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Table 2 Features of modeled intrastrand G-quadruplexes.

From: Molecular models for intrastrand DNA G-quadruplexes

syn/anti loop topology strand polarity loop 1 loop 2 loop 3 counts
a a a -p-p-p ppp 1 1 1 10
a a a -p-p-p ppp 1 1 2 6
a a a -p-p-p ppp 1 1 3 53
a a a -p-p-p ppp 1 2 1 8
a a a -p-p-p ppp 1 2 2 2
a a a -p-p-p ppp 1 2 3 20
a a a -p-p-l ppa 1 2 3 6
a a a -p-p-l ppa 1 2 4 2
a a a -p-p-p ppp 1 3 1 58
a a a -p-p-p ppp 1 3 2 8
a a a -p-p-p ppp 1 3 3 237
a a a -p-p-l ppa 1 3 3 34
a a a -p-l-l pap 1 3 3 3
a a a -p-p-l ppa 1 3 4 12
a a a -pd+p paa 1 4 1 3
a a a -pd+p paa 1 4 2 10
a a a -pd+l ppa 1 4 3 10
a a a -p-l-l pap 1 4 3 1
a a a -pd+p paa 1 4 3 35
a a a -p-p-p ppp 2 1 1 4
a a a -p-p-p ppp 2 1 2 2
a a a -p-p-p ppp 2 1 3 21
a a a -p-p-p ppp 2 2 1 3
a a a -p-p-p ppp 2 2 2 1
a a a -p-p-p ppp 2 2 3 11
a a a -p-p-l ppa 2 2 3 3
a a a -p-p-l ppa 2 2 4 1
a a a -p-p-p ppp 2 3 1 23
a a a -p-p-p ppp 2 3 2 3
a a a -p-p-l ppa 2 3 3 17
a a a -p-l-l pap 2 3 3 2
a a a -p-p-p ppp 2 3 3 74
a a a -p-p-l ppa 2 3 4 5
a a a -pd+p paa 2 4 1 13
a a a -pd+p paa 2 4 2 3
a a a -pd+p paa 2 4 3 16
a a a -pd+l ppa 2 4 3 1
a a a -p-l-l pap 2 4 3 1
a a a -p-p-p ppp 3 1 1 28
s a s -p-p-p ppp 3 1 1 2
s s a +l+p+p aaa 3 1 1 34
s a a -p-p-p ppp 3 1 1 6
a a a -p-p-p ppp 3 1 2 10
s a a -p-p-p ppp 3 1 2 6
s s a +l+p+p aaa 3 1 2 7
s s a +l+p+p aaa 3 1 3 120
s a a -p-p-l ppa 3 1 3 12
a a a -p-p-p ppp 3 1 3 131
s s a +l+p+l paa 3 1 3 27
s a a -p-p-p ppp 3 1 3 49
a a a -p-p-l ppa 3 1 3 4
a a a -p-p-l ppa 3 1 4 1
s a a -p-p-l ppa 3 1 4 3
s s a +l+p+l paa 3 1 4 6
s s a +l+p+p aaa 3 2 1 10
s a a -p-p-p ppp 3 2 1 6
a a a -p-p-p ppp 3 2 1 9
s a a -p-p-p ppp 3 2 2 2
a a a -p-p-p ppp 3 2 2 3
s s a +l+p+p aaa 3 2 2 3
s a a -p-p-p ppp 3 2 3 22
a a a -p-p-p ppp 3 2 3 33
s s a +l+p+p aaa 3 2 3 46
s a a -p-p-l ppa 3 2 3 6
a a a -p-p-l ppa 3 2 3 9
s s a +l+p+l paa 3 2 3 9
s a a -p-p-l ppa 3 2 4 2
a a a -p-p-l ppa 3 2 4 3
s s a +l+p+l paa 3 2 4 3
s a a -l-l-p app 3 3 1 102
s s a +l+p+p aaa 3 3 1 102
a a a -p-p-p ppp 3 3 1 125
s a a -p-p-p ppp 3 3 1 80
a s a -l-l-p app 3 3 2 2
s a a -l-l-p app 3 3 2 70
s a a -p-p-p ppp 3 3 2 8
a a a -p-p-p ppp 3 3 2 9
s s a +l+p+p aaa 3 3 2 9
s a a -l-l-l apa 3 3 3 10
s s a +l+l+l apa 3 3 3 167
s a a -p-p-p ppp 3 3 3 241
a a a -p-l-l pap 3 3 3 30
s s a +l+p+p aaa 3 3 3 367
s a a -l-l-p app 3 3 3 385
a s a -ld+l aap 3 3 3 3
a a a -p-p-p ppp 3 3 3 450
s a a -p-p-l ppa 3 3 3 66
a a a -p-p-l ppa 3 3 3 68
a s a -l-l-p app 3 3 3 8
s a a -p-l-l pap 3 3 3 91
s s a +l+p+l paa 3 3 3 95
s a a -p-p-l ppa 3 3 4 12
s s a +l+p+l paa 3 3 4 15
a a a -p-p-l ppa 3 3 4 19
s a a -l-l-l apa 3 3 4 19
s s a +ld-p ppa 3 4 1 24
s a a -pd+p paa 3 4 1 6
a a a -pd+p paa 3 4 1 9
a a a -pd+p paa 3 4 2 15
s s a +ld-p ppa 3 4 2 3
s a a -pd+p paa 3 4 2 5
s a a -pd+l ppa 3 4 3 12
a a a -pd+l ppa 3 4 3 13
s a a -p-l-l pap 3 4 3 14
a a a -p-l-l pap 3 4 3 3
s s a +ld-l paa 3 4 3 3
s a a -pd+p paa 3 4 3 44
s s a +ld-p ppa 3 4 3 51
a a a -pd+p paa 3 4 3 80
s s a +l+l+l apa 3 4 3 82
s a a -l-l-p app 4 3 1 2
s a a -l-l-p app 4 3 2 8
a s a -ld+l aap 4 3 3 2
s a a -l-l-p app 4 3 3 33
a s a d+pd aap 4 3 4 114
s a a d+pd aap 4 3 4 8
  1. The notation here follows Webba da Silva [56]. syn/anti indicates the conformation at the glycosidic bond of the first three G's. The loop topology is indicated by letters p (parallel), l (lateral) and d (diagonal) preceded by + or - sign to indicate clockwise or anti clockwise rotation when the first strand is progressing towards the viewer (see Figure 1). Similarly, the parallel or antiparallel (a/p) strand polarity in column 2 is with reference to the first strand and the order is according to the position in the quadruplex (rotating anti-clockwise with the first strand progressing towards the viewer), and in general not according to sequence order. The next three fields indicate loop lengths and the last field indicate the number of built models found with these features.