE FOR RESIDUE NH2 A 7
A
NH2
7
Software
3
BINDING SITE FOR RESIDUE NH2 B 14
B
NH2
14
Software
3
A
GPN
6
A
GPN
6
3
1_555
A
HOH
22
C
HOH
3
1_555
B
HOH
32
D
HOH
3
1_555
B
GPN
13
B
GPN
6
3
1_555
B
HOH
26
D
HOH
3
1_555
B
HOH
94
D
HOH
3
1_555
2
P -1