1 | #Please insert up references in the next lines (line starts with keyword UP) |
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2 | UP arb.hlp |
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3 | UP glossary.hlp |
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4 | UP rna3d_manual.pdf |
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5 | |
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6 | #Please insert subtopic references (line starts with keyword SUB) |
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7 | #SUB subtopic.hlp |
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8 | SUB rna3d_dispMolecule.hlp |
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9 | SUB rna3d_dispBases.hlp |
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10 | SUB rna3d_dispHelices.hlp |
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11 | SUB rna3d_mapSeqData.hlp |
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12 | |
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13 | # Hypertext links in helptext can be added like this: LINK{ref.hlp|http://add|bla@domain} |
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14 | |
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15 | #************* Title of helpfile !! and start of real helpfile ******** |
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16 | TITLE RNA3D - molecole structure viewer |
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17 | |
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18 | Visualization of Three-dimensional |
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19 | structure of small subunit (16S) rRNA |
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20 | |
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21 | OCCURRENCE In Primary Sequence Editor (ARB_EDIT4) |
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22 | |
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23 | DESCRIPTION |
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24 | |
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25 | This program (RNA3D) displays the three-dimensional structure of small subunit (16S) |
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26 | rRNA in OpenGL 3D environment. The annotation of RNA three-dimensional structures |
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27 | consists of a preprocessing of the information embedded in their 3D coordinates. It |
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28 | processes PDB structural information stored in the PDB file (1M5G) and used for |
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29 | further structural analysis and searches. To provide user with the more detailed |
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30 | perspective of 16S rRNA structure, structural information corresponding to the |
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31 | ribosomal proteins were excluded during processing. The extracted structural information |
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32 | is then fed to OpenGL engine, where it is further transformed into a hierarchy of |
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33 | OpenGL objects, which encode molecule chains, residues and base positions. At this |
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34 | stage, further processing may occur, for example when the user requests the mapping of |
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35 | secondary structure information of rRNA onto the molecule in the form of loops and |
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36 | stems. Any information derived from the multiple alignments (phylogenetic information) |
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37 | is merged into the structural information or rRNA molecule in the post-processing |
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38 | step. |
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39 | |
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40 | NOTES |
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41 | |
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42 | More information regarding merging secondary structure information and mapping |
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43 | individual rRNA sequence,sequence associated data, oligo-nucleotide probes can be found |
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44 | in the respective help files. See "Subtopics" section. |
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45 | |
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46 | EXAMPLES None |
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47 | |
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48 | WARNINGS None |
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49 | |
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50 | BUGS No bugs known |
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