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bioCIF
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Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C1p_exo anti
N19 : C C3p_endo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C3p_endo anti
N24 : C C2p_exo anti
N25 : U C3p_endo anti
N26 : G C4p_exo anti
N27 : A C4p_exo anti
N28 : G C3p_endo anti
N29 : C C3p_endo anti
N30 : C C2p_exo anti
N31 : U C3p_endo anti
N32 : G C2p_exo anti
N33 : G C2p_exo anti
N34 : G C2p_exo syn
N35 : A C2p_exo anti
N36 : G C3p_endo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C C3p_endo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N18-N19 : adjacent_5p outward pairing 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
N18-N45 : inward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N18-N19 : G-C O2'/Hh adjacent_5p outward pairing 
N18-N43 : G-G Ws/Wh pairing parallel trans one_hbond 
N18-N44 : G-C Ww/Ws pairing antiparallel cis one_hbond 130 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N34 : C-G Ss/Ws pairing antiparallel cis one_hbond 127 
N33-N34 : G-G O2P/Bs adjacent_5p pairing 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C2p_exo anti
N19 : C C3p_endo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C3p_endo anti
N24 : C C2p_exo anti
N25 : U C1p_exo anti
N26 : G C4p_exo anti
N27 : A C3p_endo anti
N28 : G C3p_endo anti
N29 : C C3p_endo anti
N30 : C C2p_exo anti
N31 : U C4p_endo anti
N32 : G C3p_endo anti
N33 : G C2p_endo anti
N34 : G C2p_exo anti
N35 : A C2p_endo anti
N36 : G C3p_endo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C3p_endo anti
N41 : C C3p_endo anti
N42 : U C3p_endo anti
N43 : G C4p_exo anti
N44 : C C2p_exo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward pairing 
N38-N39 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N44 : G-C Bh/Wh pairing antiparallel cis one_hbond 
N17-N45 : G-C Ww/Ww pairing antiparallel cis 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N30 : C-C O2P/Bh adjacent_5p upward pairing 
N29-N36 : C-G Wh/Wh pairing antiparallel cis one_hbond 
N33-N34 : G-G O2P/Bs adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C3p_endo anti
N24 : C C3p_endo anti
N25 : U C2p_endo syn
N26 : G C3p_endo anti
N27 : A C4p_exo anti
N28 : G C4p_exo anti
N29 : C C3p_endo anti
N30 : C C2p_exo anti
N31 : U C2p_exo anti
N32 : G C3p_exo anti
N33 : G C2p_exo anti
N34 : G C3p_endo syn
N35 : A C1p_endo anti
N36 : G C2p_exo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C4p_exo anti
N45 : C C2p_exo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N26 : A-G Wh/Hw pairing parallel cis one_hbond 
N22-N40 : A-U Ww/Ww pairing antiparallel cis one_hbond 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis 
N29-N36 : C-G Ww/Ww pairing antiparallel cis 
N30-N34 : C-G Ss/Ws O2'/Bs pairing antiparallel cis one_hbond 127 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
N35-N36 : A-G Ww/O2' adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C2p_exo anti
N19 : C C2p_exo anti
N20 : A C2p_exo anti
N21 : G C2p_exo anti
N22 : A C3p_endo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U C1p_exo anti
N26 : G C4p_exo anti
N27 : A C4p_exo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C3p_endo anti
N31 : U C3p_exo anti
N32 : G O4p_endo anti
N33 : G C2p_exo anti
N34 : G C3p_endo syn
N35 : A C3p_endo anti
N36 : G C2p_exo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C2p_exo anti
N43 : G C2p_exo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N18-N19 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 14
Number of adjacent stackings = 13
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis one_hbond 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N33-N34 : G-G O2'/Ss adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C2p_exo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C4p_exo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C2p_exo syn
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C3p_endo anti
N30 : C C3p_endo anti
N31 : U C3p_endo anti
N32 : G C3p_endo anti
N33 : G C3p_exo anti
N34 : G C2p_exo syn
N35 : A C3p_exo anti
N36 : G C3p_endo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C2p_exo anti
N43 : G C2p_exo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N18-N45 : outward 
N20-N43 : outward 
Number of stackings = 16
Number of adjacent stackings = 14
Number of non adjacent stackings = 2
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N25 : A-U Ss/Hh pairing antiparallel trans one_hbond 
N22-N26 : A-G Wh/Hw pairing parallel cis one_hbond 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis 
N32-N33 : G-G O2'/Hh adjacent_5p pairing 
N34-N35 : G-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo syn
N18 : G C1p_exo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C3p_endo anti
N24 : C C2p_exo anti
N25 : U C3p_endo syn
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C3p_endo anti
N31 : U C2p_endo anti
N32 : G C3p_exo anti
N33 : G C2p_endo anti
N34 : G C2p_exo anti
N35 : A C2p_exo anti
N36 : G C2p_exo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C2p_exo anti
N43 : G C3p_endo anti
N44 : C C1p_endo anti
N45 : C O4p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p downward 
N18-N19 : adjacent_5p outward pairing 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
N34-N36 : upward 
Number of stackings = 16
Number of adjacent stackings = 15
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N18-N19 : G-C O2'/Hh adjacent_5p outward pairing 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N18-N45 : G-C Bs/O2' pairing 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis one_hbond 
N21-N41 : G-C Ww/Ww pairing antiparallel cis 
N22-N40 : A-U Ww/Ww pairing antiparallel cis one_hbond 
N26-N39 : G-C Ww/Ws pairing antiparallel cis one_hbond 130 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis 
N30-N34 : C-G Bs/Ww O2'/Bs pairing antiparallel cis one_hbond 127 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
N35-N36 : A-G Ww/O2' adjacent_5p pairing 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C2p_exo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C1p_exo syn
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C3p_endo anti
N31 : U C2p_exo anti
N32 : G C2p_exo anti
N33 : G C2p_endo anti
N34 : G C1p_endo anti
N35 : A C3p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C2p_exo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
Number of stackings = 15
Number of adjacent stackings = 15
Number of non adjacent stackings = 0
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N31 : C-U O2'/Hh adjacent_5p pairing 
N32-N33 : G-G O2'/Hh adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C2p_exo anti
N19 : C C3p_endo anti
N20 : A C3p_endo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C2p_endo syn
N26 : G C3p_endo anti
N27 : A C3p_endo anti
N28 : G C4p_exo anti
N29 : C C3p_endo anti
N30 : C C2p_exo anti
N31 : U O4p_endo anti
N32 : G C3p_exo anti
N33 : G C3p_endo anti
N34 : G C2p_exo anti
N35 : A C2p_endo anti
N36 : G C2p_exo anti
N37 : C C4p_exo anti
N38 : U C3p_endo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C2p_exo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 130 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis 
N29-N36 : C-G Ww/Ww pairing antiparallel cis 
N30-N34 : C-G O2'/Bs pairing 
N31-N36 : U-G Hw/Sw pairing parallel trans one_hbond 89 
N32-N33 : G-G O2P/Ss adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C3p_endo syn
N18 : G C1p_exo anti
N19 : C C2p_exo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C2p_endo syn
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C3p_endo anti
N31 : U C1p_exo anti
N32 : G C4p_exo anti
N33 : G C3p_exo anti
N34 : G C1p_endo anti
N35 : A C2p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C O4p_endo anti
N42 : U C4p_exo anti
N43 : G C2p_exo anti
N44 : C C2p_exo anti
N45 : C C4p_exo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p downward 
N18-N19 : adjacent_5p outward pairing 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
N34-N36 : upward 
Number of stackings = 17
Number of adjacent stackings = 16
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N18-N19 : G-C O2'/Hh adjacent_5p outward pairing 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N18-N45 : G-C Bs/O2' Ss/O2' pairing 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N33-N34 : G-G O2P/Ss adjacent_5p pairing 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C2p_exo anti
N19 : C C3p_endo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U C1p_exo anti
N26 : G C4p_exo anti
N27 : A C2p_exo anti
N28 : G C3p_endo anti
N29 : C C2p_exo anti
N30 : C C2p_exo anti
N31 : U C3p_exo anti
N32 : G C2p_exo anti
N33 : G C3p_exo anti
N34 : G C1p_endo syn
N35 : A C3p_exo anti
N36 : G C2p_exo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C2p_exo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 14
Number of adjacent stackings = 13
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis one_hbond 130 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis one_hbond 130 
N31-N32 : U-G O2'/Hh adjacent_5p pairing 
N34-N35 : G-A O2'/C8 adjacent_5p pairing 
N34-N37 : G-C Hh/O2P pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C2p_exo anti
N21 : G C4p_exo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C1p_exo syn
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C3p_endo anti
N31 : U C2p_exo anti
N32 : G C1p_exo anti
N33 : G C3p_endo anti
N34 : G C2p_exo anti
N35 : A C2p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C2p_exo anti
N44 : C C2p_exo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
N34-N36 : upward 
Number of stackings = 18
Number of adjacent stackings = 16
Number of non adjacent stackings = 2
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N26 : A-G Wh/Hw pairing parallel cis one_hbond 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N31-N32 : U-G O2'/C8 adjacent_5p pairing 
N33-N34 : G-G Sw/Wh O2'/C8 adjacent_5p pairing antiparallel cis one_hbond 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C1p_exo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U C2p_endo syn
N26 : G C3p_endo anti
N27 : A C3p_endo anti
N28 : G C4p_exo anti
N29 : C C3p_endo anti
N30 : C C2p_exo anti
N31 : U C4p_endo anti
N32 : G C3p_exo anti
N33 : G C2p_exo anti
N34 : G C3p_endo syn
N35 : A C2p_endo anti
N36 : G C3p_endo anti
N37 : C C2p_exo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C2p_exo anti
N43 : G C3p_endo anti
N44 : C C2p_exo anti
N45 : C O4p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis 
N18-N19 : G-C O2'/Hh adjacent_5p pairing 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N18-N45 : G-C Bs/O2' pairing 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N25 : A-U O2'/Hh O2'/Ww pairing 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Wh/Wh pairing antiparallel cis one_hbond 
N33-N34 : G-G O2'/C8 adjacent_5p pairing 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C3p_endo syn
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C2p_exo anti
N31 : U C3p_endo anti
N32 : G C1p_endo syn
N33 : G C2p_endo anti
N34 : G C1p_endo syn
N35 : A C3p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C2p_exo anti
N44 : C C2p_exo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis one_hbond 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N23-N34 : U-G Ww/Hw pairing antiparallel trans one_hbond 
N26-N39 : G-C Ww/Ws pairing antiparallel cis one_hbond 130 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N33-N35 : G-A O2P/Bh pairing 
N34-N35 : G-A O2'/Hh O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C2p_exo anti
N19 : C C3p_endo anti
N20 : A C3p_endo anti
N21 : G C4p_exo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U O4p_endo anti
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G O4p_endo anti
N29 : C C2p_exo anti
N30 : C C2p_exo anti
N31 : U C3p_endo anti
N32 : G C3p_endo anti
N33 : G C2p_endo anti
N34 : G C2p_exo anti
N35 : A C3p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C2p_exo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
Number of stackings = 16
Number of adjacent stackings = 16
Number of non adjacent stackings = 0
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N34 : C-G Bs/Ww pairing antiparallel cis 127 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C1p_exo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C4p_exo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U C3p_exo syn
N26 : G C4p_exo anti
N27 : A C2p_exo anti
N28 : G C3p_endo anti
N29 : C C2p_exo anti
N30 : C C2p_endo anti
N31 : U C2p_exo anti
N32 : G C3p_exo anti
N33 : G C3p_exo syn
N34 : G C2p_exo syn
N35 : A C3p_endo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C3p_endo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C1p_endo anti
N45 : C C4p_exo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
Number of stackings = 14
Number of adjacent stackings = 14
Number of non adjacent stackings = 0
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis one_hbond 
N18-N19 : G-C O2'/Hh adjacent_5p pairing 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N18-N45 : G-C Bs/O2' pairing 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N34 : C-G Wh/Wh pairing antiparallel cis one_hbond 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N34 : C-G Bs/Ww pairing antiparallel cis 127 
N31-N32 : U-G O2'/Ss adjacent_5p pairing 
N32-N33 : G-G Sw/Wh adjacent_5p pairing parallel cis one_hbond 114 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C2p_exo anti
N25 : U C2p_endo anti
N26 : G C3p_endo anti
N27 : A C3p_endo anti
N28 : G C4p_exo anti
N29 : C C2p_exo anti
N30 : C C3p_endo anti
N31 : U C3p_endo anti
N32 : G C3p_endo anti
N33 : G C2p_exo anti
N34 : G C1p_endo syn
N35 : A C2p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C3p_endo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C3p_endo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
Number of stackings = 16
Number of adjacent stackings = 16
Number of non adjacent stackings = 0
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis 130 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N34 : C-G Ww/Ww pairing antiparallel cis one_hbond 
N33-N34 : G-G O2P/Bs adjacent_5p pairing 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C1p_exo anti
N19 : C C2p_exo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C3p_endo anti
N24 : C C3p_endo anti
N25 : U C3p_endo anti
N26 : G C3p_endo anti
N27 : A C2p_exo anti
N28 : G C4p_exo anti
N29 : C C3p_endo anti
N30 : C C2p_exo anti
N31 : U C3p_exo anti
N32 : G C2p_exo anti
N33 : G C3p_exo anti
N34 : G C2p_exo syn
N35 : A C2p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C C4p_exo anti
N42 : U C2p_exo anti
N43 : G C3p_endo anti
N44 : C C1p_endo anti
N45 : C C4p_exo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N18-N19 : adjacent_5p outward pairing 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 14
Number of adjacent stackings = 13
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N19 : G-C O2'/Hh adjacent_5p outward pairing 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N18-N45 : G-C Bs/O2' pairing 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis 
N22-N26 : A-G Wh/Hw pairing parallel cis one_hbond 
N25-N26 : U-G O2'/C8 adjacent_5p pairing 
N26-N39 : G-C Ww/Ww pairing antiparallel cis 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
N34-N36 : G-G Hh/O2P pairing 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C2p_exo anti
N22 : A C2p_exo anti
N23 : U C3p_endo anti
N24 : C C2p_exo anti
N25 : U C1p_endo anti
N26 : G C3p_endo anti
N27 : A C3p_endo anti
N28 : G C3p_endo anti
N29 : C C3p_endo anti
N30 : C C3p_endo anti
N31 : U C3p_exo anti
N32 : G C2p_exo anti
N33 : G C2p_endo anti
N34 : G C2p_exo syn
N35 : A C3p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C C4p_exo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C2p_exo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward pairing 
N30-N31 : adjacent_5p upward 
N37-N38 : adjacent_5p upward 
N38-N39 : adjacent_5p upward 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N20-N43 : outward 
Number of stackings = 18
Number of adjacent stackings = 17
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N1-N22 : ARG-A pairing one_hbond 
N17-N45 : G-C Ww/Ww pairing antiparallel cis XIX 
N18-N44 : G-C Ww/Ww pairing antiparallel cis XIX 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N25-N41 : U-C Ww/O2' pairing 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N30 : C-C O2P/Bh adjacent_5p upward pairing 
N29-N36 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N34 : C-G O2'/Bs pairing 
N33-N34 : G-G O2P/Bs adjacent_5p pairing 
Residue conformations -------------------------------------------
N17 : G C3p_endo anti
N18 : G C1p_exo anti
N19 : C C2p_exo anti
N20 : A C2p_exo anti
N21 : G C3p_endo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U C3p_exo syn
N26 : G C4p_exo anti
N27 : A C4p_exo anti
N28 : G C4p_exo anti
N29 : C C3p_endo anti
N30 : C C3p_endo anti
N31 : U O4p_endo anti
N32 : G C2p_exo anti
N33 : G C2p_exo anti
N34 : G C3p_endo anti
N35 : A C2p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C4p_exo anti
N39 : C C2p_exo anti
N40 : U C3p_endo anti
N41 : C C3p_endo anti
N42 : U C2p_exo anti
N43 : G C2p_exo anti
N44 : C C3p_endo anti
N45 : C O4p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p downward 
N18-N19 : adjacent_5p outward pairing 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N28-N29 : adjacent_5p upward 
N29-N30 : adjacent_5p upward pairing 
N39-N40 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N43-N44 : adjacent_5p inward 
Non-Adjacent stackings ------------------------------------------
N27-N39 : outward 
Number of stackings = 13
Number of adjacent stackings = 12
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N18-N19 : G-C O2'/Hh adjacent_5p outward pairing 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N18-N45 : G-C Bs/O2' pairing 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis XIX 
N22-N40 : A-U Ww/Ww pairing antiparallel cis XX 
N23-N33 : U-G O2P/Bs pairing 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N28-N37 : G-C Ww/Ww pairing antiparallel cis XIX 
N29-N30 : C-C O2P/Bh adjacent_5p upward pairing 
N29-N31 : C-U O2P/Ww pairing 
N29-N36 : C-G Ww/Ww pairing antiparallel cis 
N30-N34 : C-G Ws/Ws pairing antiparallel cis one_hbond 
N33-N34 : G-G O2'/C8 adjacent_5p pairing 
N34-N35 : G-A O2'/Hh adjacent_5p pairing 
N35-N36 : A-G Ww/O2' adjacent_5p pairing 
N43-N45 : G-C Hh/O2P pairing 
N44-N45 : C-C Ss/Hh adjacent_5p pairing parallel cis one_hbond 
Residue conformations -------------------------------------------
N17 : G C2p_exo anti
N18 : G C3p_endo anti
N19 : C C2p_exo anti
N20 : A C3p_endo anti
N21 : G C2p_exo anti
N22 : A C2p_exo anti
N23 : U C2p_exo anti
N24 : C C3p_endo anti
N25 : U C2p_endo syn
N26 : G C4p_exo anti
N27 : A C4p_exo anti
N28 : G C3p_endo anti
N29 : C C2p_exo anti
N30 : C C2p_exo anti
N31 : U C2p_endo anti
N32 : G C2p_exo anti
N33 : G C2p_exo anti
N34 : G C2p_exo syn
N35 : A C3p_exo anti
N36 : G C2p_exo anti
N37 : C C3p_endo anti
N38 : U C3p_endo anti
N39 : C C3p_endo anti
N40 : U C2p_exo anti
N41 : C C3p_endo anti
N42 : U C3p_endo anti
N43 : G C3p_endo anti
N44 : C C2p_exo anti
N45 : C C3p_endo anti
N1 : ARG
Adjacent stackings ----------------------------------------------
N17-N18 : adjacent_5p upward 
N18-N19 : adjacent_5p upward 
N19-N20 : adjacent_5p upward 
N20-N21 : adjacent_5p upward 
N21-N22 : adjacent_5p upward 
N26-N27 : adjacent_5p upward 
N27-N28 : adjacent_5p upward 
N29-N30 : adjacent_5p upward 
N36-N37 : adjacent_5p upward 
N40-N41 : adjacent_5p upward 
N41-N42 : adjacent_5p upward 
N42-N43 : adjacent_5p upward 
N43-N44 : adjacent_5p upward 
N44-N45 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
N34-N36 : upward 
Number of stackings = 15
Number of adjacent stackings = 14
Number of non adjacent stackings = 1
Base-pairs ------------------------------------------------------
N17-N45 : G-C Ww/Ws pairing antiparallel cis one_hbond 130 
N18-N44 : G-C Ww/Ww pairing antiparallel cis 
N19-N43 : C-G Ww/Ww pairing antiparallel cis XIX 
N20-N42 : A-U Ww/Ww pairing antiparallel cis XX 
N21-N41 : G-C Ww/Ww pairing antiparallel cis 
N22-N40 : A-U Ww/Ww pairing antiparallel cis one_hbond 
N26-N39 : G-C Ww/Ww pairing antiparallel cis XIX 
N27-N38 : A-U Ww/Ww pairing antiparallel cis XX 
N29-N34 : C-G Ww/Ww pairing antiparallel cis XIX 
N30-N33 : C-G O2'/Ss O2'/C8 pairing 
N33-N34 : G-G O2'/Ss adjacent_5p pairing