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RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database
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General features for molecule CRW_00469
(click to expand/contract all tables)
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Molecule ID [?]: | CRW_00469 |
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Molecule name [?]: | d.233.a.H.marismortui.3 |
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Source [?]: | Gutell Lab CRW Site |
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Source ID [?]: | d.233.a.H.marismortui.3 |
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Reference [?]: | http://www.rna.ccbb.utexas.edu; Cannone J.J., Subramanian S., Schnare M.N., Collett J.R., D Souza L.M., Du Y., Feng B., Lin N., Madabusi L.V., Muller K.M., Pande N., Shang Z., Yu N., and Gutell R.R. (2002). The Comparative RNA Web (CRW) Site: An Online Database of Comparative Sequence and Structure Information for Ribosomal, Intron, and other RNAs. BioMed Central Bioinformatics, 3:2. [Correction: BioMed Central Bioinformatics. 3:15.] |
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Type [?]: | 23S Ribosomal RNA | 
[?]
PS figure
PDF figure Figure from original source |
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Organism [?]: | N/A |
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Validated by NMR or X-Ray [?]: | No |
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Method for secondary structure determination [?]: | Comparative sequence analysis |
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Number of molecules [?]: | 1 |
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Length [?]: | 2930 |
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Fragments used [?]: | No |
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Duplicated sequence [?]: | Molecules in the database with the same sequence: CRW_00579, CRW_00583 |
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Number of
domains [?]: | 1 |
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Number of unpaired bases [?]: | 1220 |
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Number of paired bases [?]: | 1710 |
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Click on any header below for additional features.
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Number of stems [?]: | 157 |
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Number of base pairs in stems [?]: | 678 |
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Maximum length of a stem [?]: | 18 |
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Average length of a stem [?]: | 4.32 |
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Minimum length of a stem [?]: | 1 |
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Maximum estimated free energy [?]: | 0 |
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Average estimated free energy [?]: | -7.5 |
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Minimum estimated free energy [?]: | -30.6 |
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Number of hairpin loops [?]: | 63 |
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Maximum number of free bases in hairpin loops [?]: | 15 |
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Average number of free bases in hairpin loops [?]: | 5.52 |
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Minimum number of free bases in hairpin loop [?]: | 3 |
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Total number of UUCG hairpin motifs per molecule [?]: | 1 |
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Number of bulge loops [?]: | 33 |
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Maximum number of free bases in bulge loops [?]: | 9 |
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Average number of free bases in bulge loops [?]: | 0.83 |
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Minimum number of free bases in bulge loop [?]: | 0 |
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Number of internal loops [?]: | 42 |
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Maximum number of free bases in internal loops: | 9 |
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Average number of free bases in internal loops: | 3.35 |
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Minimum number of free bases in internal loop: | 1 |
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Maximum internal loop absolute asymmetry: | 6 |
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Average internal loop absolute asymmetry: | 1.55 |
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Minimum internal loop absolute asymmetry: | 0 |
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Maximum internal loop relative asymmetry: | 4 |
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Average internal loop relative asymmetry: | 1.67 |
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Minimum internal loop relative asymmetry: | 1 |
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Number of multi-loops [?]: | 18 |
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Maximum number of free bases in multi-loops: | 9 |
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Average number of free bases in multi-loops: | 2.52 |
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Minimum number of free bases in multi-loop: | 0 |
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Maximum multi-loop absolute asymmetry: | 9 |
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Average multi-loop absolute asymmetry: | 2.31 |
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Minimum multi-loop absolute asymmetry: | 0 |
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Maximum multi-loop relative asymmetry: | 9 |
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Average multi-loop relative asymmetry: | 1.17 |
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Minimum multi-loop relative asymmetry: | 0 |
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Maximum number of branches in multi-loops: | 7 |
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Average number of branches in multi-loops: | 3.83 |
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Minimum number of branches in multi-loops: | 3 |
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Non-canonical base pairs features
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| Total number of non-canonical base pairs [?]: |
30 |
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Total number of AA non-canonical base pairs: | 4 |
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Total number of AC non-canonical base pairs: | 6 |
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Total number of AG non-canonical base pairs: | 8 |
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Total number of CC non-canonical base pairs: | 3 |
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Total number of CU non-canonical base pairs: | 3 |
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Total number of GG non-canonical base pairs: | 1 |
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Total number of UU non-canonical base pairs: | 5 |
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Number of pseudoknots [?]: | 8 |
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Number of bands: | 25 |
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Number of base pairs in bands: | 177 |
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Maximum band length: | 33 |
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Average band length: | 7.08 |
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Minimum band length: | 1 |
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Maximum number of bands per pseudoknot: | 6 |
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Average number of bands per pseudoknot: | 3.13 |
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Minimum number of bands per pseudoknot: | 2 |
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Maximum number of un-bands: | 4 |
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Average number of un-bands: | 1.38 |
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Minimum number of un-bands: | 0 |
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Maximum number of in-bands: | 23 |
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Average number of in-bands: | 3.25 |
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Minimum number of in-bands: | 0 |
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Maximum number of unpaired bases: | 240 |
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Average number of unpaired bases: | 43.63 |
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Minimum number of unpaired bases: | 5 |
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Several ways to remove minimum number of base pairs, per molecule: | No |
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Minimum number of base pairs to remove, per molecule: | 28 |
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Maximum number of base pairs to remove, per pseudoknot: | 7 |
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Average number of base pairs to remove, per pseudoknot: | 3.5 |
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Minimum number of base pairs to remove, per pseudoknot: | 1 |
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Minimum number of bands to remove, per molecule: | 13 |
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Maximum number of bands to remove, per pseudoknot: | 3 |
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Average number of bands to remove, per pseudoknot: | 1.63 |
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Minimum number of bands to remove, per pseudoknot: | 1 |
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