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Questions and answers => RNA structures (DSSR) => Topic started by: shuxiang on June 14, 2019, 03:52:25 pm

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Title: Figure 5. Molecular images illustrating hydrogen bonds (dashed lines) shared
Post by: shuxiang on June 14, 2019, 03:52:25 pm
Figure 5. Molecular images illustrating hydrogen bonds (dashed lines) shared between different forms of G·A pairing: (a) N3···N6 interaction common to m–WII and m–MI base-paired arrangements found in a variant of the SAM-I riboswitch(64) and the complex of Escherichia coli ribosomal protein L25 with a 5S rRNA fragment, respectively;(65) (b) respective N2···N1 associations in m–WI and W–W pairs in the Leishmania donovani large ribosomal subunit(66) and the Saccharomyces cerevisiae 80S ribosome;(67) (c) N2···N7, N1···OP2, and N2···OP2 hydrogen bonds stabilizing W–M and m–MII pairs in the central domain of the Thermus thermophilus 30S ribosomal subunit(68) and in the complex of the Thermus thermophilus 70S ribosome with hibernation factor pY, respectively;(36) (d) respective paired association of 2′-hydroxyl groups, one from G and the other from A, adopted in m–m and m–WI pairs within the complex of tetracycline with the U1052G-mutated 70S Escherichia coli ribosome.(69)
Title: Re: Figure 5. Molecular images illustrating hydrogen bonds (dashed lines) shared
Post by: shuxiang on June 14, 2019, 03:55:57 pm
(a)
pymol 5fjc.pdb
bg_color white
hide everything
select 5-a-1, chain A and resi 30+61
set ray_opaque_background, off
set ray_shadows,off
set valence,0
preset.ball_and_stick(selection='all', mode=1)
set sphere_scale, 0.15, (all)
set_color mycolor1, [255,153,255]
color mycolor1, 5-a-1
set_bond stick_color, mycolor1, 5-a-1
ray

Created and maintained by Dr. Xiang-Jun Lu [律祥俊] (xiangjun@x3dna.org)
The Bussemaker Laboratory at the Department of Biological Sciences, Columbia University.