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Last update on 25. Nov 2018 .
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    Display options for the Residues / Bases

    OCCURRENCE

    In ARB primary structure editor (ARB_EDIT4) -> RNA3D

     

    DESCRIPTION

    To achieve more performance and dynamic overlay of any sequence associated information, rendering (drawing) was simplified to chain display with the capacity to display residues in the form nucleotides - Adenosine (A), Guanine (G), Cytosine (C) and Uracil (U) at the respective coordinates in the molecule. Also viewing the entire chemical structure in the molecule’s 3D structure is less readable.

    Display Bases

    By enabling the check box the corresponding residues in the rRNA sequence can be displayed on the rRNA 3D structure. Disabling this check box will display the molecule skeleton without residues.

    Helix Region

    Enabling this check box will display residues that are participating in Helix formation in the secondary structure models of small subunit rRNA.

    Unpaired Helix Region

    Enabling this check box will display residues that are participating in bulge (unpaired helix) formation in the secondary structure models of small subunit rRNA.

    Non-Helix Region

    Enabling this check box will display residues that are participating in loop (non-helix) formation in the secondary structure models of small subunit rRNA.

    Display Size

    The size of the residues displayed can be changed by specifying the desired size in “Display size” box.

    CHARACTERS

    The corresponding residues are displayed with the actual nucleotides - Adenosine (A), Guanine (G), Cytosine (C) and Uracil (U).

    SHAPES

    The corresponding residues are displayed with the respective shapes specified for different structural motifs.

    By setting different colors for the secondary structural motifs (loops, stems and bulges) using “Color Settings”, the respective regions can be easily recognized in the rRNA 3D structure.

     

    NOTES

    None

     

    EXAMPLES

    None

     

    WARNINGS

    None

     

    BUGS

    No bugs known