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

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General features for molecule CRW_01516
(click to expand/contract all tables)

Format:
Molecule ID [?]:CRW_01516
Molecule name [?]:d.5.b.E.coli
Source [?]:Gutell Lab CRW Site
Source ID [?]:d.5.b.E.coli
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 [?]:5S Ribosomal RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:Escherichia coli
Validated by NMR or X-Ray [?]:No
Method for secondary structure determination [?]:Comparative sequence analysis
Number of molecules [?]:1
Length [?]:120
Fragments used [?]:No
Duplicated sequence [?]:Molecules in the database with the same sequence: CRW_00573, CRW_00585, PDB_00030
Number of domains [?]:1
Number of unpaired bases [?]:40
Number of paired bases [?]:80

Click on any header below for additional features.

Stem features

Number of stems [?]:7
Number of base pairs in stems [?]:40
Maximum length of a stem [?]:10
Average length of a stem [?]:5.71
Minimum length of a stem [?]:2
Maximum estimated free energy [?]:-3.4
Average estimated free energy [?]:-9.99
Minimum estimated free energy [?]:-23.2

Hairpin loop features

Number of hairpin loops [?]:2
Maximum number of free bases in hairpin loops [?]:13
Average number of free bases in hairpin loops [?]:8
Minimum number of free bases in hairpin loop [?]:3

Bulge loop features
Number of bulge loops [?]:2
Maximum number of free bases in bulge loops [?]:2
Average number of free bases in bulge loops [?]:0.75
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:2
Maximum number of free bases in internal loops:4
Average number of free bases in internal loops:2.75
Minimum number of free bases in internal loop:2
Maximum internal loop absolute asymmetry:1
Average internal loop absolute asymmetry:0.5
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:1
Average internal loop relative asymmetry:1
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:5
Average number of free bases in multi-loops:3
Minimum number of free bases in multi-loop:1
Maximum multi-loop absolute asymmetry:4
Average multi-loop absolute asymmetry:2.67
Minimum multi-loop absolute asymmetry:2
Maximum multi-loop relative asymmetry:5
Average multi-loop relative asymmetry:1.8
Minimum multi-loop relative asymmetry:0.2
Maximum number of branches in multi-loops:3
Average number of branches in multi-loops:3
Minimum number of branches in multi-loops:3

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 3
Total number of AG non-canonical base pairs:2
Total number of GG non-canonical base pairs:1

Pseudoknot features



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