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

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General features for molecule CRW_00540
(click to expand/contract all tables)

Format:
Molecule ID [?]:CRW_00540
Molecule name [?]:d.233.m.L.terrestris
Source [?]:Gutell Lab CRW Site
Source ID [?]:d.233.m.L.terrestris
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.]
Type [?]:23S Ribosomal 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 [?]:1279
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:11
Number of unpaired bases [?]:729
Number of paired bases [?]:550

Click on any header below for additional features.

Stem features

Number of stems [?]:71
Number of base pairs in stems [?]:275
Maximum length of a stem [?]:12
Average length of a stem [?]:3.87
Minimum length of a stem [?]:1
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-4.84
Minimum estimated free energy [?]:-19.7

Hairpin loop features

Number of hairpin loops [?]:34
Maximum number of free bases in hairpin loops [?]:15
Average number of free bases in hairpin loops [?]:6.47
Minimum number of free bases in hairpin loop [?]:3

Bulge loop features
Number of bulge loops [?]:18
Maximum number of free bases in bulge loops [?]:3
Average number of free bases in bulge loops [?]:0.72
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:9
Maximum number of free bases in internal loops:13
Average number of free bases in internal loops:2.89
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:8
Average internal loop absolute asymmetry:1.78
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:3
Average internal loop relative asymmetry:1.78
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:10
Maximum number of free bases in multi-loops:36
Average number of free bases in multi-loops:6.4
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:36
Average multi-loop absolute asymmetry:6.55
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:36
Average multi-loop relative asymmetry:2.14
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:6
Average number of branches in multi-loops:4.3
Minimum number of branches in multi-loops:3

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 17
Total number of AA non-canonical base pairs:3
Total number of AC non-canonical base pairs:6
Total number of AG non-canonical base pairs:2
Total number of CU non-canonical base pairs:4
Total number of GG non-canonical base pairs:1
Total number of UU non-canonical base pairs:1

Pseudoknot features



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