RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

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General features for molecule TMR_00692
(click to expand/contract all tables)

Format:
Molecule ID [?]:TMR_00692
Molecule name [?]:uncu.bact._TRW-815_1-353
Source [?]:tmRNA Database
Source ID [?]:uncu.bact._TRW-815_1-353
Reference [?]:Zwieb, C., Gorodkin, J., Knudsen B., Burks, J., and Wower, J. (2003) tmRDB (tmRNA database) Nucleic Acids Res, 31, 446-447.
Type [?]:Transfer Messenger RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:No
Method for secondary structure determination [?]:Comparative sequence analysis
Number of molecules [?]:1
Length [?]:333
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:3
Number of unpaired bases [?]:275
Number of paired bases [?]:58

Click on any header below for additional features.

Stem features

Number of stems [?]:1
Number of base pairs in stems [?]:5
Maximum length of a stem [?]:5
Average length of a stem [?]:5
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-11.1
Average estimated free energy [?]:-11.1
Minimum estimated free energy [?]:-11.1

Hairpin loop features

Number of hairpin loops [?]:1
Maximum number of free bases in hairpin loops [?]:7
Average number of free bases in hairpin loops [?]:7
Minimum number of free bases in hairpin loop [?]:7

Bulge loop features
Number of bulge loops [?]:0
Maximum number of free bases in bulge loops [?]:N/A
Average number of free bases in bulge loops [?]:N/A
Minimum number of free bases in bulge loop [?]:N/A

Internal loop features

Multi-loop features

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 0

Pseudoknot features
Number of pseudoknots [?]:2
Number of bands:4
Number of base pairs in bands:24
Maximum band length:12
Average band length:6
Minimum band length:1
Maximum number of bands per pseudoknot:2
Average number of bands per pseudoknot:2
Minimum number of bands per pseudoknot:2
Maximum number of un-bands:0
Average number of un-bands:0
Minimum number of un-bands:0
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:20
Average number of unpaired bases:18.5
Minimum number of unpaired bases:17
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:8
Maximum number of base pairs to remove, per pseudoknot:7
Average number of base pairs to remove, per pseudoknot:4
Minimum number of base pairs to remove, per pseudoknot:1
Minimum number of bands to remove, per molecule:2
Maximum number of bands to remove, per pseudoknot:1
Average number of bands to remove, per pseudoknot:1
Minimum number of bands to remove, per pseudoknot:1



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