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bioCIF
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Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C1p_exo anti
A13 : A C2p_endo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C4p_exo anti
A20 : G C3p_endo anti
A21 : A C2p_exo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C2p_exo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C4p_exo anti
A32 : A C2p_endo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A4-A5 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward pairing 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A30-A31 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A11-A26 : outward 
A18-A22 : outward 
Number of stackings = 26
Number of adjacent stackings = 23
Number of non adjacent stackings = 3
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A11-A12 : A-G O2'/C8 adjacent_5p pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Ww/O2' pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
A19-A20 : A-G O2P/Hh adjacent_5p upward pairing 
A31-A32 : U-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C3p_endo anti
A12 : G C1p_exo syn
A13 : A C2p_endo anti
A14 : G C2p_exo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C4p_exo anti
A20 : G C3p_endo anti
A21 : A C2p_exo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C3p_endo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_exo anti
A32 : A C4p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A8-A9 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward pairing 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A33-A34 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A10-A27 : outward 
A18-A22 : outward 
Number of stackings = 25
Number of adjacent stackings = 22
Number of non adjacent stackings = 3
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A7-A32 : C-A Ss/Wh O2'/Ww pairing parallel trans one_hbond 76 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A13 : G-A O2'/Ss adjacent_5p pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Ww/O2' pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
A19-A20 : A-G O2P/Hh adjacent_5p upward pairing 
A30-A31 : A-U O2'/Hh adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C1p_exo anti
A13 : A C2p_endo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C4p_exo anti
A19 : A C3p_exo anti
A20 : G C3p_endo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_endo anti
A26 : G C4p_endo anti
A27 : G C3p_endo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_endo anti
A32 : A C2p_endo syn
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A13-A14 : adjacent_5p upward pairing 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A20-A21 : adjacent_5p outward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
A37-A38 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A9-A28 : outward 
A11-A26 : outward 
A18-A22 : outward 
Number of stackings = 24
Number of adjacent stackings = 20
Number of non adjacent stackings = 4
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A7-A32 : C-A O2'/Ww pairing 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A13 : G-A O2'/Ss adjacent_5p pairing 
A12-A14 : G-G Ww/O2' pairing 
A13-A14 : A-G O2'/Hh adjacent_5p upward pairing 
A13-A26 : A-G Wh/Ss Ww/O2' pairing parallel cis one_hbond 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Ws/O2' pairing 
A14-A27 : G-G Ws/O2P pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C1p_exo anti
A13 : A C2p_endo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_exo anti
A19 : A C4p_exo anti
A20 : G C4p_exo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C2p_exo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_endo anti
A32 : A C4p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A7-A8 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A8-A29 : outward 
A9-A28 : outward 
A11-A26 : outward 
A18-A22 : outward 
Number of stackings = 24
Number of adjacent stackings = 19
Number of non adjacent stackings = 5
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Wh/Ss Ww/O2' pairing parallel trans one_hbond 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A21 : G-A O2'/Bh pairing 
A20-A21 : G-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C3p_endo anti
A12 : G C1p_exo anti
A13 : A C3p_exo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C4p_exo anti
A19 : A C3p_endo anti
A20 : G C2p_exo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C2p_exo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_endo anti
A32 : A C4p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A4-A5 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A7-A8 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A20-A21 : adjacent_5p outward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
A36-A37 : adjacent_5p upward 
A37-A38 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A11-A26 : outward 
A18-A20 : upward pairing 
A18-A22 : outward 
Number of stackings = 28
Number of adjacent stackings = 24
Number of non adjacent stackings = 4
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A7-A32 : C-A O2'/Ww pairing 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Ww/O2' pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh upward pairing 
A19-A20 : A-G O2P/Hh adjacent_5p pairing 
A31-A32 : U-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C3p_endo anti
A12 : G C1p_exo anti
A13 : A C3p_exo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C3p_endo anti
A20 : G C3p_endo anti
A21 : A C2p_exo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C3p_endo anti
A27 : G C3p_endo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C2p_endo anti
A32 : A C3p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A4-A5 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A8-A29 : outward 
A9-A28 : outward 
A18-A22 : outward 
Number of stackings = 25
Number of adjacent stackings = 21
Number of non adjacent stackings = 4
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
A30-A31 : A-U O2'/Hh adjacent_5p pairing 
A31-A32 : U-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C3p_exo syn
A13 : A C2p_endo anti
A14 : G C2p_exo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C3p_endo anti
A20 : G C3p_endo anti
A21 : A C2p_exo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C2p_exo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C2p_endo anti
A32 : A C3p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A4-A5 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A7-A8 : adjacent_5p upward 
A8-A9 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A33-A34 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A8-A29 : outward 
A18-A22 : outward 
Number of stackings = 26
Number of adjacent stackings = 23
Number of non adjacent stackings = 3
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A13 : G-A O2'/Ss adjacent_5p pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
A30-A31 : A-U O2'/Hh adjacent_5p pairing 
A31-A32 : U-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C3p_endo anti
A12 : G C1p_exo anti
A13 : A C3p_exo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C4p_exo anti
A19 : A C3p_endo anti
A20 : G C2p_exo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C3p_endo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_endo anti
A32 : A C4p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A33-A34 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A9-A28 : outward 
A11-A26 : outward 
A18-A20 : upward pairing 
A18-A22 : outward 
Number of stackings = 24
Number of adjacent stackings = 19
Number of non adjacent stackings = 5
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A14 : G-G Hh/O2' pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh upward pairing 
A19-A20 : A-G O2P/Hh adjacent_5p pairing 
A31-A32 : U-A O2'/C8 adjacent_5p pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C1p_exo syn
A13 : A C3p_exo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C4p_exo anti
A19 : A C4p_exo anti
A20 : G C3p_endo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C3p_endo anti
A27 : G C3p_endo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_endo anti
A32 : A C3p_exo syn
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward pairing 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
A36-A37 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A9-A28 : outward 
A11-A26 : outward 
A18-A22 : outward 
Number of stackings = 25
Number of adjacent stackings = 21
Number of non adjacent stackings = 4
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A14 : G-G Hh/O2' pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Wh/Ss pairing parallel trans one_hbond 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
A19-A20 : A-G O2P/Hh adjacent_5p upward pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C1p_exo anti
A13 : A C2p_endo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C3p_endo anti
A20 : G C3p_endo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C2p_exo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C4p_exo anti
A32 : A C4p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A7-A8 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A31-A32 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A33-A34 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
A36-A37 : adjacent_5p upward 
A37-A38 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A11-A26 : outward 
A18-A22 : outward 
Number of stackings = 28
Number of adjacent stackings = 25
Number of non adjacent stackings = 3
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A27 : G-G Hh/O2' pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Ww/O2' pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
A30-A32 : A-A O2'/Hh pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C2p_exo anti
A12 : G C1p_exo anti
A13 : A C2p_endo anti
A14 : G C3p_endo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C3p_endo anti
A20 : G C3p_endo anti
A21 : A C2p_exo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C2p_exo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C3p_endo anti
A32 : A C3p_exo syn
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A9-A10 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A24-A25 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A33-A34 : adjacent_5p upward 
A34-A35 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
A37-A38 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A7-A30 : outward 
A9-A28 : outward 
A11-A26 : outward 
A18-A22 : outward 
Number of stackings = 27
Number of adjacent stackings = 22
Number of non adjacent stackings = 5
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Ww/O2' pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing 
Residue conformations -------------------------------------------
A1 : G C3p_endo anti
A2 : G C3p_endo anti
A3 : G C3p_endo anti
A4 : U C3p_endo anti
A5 : G C3p_endo anti
A6 : A C2p_endo anti
A7 : C C3p_endo anti
A8 : U C3p_endo anti
A9 : C C3p_endo anti
A10 : C C3p_endo anti
A11 : A C3p_endo anti
A12 : G C1p_exo syn
A13 : A C2p_endo anti
A14 : G C2p_exo anti
A15 : G C3p_endo anti
A16 : U C3p_endo anti
A17 : C C3p_endo anti
A18 : G C3p_endo anti
A19 : A C3p_endo anti
A20 : G C3p_endo anti
A21 : A C3p_endo anti
A22 : G C3p_endo anti
A23 : A C3p_endo anti
A24 : C C3p_endo anti
A25 : C C3p_exo anti
A26 : G C2p_exo anti
A27 : G C3p_endo anti
A28 : A C3p_endo anti
A29 : G C3p_endo anti
A30 : A C3p_endo anti
A31 : U C4p_exo anti
A32 : A C4p_exo anti
A33 : U C3p_endo anti
A34 : C C3p_endo anti
A35 : A C3p_endo anti
A36 : C C3p_endo anti
A37 : C C3p_endo anti
A38 : C C3p_endo anti
Adjacent stackings ----------------------------------------------
A1-A2 : adjacent_5p upward 
A2-A3 : adjacent_5p upward 
A3-A4 : adjacent_5p upward 
A5-A6 : adjacent_5p upward 
A8-A9 : adjacent_5p upward 
A14-A15 : adjacent_5p upward 
A15-A16 : adjacent_5p upward 
A16-A17 : adjacent_5p upward 
A17-A18 : adjacent_5p upward 
A19-A20 : adjacent_5p upward 
A20-A21 : adjacent_5p upward 
A22-A23 : adjacent_5p upward 
A23-A24 : adjacent_5p upward 
A26-A27 : adjacent_5p upward 
A27-A28 : adjacent_5p upward 
A28-A29 : adjacent_5p upward 
A29-A30 : adjacent_5p upward 
A31-A32 : adjacent_5p upward 
A32-A33 : adjacent_5p upward 
A33-A34 : adjacent_5p upward 
A35-A36 : adjacent_5p upward 
Non-Adjacent stackings ------------------------------------------
A5-A35 : outward 
A7-A30 : outward 
A18-A22 : outward 
Number of stackings = 24
Number of adjacent stackings = 21
Number of non adjacent stackings = 3
Base-pairs ------------------------------------------------------
A1-A38 : G-C Ww/Ww pairing antiparallel cis XIX 
A2-A37 : G-C Ww/Ww pairing antiparallel cis XIX 
A3-A36 : G-C Ww/Ww pairing antiparallel cis XIX 
A4-A35 : U-A Ww/Ww pairing antiparallel cis XX 
A5-A34 : G-C Ww/Ww pairing antiparallel cis XIX 
A6-A33 : A-U Ww/Ww pairing antiparallel cis XX 
A7-A29 : C-G Ww/Ww pairing antiparallel cis XIX 
A8-A28 : U-A Ww/Ww pairing antiparallel cis XX 
A9-A27 : C-G Ww/Ww pairing antiparallel cis XIX 
A10-A26 : C-G Ww/Ww pairing antiparallel cis XIX 
A12-A13 : G-A O2'/Ss adjacent_5p pairing 
A13-A14 : A-G O2'/Hh adjacent_5p pairing 
A13-A26 : A-G Ww/O2' pairing 
A14-A25 : G-C Ww/Ww pairing antiparallel cis XIX 
A14-A26 : G-G Bs/O2' pairing 
A15-A24 : G-C Ww/Ww pairing antiparallel cis XIX 
A16-A23 : U-A Ww/Ww pairing antiparallel cis XX 
A17-A22 : C-G Ww/Ww pairing antiparallel cis XIX 
A18-A20 : G-G O2'/Hh pairing