source: branches/stable/HELP_SOURCE/oldhelp/rna3d_general.hlp

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UP      arb.hlp
UP      glossary.hlp
UP      rna3d_manual.pdf

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#SUB    subtopic.hlp
SUB     rna3d_dispMolecule.hlp
SUB     rna3d_dispBases.hlp
SUB     rna3d_dispHelices.hlp
SUB     rna3d_mapSeqData.hlp

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#************* Title of helpfile !! and start of real helpfile ********
TITLE           Visualization of Three-dimensional structure of small subunit (16S) rRNA


OCCURRENCE      In Primary Sequence Editor (ARB_EDIT4)

DESCRIPTION  

    This program (RNA3D) displays the three-dimensional structure of small subunit (16S)
    rRNA in OpenGL 3D environment. The annotation of RNA three-dimensional structures
    consists of a preprocessing of the information embedded in their 3D coordinates. It
    processes PDB structural information stored in the PDB file (1M5G) and used for
    further structural analysis and searches. To provide user with the more detailed
    perspective of 16S rRNA structure, structural information corresponding to the
    ribosomal proteins were excluded during processing. The extracted structural information
    is then fed to OpenGL engine, where it is further transformed into a hierarchy of
    OpenGL objects, which encode molecule chains, residues and base positions. At this
    stage, further processing may occur, for example when the user requests the mapping of
    secondary structure information of rRNA onto the molecule in the form of loops and
    stems. Any information derived from the multiple alignments (phylogenetic information)
    is merged into the structural information or rRNA molecule in the post-processing
    step.
    
NOTES

    More information regarding merging secondary structure information and mapping
    individual rRNA sequence,sequence associated data, oligo-nucleotide probes can be found
    in the respective help files. See "Subtopics" section.

EXAMPLES        None

WARNINGS        None

BUGS            No bugs known