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Ok, but I don't see it working on my screen. I tried !Weird. Then your settings are not the default. You can type the formatting BBcode (http://en.wikipedia.org/wiki/BBCode) manually, as below:
I join a pdb file that contains segid and that was generated by pymol.Thanks for sample PDB file with segid.
Any timeline for a new version ?It won't be long, hopefully. In the meantime, could you reply to my posts that address your previous requests?
Run: x3dna-dssr -i=100d.py.pdb -o=100d.py.out --long-idstr --note=no
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DSSR: Software for Defining the (Secondary) Structures of RNA
by Xiang-Jun Lu (xiangjun@x3dna.org), beta-r13-on-20130618
The program is currently under active development. As always, we
greatly appreciate your feedback! Please report all DSSR-related
issues on the 3DNA Forum (http://forum.x3dna.org/). I strive to
respond promptly to any questions posted there.
****************************************************************************
Date and time: Tue Jun 18 22:23:15 2013
File name: 100d.py.pdb
no. of DNA/RNA chains: 2 [A=24, B=25]
no. of nucleotides: 49
no. of waters: 92
no. of metals: 0
****************************************************************************
List of 35 base pair(s)
1 ..A.C.1. ..B.G.20. C-G WC 19-XIX cWW cW-W
-161.7(anti) C3'-endo lambda=54.3; -147.2(anti) C3'-endo lambda=54.3
d(C1'-C1')=10.74 d(N1-N9)=9.02 d(C6-C8)=9.92 tor(N1-C1'-C1'-N9)=-17.1
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.77]; N3-N1(imino)[2.93]; N4(amino)-O6(carbonyl)[2.93]"
bp_pars: [0.07 -0.09 0.04 3.92 -8.78 -0.90]
2 ..A.DC.2. ..B.DG.19. C-G WC 19-XIX cWW cW-W
-163.8(anti) C3'-endo lambda=52.9; -173.5(anti) C3'-endo lambda=52.9
d(C1'-C1')=10.70 d(N1-N9)=8.93 d(C6-C8)=9.82 tor(N1-C1'-C1'-N9)=-13.1
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.72]; N3-N1(imino)[2.87]; N4(amino)-O6(carbonyl)[2.83]"
bp_pars: [-0.02 -0.17 -0.06 4.83 -9.56 -1.89]
3 ..A.DG.3. ..B.DC.18. G-C WC 19-XIX cWW cW-W
-156.0(anti) C3'-endo lambda=55.2; -163.4(anti) C3'-endo lambda=54.8
d(C1'-C1')=10.58 d(N1-N9)=8.90 d(C6-C8)=9.85 tor(N1-C1'-C1'-N9)=-17.6
H-bonds[3]: "O6(carbonyl)-N4(amino)[3.08]; N1(imino)-N3[2.91]; N2(amino)-O2(carbonyl)[2.68]"
bp_pars: [-0.35 -0.16 -0.04 2.66 -10.59 1.38]
4 ..A.DG.3. .B00A.A.G.10. G-G 00-n/a c.S c.-m
-156.0(anti) C3'-endo lambda=108.7; -153.1(anti) C3'-endo lambda=149.2
d(C1'-C1')=5.60 d(N1-N9)=7.39 d(C6-C8)=9.83 tor(N1-C1'-C1'-N9)=-26.9
H-bonds[2]: "N2(amino)-N3[3.23]; N3-O2'(hydroxyl)[2.69]"
bp_pars: [-2.57 7.21 -2.45 -44.65 21.25 152.60]
5 ..A.DG.4. ..B.DC.17. G-C WC 19-XIX cWW cW-W
-143.6(anti) C3'-endo lambda=53.5; -161.7(anti) C3'-endo lambda=53.8
d(C1'-C1')=10.66 d(N1-N9)=8.91 d(C6-C8)=9.84 tor(N1-C1'-C1'-N9)=-23.0
H-bonds[3]: "O6(carbonyl)-N4(amino)[2.88]; N1(imino)-N3[2.80]; N2(amino)-O2(carbonyl)[2.67]"
bp_pars: [-0.24 -0.20 0.09 -2.07 -10.90 0.44]
6 ..A.DG.4. .B00A.A.G.10. G-G 00-n/a cSS tm-m
-143.6(anti) C3'-endo lambda=110.1; -153.1(anti) C3'-endo lambda=103.0
d(C1'-C1')=4.65 d(N1-N9)=5.97 d(C6-C8)=7.86 tor(N1-C1'-C1'-N9)=109.9
H-bonds[1]: "N3-N2(amino)[3.15]"
bp_pars: [-2.15 -7.43 1.59 46.36 -29.54 -165.95]
7 ..A.DG.4. .B00A.B.C.11. G+C 00-n/a tS. tm+.
-143.6(anti) C3'-endo lambda=82.8; -159.1(anti) C3'-endo lambda=73.0
d(C1'-C1')=9.02 d(N1-N9)=8.85 d(C6-C8)=11.20 tor(N1-C1'-C1'-N9)=-147.3
H-bonds[1]: "N2(amino)-O2(carbonyl)[3.36]"
bp_pars: [-2.30 -7.57 2.20 41.36 -27.41 -161.33]
8 ..A.DC.5. ..B.DG.16. C-G WC 19-XIX cWW cW-W
-163.6(anti) C3'-endo lambda=57.0; -164.3(anti) C3'-endo lambda=55.2
d(C1'-C1')=10.41 d(N1-N9)=8.78 d(C6-C8)=9.71 tor(N1-C1'-C1'-N9)=-15.6
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.73]; N3-N1(imino)[2.81]; N4(amino)-O6(carbonyl)[2.84]"
bp_pars: [0.38 -0.31 0.40 3.58 -12.55 -0.99]
9 ..A.DG.6. ..B.DC.15. G-C WC 19-XIX cWW cW-W
-158.8(anti) C3'-endo lambda=54.6; -152.0(anti) C2'-exo lambda=55.3
d(C1'-C1')=10.85 d(N1-N9)=9.16 d(C6-C8)=10.10 tor(N1-C1'-C1'-N9)=-24.1
H-bonds[3]: "O6(carbonyl)-N4(amino)[3.02]; N1(imino)-N3[3.07]; N2(amino)-O2(carbonyl)[2.91]"
bp_pars: [-0.16 0.05 0.03 -1.64 -16.84 0.00]
10 ..A.DC.7. ..B.DG.14. C-G WC 19-XIX cWW cW-W
-153.4(anti) C3'-endo lambda=56.2; -162.2(anti) C3'-endo lambda=54.8
d(C1'-C1')=10.52 d(N1-N9)=8.85 d(C6-C8)=9.78 tor(N1-C1'-C1'-N9)=-15.6
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.67]; N3-N1(imino)[2.81]; N4(amino)-O6(carbonyl)[2.85]"
bp_pars: [0.42 -0.26 -0.10 2.69 -7.28 0.66]
11 ..A.DC.7. .D000.B.G.20. C+G 00-n/a tSW tm+W
-153.4(anti) C3'-endo lambda=86.2; -147.2(anti) C3'-endo lambda=51.8
d(C1'-C1')=8.36 d(N1-N9)=7.77 d(C6-C8)=9.62 tor(N1-C1'-C1'-N9)=145.0
H-bonds[1]: "O2(carbonyl)-N2(amino)[2.92]"
bp_pars: [-2.42 -7.23 2.20 -58.75 -25.30 -144.63]
12 ..A.DC.8. ..B.DG.13. C-G WC 19-XIX cWW cW-W
-170.0(anti) C3'-endo lambda=57.0; -178.7(anti) C2'-exo lambda=52.7
d(C1'-C1')=10.66 d(N1-N9)=8.96 d(C6-C8)=9.90 tor(N1-C1'-C1'-N9)=-5.4
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.74]; N3-N1(imino)[2.96]; N4(amino)-O6(carbonyl)[3.06]"
bp_pars: [0.53 -0.13 -0.14 2.56 -6.75 2.31]
13 ..A.DG.9. ..B.DC.12. G-C WC 19-XIX cWW cW-W
-172.0(anti) C3'-endo lambda=50.1; -151.8(anti) C3'-endo lambda=55.4
d(C1'-C1')=10.78 d(N1-N9)=8.97 d(C6-C8)=9.86 tor(N1-C1'-C1'-N9)=-7.2
H-bonds[3]: "O6(carbonyl)-N4(amino)[2.88]; N1(imino)-N3[2.85]; N2(amino)-O2(carbonyl)[2.69]"
bp_pars: [-0.09 -0.14 -0.09 -3.82 -2.75 0.30]
14 ..A.G.10. ..B.C.11. G-C WC 19-XIX cWW cW-W
-153.1(anti) C3'-endo lambda=51.2; -159.1(anti) C3'-endo lambda=53.6
d(C1'-C1')=10.60 d(N1-N9)=8.79 d(C6-C8)=9.60 tor(N1-C1'-C1'-N9)=-14.5
H-bonds[3]: "O6(carbonyl)-N4(amino)[2.63]; N1(imino)-N3[2.67]; N2(amino)-O2(carbonyl)[2.64]"
bp_pars: [-0.26 -0.41 -0.03 -0.15 -5.96 -3.32]
15 ..A.G.10. .B000.A.DG.3. G-G 00-n/a cS. cm-.
-153.1(anti) C3'-endo lambda=149.2; -156.0(anti) C3'-endo lambda=108.7
d(C1'-C1')=5.60 d(N1-N9)=7.39 d(C6-C8)=9.83 tor(N1-C1'-C1'-N9)=-26.9
H-bonds[2]: "O2'(hydroxyl)-N3[2.69]; N3-N2(amino)[3.23]"
bp_pars: [2.57 7.21 -2.45 44.65 21.25 152.60]
16 ..A.G.10. .B000.A.DG.4. G-G 00-n/a cSS tm-m
-153.1(anti) C3'-endo lambda=103.0; -143.6(anti) C3'-endo lambda=110.1
d(C1'-C1')=4.65 d(N1-N9)=5.97 d(C6-C8)=7.86 tor(N1-C1'-C1'-N9)=109.9
H-bonds[1]: "N2(amino)-N3[3.15]"
bp_pars: [2.15 -7.43 1.59 -46.36 -29.54 -165.95]
17 ..A.G.10. .B000.B.DC.18. G+C 00-n/a tWS tW+m
-153.1(anti) C3'-endo lambda=58.2; -163.4(anti) C3'-endo lambda=85.5
d(C1'-C1')=8.53 d(N1-N9)=8.08 d(C6-C8)=10.10 tor(N1-C1'-C1'-N9)=150.3
H-bonds[1]: "N2(amino)-O2(carbonyl)[3.02]"
bp_pars: [2.68 7.77 -1.82 55.69 20.84 153.44]
18 ..B.C.11. .B000.A.DG.4. C+G 00-n/a t.S t.+m
-159.1(anti) C3'-endo lambda=73.0; -143.6(anti) C3'-endo lambda=82.8
d(C1'-C1')=9.02 d(N1-N9)=8.85 d(C6-C8)=11.20 tor(N1-C1'-C1'-N9)=-147.3
H-bonds[1]: "O2(carbonyl)-N2(amino)[3.36]"
bp_pars: [2.30 7.57 -2.20 -41.36 27.41 161.33]
19 ..B.DG.14. .D000.B.G.20. G-G 00-n/a cWS cW-m
-162.2(anti) C3'-endo lambda=106.8; -147.2(anti) C3'-endo lambda=144.4
d(C1'-C1')=5.59 d(N1-N9)=7.23 d(C6-C8)=9.62 tor(N1-C1'-C1'-N9)=-16.3
H-bonds[2]: "N2(amino)-N3[2.91]; N3-O2'(hydroxyl)[2.76]"
bp_pars: [-2.32 6.66 -2.35 -52.39 21.07 146.45]
20 ..B.DC.15. .D000.B.G.20. C-G 00-n/a cSS tm-m
-152.0(anti) C2'-exo lambda=109.8; -147.2(anti) C3'-endo lambda=109.9
d(C1'-C1')=5.30 d(N1-N9)=6.63 d(C6-C8)=8.75 tor(N1-C1'-C1'-N9)=95.6
H-bonds[1]: "O2(carbonyl)-N2(amino)[3.10]"
bp_pars: [1.68 7.67 0.61 -44.53 37.97 179.58]
21 ..B.DC.18. .B00A.A.G.10. C+G 00-n/a tSW tm+W
-163.4(anti) C3'-endo lambda=85.5; -153.1(anti) C3'-endo lambda=58.2
d(C1'-C1')=8.53 d(N1-N9)=8.08 d(C6-C8)=10.10 tor(N1-C1'-C1'-N9)=150.3
H-bonds[1]: "O2(carbonyl)-N2(amino)[3.02]"
bp_pars: [-2.68 -7.77 1.82 -55.69 -20.84 -153.44]
22 ..B.G.20. .D0A0.A.DC.7. G+C 00-n/a tWS tW+m
-147.2(anti) C3'-endo lambda=51.8; -153.4(anti) C3'-endo lambda=86.2
d(C1'-C1')=8.36 d(N1-N9)=7.77 d(C6-C8)=9.62 tor(N1-C1'-C1'-N9)=145.0
H-bonds[1]: "N2(amino)-O2(carbonyl)[2.92]"
bp_pars: [2.42 7.23 -2.20 58.75 25.30 144.63]
23 ..B.G.20. .D0A0.B.DG.14. G-G 00-n/a cSW cm-W
-147.2(anti) C3'-endo lambda=144.4; -162.2(anti) C3'-endo lambda=106.8
d(C1'-C1')=5.59 d(N1-N9)=7.23 d(C6-C8)=9.62 tor(N1-C1'-C1'-N9)=-16.3
H-bonds[2]: "O2'(hydroxyl)-N3[2.76]; N3-N2(amino)[2.91]"
bp_pars: [2.32 6.66 -2.35 52.39 21.07 146.45]
24 ..B.G.20. .D0A0.B.DC.15. G-C 00-n/a cSS tm-m
-147.2(anti) C3'-endo lambda=109.9; -152.0(anti) C2'-exo lambda=109.8
d(C1'-C1')=5.30 d(N1-N9)=6.63 d(C6-C8)=8.75 tor(N1-C1'-C1'-N9)=95.6
H-bonds[1]: "N2(amino)-O2(carbonyl)[3.10]"
bp_pars: [-1.68 7.67 0.61 44.53 37.97 179.58]
25 .B000.A.DG.3. .B000.B.DC.18. G-C WC 19-XIX cWW cW-W
-156.0(anti) C3'-endo lambda=55.2; -163.4(anti) C3'-endo lambda=54.8
d(C1'-C1')=10.58 d(N1-N9)=8.90 d(C6-C8)=9.85 tor(N1-C1'-C1'-N9)=-17.6
H-bonds[3]: "O6(carbonyl)-N4(amino)[3.08]; N1(imino)-N3[2.91]; N2(amino)-O2(carbonyl)[2.68]"
bp_pars: [-0.35 -0.16 -0.04 2.66 -10.59 1.38]
26 .B000.A.DG.4. .B000.B.DC.17. G-C WC 19-XIX cWW cW-W
-143.6(anti) C3'-endo lambda=53.5; -161.7(anti) C3'-endo lambda=53.8
d(C1'-C1')=10.66 d(N1-N9)=8.91 d(C6-C8)=9.84 tor(N1-C1'-C1'-N9)=-23.0
H-bonds[3]: "O6(carbonyl)-N4(amino)[2.88]; N1(imino)-N3[2.80]; N2(amino)-O2(carbonyl)[2.67]"
bp_pars: [-0.24 -0.20 0.09 -2.07 -10.90 0.44]
27 .B000.B.G.20. .CA00.B.DG.14. G-G 00-n/a cSW cm-W
-147.2(anti) C3'-endo lambda=144.4; -162.2(anti) C3'-endo lambda=106.8
d(C1'-C1')=5.59 d(N1-N9)=7.23 d(C6-C8)=9.62 tor(N1-C1'-C1'-N9)=-16.3
H-bonds[2]: "O2'(hydroxyl)-N3[2.76]; N3-N2(amino)[2.91]"
bp_pars: [2.32 6.66 -2.35 52.39 21.07 146.45]
28 .B000.B.G.20. .CA00.B.DC.15. G-C 00-n/a cSS tm-m
-147.2(anti) C3'-endo lambda=109.9; -152.0(anti) C2'-exo lambda=109.8
d(C1'-C1')=5.30 d(N1-N9)=6.63 d(C6-C8)=8.75 tor(N1-C1'-C1'-N9)=95.6
H-bonds[1]: "N2(amino)-O2(carbonyl)[3.10]"
bp_pars: [-1.68 7.67 0.61 44.53 37.97 179.58]
29 .C000.A.G.10. .D000.A.DG.3. G-G 00-n/a cS. cm-.
-153.1(anti) C3'-endo lambda=149.2; -156.0(anti) C3'-endo lambda=108.7
d(C1'-C1')=5.60 d(N1-N9)=7.39 d(C6-C8)=9.83 tor(N1-C1'-C1'-N9)=-26.9
H-bonds[2]: "O2'(hydroxyl)-N3[2.69]; N3-N2(amino)[3.23]"
bp_pars: [2.57 7.21 -2.45 44.65 21.25 152.60]
30 .D000.A.C.1. .D000.B.G.20. C-G WC 19-XIX cWW cW-W
-161.7(anti) C3'-endo lambda=54.3; -147.2(anti) C3'-endo lambda=54.3
d(C1'-C1')=10.74 d(N1-N9)=9.02 d(C6-C8)=9.92 tor(N1-C1'-C1'-N9)=-17.1
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.77]; N3-N1(imino)[2.93]; N4(amino)-O6(carbonyl)[2.93]"
bp_pars: [0.07 -0.09 0.04 3.92 -8.78 -0.90]
31 .B00A.A.DG.9. .B00A.B.DC.12. G-C WC 19-XIX cWW cW-W
-172.0(anti) C3'-endo lambda=50.1; -151.8(anti) C3'-endo lambda=55.4
d(C1'-C1')=10.78 d(N1-N9)=8.97 d(C6-C8)=9.86 tor(N1-C1'-C1'-N9)=-7.2
H-bonds[3]: "O6(carbonyl)-N4(amino)[2.88]; N1(imino)-N3[2.85]; N2(amino)-O2(carbonyl)[2.69]"
bp_pars: [-0.09 -0.14 -0.09 -3.82 -2.75 0.30]
32 .B00A.A.G.10. .B00A.B.C.11. G-C WC 19-XIX cWW cW-W
-153.1(anti) C3'-endo lambda=51.2; -159.1(anti) C3'-endo lambda=53.6
d(C1'-C1')=10.60 d(N1-N9)=8.79 d(C6-C8)=9.60 tor(N1-C1'-C1'-N9)=-14.5
H-bonds[3]: "O6(carbonyl)-N4(amino)[2.63]; N1(imino)-N3[2.67]; N2(amino)-O2(carbonyl)[2.64]"
bp_pars: [-0.26 -0.41 -0.03 -0.15 -5.96 -3.32]
33 .D0A0.A.DG.6. .D0A0.B.DC.15. G-C WC 19-XIX cWW cW-W
-158.8(anti) C3'-endo lambda=54.6; -152.0(anti) C2'-exo lambda=55.3
d(C1'-C1')=10.85 d(N1-N9)=9.16 d(C6-C8)=10.10 tor(N1-C1'-C1'-N9)=-24.1
H-bonds[3]: "O6(carbonyl)-N4(amino)[3.02]; N1(imino)-N3[3.07]; N2(amino)-O2(carbonyl)[2.91]"
bp_pars: [-0.16 0.05 0.03 -1.64 -16.84 0.00]
34 .D0A0.A.DC.7. .D0A0.B.DG.14. C-G WC 19-XIX cWW cW-W
-153.4(anti) C3'-endo lambda=56.2; -162.2(anti) C3'-endo lambda=54.8
d(C1'-C1')=10.52 d(N1-N9)=8.85 d(C6-C8)=9.78 tor(N1-C1'-C1'-N9)=-15.6
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.67]; N3-N1(imino)[2.81]; N4(amino)-O6(carbonyl)[2.85]"
bp_pars: [0.42 -0.26 -0.10 2.69 -7.28 0.66]
35 .D0A0.A.DC.8. .D0A0.B.DG.13. C-G WC 19-XIX cWW cW-W
-170.0(anti) C3'-endo lambda=57.0; -178.7(anti) C2'-exo lambda=52.7
d(C1'-C1')=10.66 d(N1-N9)=8.96 d(C6-C8)=9.90 tor(N1-C1'-C1'-N9)=-5.4
H-bonds[3]: "O2(carbonyl)-N2(amino)[2.74]; N3-N1(imino)[2.96]; N4(amino)-O6(carbonyl)[3.06]"
bp_pars: [0.53 -0.13 -0.14 2.56 -6.75 2.31]
****************************************************************************
List of 8 multiplet(s)
1 nts=3 ..A.DG.4.+..B.DC.17.+.B00A.A.G.10. [GCG]
2 nts=3 ..A.DC.7.+..B.DG.14.+.D000.B.G.20. [CGG]
3 nts=3 ..A.G.10.+.B000.A.DG.4.+.B000.B.DC.17. [GGC]
4 nts=3 ..B.G.20.+.D0A0.A.DC.7.+.D0A0.B.DG.14. [GCG]
5 nts=4 ..A.C.1.+..B.G.20.+.D0A0.A.DG.6.+.D0A0.B.DC.15. [CGGC]
6 nts=4 ..A.DG.3.+..B.DC.18.+.B00A.A.G.10.+.B00A.B.C.11. [GCGC]
7 nts=4 ..A.DG.6.+..B.DC.15.+.D000.A.C.1.+.D000.B.G.20. [GCCG]
8 nts=4 ..A.G.10.+..B.C.11.+.B000.A.DG.3.+.B000.B.DC.18. [GCGC]
****************************************************************************
List of 4 helices
helix#1[1] bps=10
helical-axis[2.39(0.56)]: 0.910 -0.336 -0.241
point-one: -5.968 2.594 13.365
point-two: 13.332 -4.536 8.252
1 ..A.C.1. ..B.G.20. C-G WC 19-XIX cWW cW-W
2 ..A.DC.2. ..B.DG.19. C-G WC 19-XIX cWW cW-W
3 ..A.DG.3. ..B.DC.18. G-C WC 19-XIX cWW cW-W
4 ..A.DG.4. ..B.DC.17. G-C WC 19-XIX cWW cW-W
5 ..A.DC.5. ..B.DG.16. C-G WC 19-XIX cWW cW-W
6 ..A.DG.6. ..B.DC.15. G-C WC 19-XIX cWW cW-W
7 ..A.DC.7. ..B.DG.14. C-G WC 19-XIX cWW cW-W
8 ..A.DC.8. ..B.DG.13. C-G WC 19-XIX cWW cW-W
9 ..A.DG.9. ..B.DC.12. G-C WC 19-XIX cWW cW-W
10 ..A.G.10. ..B.C.11. G-C WC 19-XIX cWW cW-W
--------------------------------------------------------------------------
helix#2[1] bps=2
helical-axis[2.74(0.03)]: -0.920 0.389 -0.051
point-one: 14.406 1.922 -9.270
point-two: 11.887 2.987 -9.409
1 .B000.A.DG.3. .B000.B.DC.18. G-C WC 19-XIX cWW cW-W
2 .B000.A.DG.4. .B000.B.DC.17. G-C WC 19-XIX cWW cW-W
--------------------------------------------------------------------------
helix#3[1] bps=3
helical-axis[3.74(0.22)]: -0.798 -0.062 0.600
point-one: -3.749 16.576 9.104
point-two: -9.825 16.103 13.669
1 .D0A0.A.DG.6. .D0A0.B.DC.15. G-C WC 19-XIX cWW cW-W
2 .D0A0.A.DC.7. .D0A0.B.DG.14. C-G WC 19-XIX cWW cW-W
3 .D0A0.A.DC.8. .D0A0.B.DG.13. C-G WC 19-XIX cWW cW-W
--------------------------------------------------------------------------
helix#4[1] bps=2
helical-axis[2.87(0.04)]: -0.801 0.320 -0.506
point-one: -0.996 2.525 29.487
point-two: -3.291 3.441 28.036
1 .B00A.A.DG.9. .B00A.B.DC.12. G-C WC 19-XIX cWW cW-W
2 .B00A.A.G.10. .B00A.B.C.11. G-C WC 19-XIX cWW cW-W
****************************************************************************
List of 4 stems
stem#1[#1] bps=10
helical-axis[2.39(0.56)]: 0.910 -0.336 -0.241
point-one: -5.968 2.594 13.365
point-two: 13.332 -4.536 8.252
1 ..A.C.1. ..B.G.20. C-G WC 19-XIX cWW cW-W
2 ..A.DC.2. ..B.DG.19. C-G WC 19-XIX cWW cW-W
3 ..A.DG.3. ..B.DC.18. G-C WC 19-XIX cWW cW-W
4 ..A.DG.4. ..B.DC.17. G-C WC 19-XIX cWW cW-W
5 ..A.DC.5. ..B.DG.16. C-G WC 19-XIX cWW cW-W
6 ..A.DG.6. ..B.DC.15. G-C WC 19-XIX cWW cW-W
7 ..A.DC.7. ..B.DG.14. C-G WC 19-XIX cWW cW-W
8 ..A.DC.8. ..B.DG.13. C-G WC 19-XIX cWW cW-W
9 ..A.DG.9. ..B.DC.12. G-C WC 19-XIX cWW cW-W
10 ..A.G.10. ..B.C.11. G-C WC 19-XIX cWW cW-W
--------------------------------------------------------------------------
stem#2[#2] bps=2
helical-axis[2.74(0.03)]: -0.920 0.389 -0.051
point-one: 14.406 1.922 -9.270
point-two: 11.887 2.987 -9.409
1 .B000.A.DG.3. .B000.B.DC.18. G-C WC 19-XIX cWW cW-W
2 .B000.A.DG.4. .B000.B.DC.17. G-C WC 19-XIX cWW cW-W
--------------------------------------------------------------------------
stem#3[#3] bps=3
helical-axis[3.74(0.22)]: -0.798 -0.062 0.600
point-one: -3.749 16.576 9.104
point-two: -9.825 16.103 13.669
1 .D0A0.A.DG.6. .D0A0.B.DC.15. G-C WC 19-XIX cWW cW-W
2 .D0A0.A.DC.7. .D0A0.B.DG.14. C-G WC 19-XIX cWW cW-W
3 .D0A0.A.DC.8. .D0A0.B.DG.13. C-G WC 19-XIX cWW cW-W
--------------------------------------------------------------------------
stem#4[#4] bps=2
helical-axis[2.87(0.04)]: -0.801 0.320 -0.506
point-one: -0.996 2.525 29.487
point-two: -3.291 3.441 28.036
1 .B00A.A.DG.9. .B00A.B.DC.12. G-C WC 19-XIX cWW cW-W
2 .B00A.A.G.10. .B00A.B.C.11. G-C WC 19-XIX cWW cW-W
****************************************************************************
List of 1 lone WC/wobble pair(s)
-1 .D000.A.C.1. .D000.B.G.20. C-G WC 19-XIX cWW cW-W
****************************************************************************
>100d.py-A #1 DNA[19]/RNA[5]* with 24 nts
CCGGCGCCGGGGCGCCGGGGCCGC
((((((((((((..(..(((((..
>100d.py-B #2 DNA[19]/RNA[6]* with 25 nts
CCGGCGCCGGCCGGGCCGGGCGGCC
))))))))))))..))).)))....
****************************************************************************
List of 5 additional files generated with this DSSR run
1 dssr-stems.pdb -- MODEL/ENDMDL delineated stems
2 dssr-helices.pdb -- MODEL/ENDMDL delineated helices (pseudo/coaxial)
3 dssr-pairs.pdb -- MODEL/ENDMDL delineated base pairs
4 dssr-multiplets.pdb -- MODEL/ENDMDL delineated multiplets
5 dssr-torsions.dat -- Torsion angles and backbone(BI/BII) classification
Funded by the NIH R24GM153869 grant on X3DNA-DSSR, an NIGMS National Resource for Structural Bioinformatics of Nucleic Acids
Created and maintained by Dr. Xiang-Jun Lu, Department of Biological Sciences, Columbia University