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

    [ Home | Search | Analyse | Submit structures | News | Help ]



General features for molecule CRW_00720
(click to expand/contract all tables)

Format:
Molecule ID [?]:CRW_00720
Molecule name [?]:a.I1.m.S.luteus.C2.LSU.1949
Source [?]:Gutell Lab CRW Site
Source ID [?]:a.I1.m.S.luteus.C2.LSU.1949
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 [?]:Group I Intron

[?]     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 [?]:646
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:3
Number of unpaired bases [?]:464
Number of paired bases [?]:182

Click on any header below for additional features.

Stem features

Number of stems [?]:20
Number of base pairs in stems [?]:78
Maximum length of a stem [?]:7
Average length of a stem [?]:3.9
Minimum length of a stem [?]:1
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-5.21
Minimum estimated free energy [?]:-10

Hairpin loop features

Number of hairpin loops [?]:7
Maximum number of free bases in hairpin loops [?]:17
Average number of free bases in hairpin loops [?]:7.43
Minimum number of free bases in hairpin loop [?]:4

Bulge loop features
Number of bulge loops [?]:7
Maximum number of free bases in bulge loops [?]:4
Average number of free bases in bulge loops [?]:0.79
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:4
Maximum number of free bases in internal loops:300
Average number of free bases in internal loops:39.75
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:299
Average internal loop absolute asymmetry:75
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:300
Average internal loop relative asymmetry:75.75
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:2
Maximum number of free bases in multi-loops:5
Average number of free bases in multi-loops:2.67
Minimum number of free bases in multi-loop:1
Maximum multi-loop absolute asymmetry:4
Average multi-loop absolute asymmetry:2
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:5
Average multi-loop relative asymmetry:1.47
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 UU non-canonical base pairs:1

Pseudoknot features
Number of pseudoknots [?]:1
Number of bands:2
Number of base pairs in bands:13
Maximum band length:7
Average band length:6.5
Minimum band length:6
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:3
Average number of un-bands:3
Minimum number of un-bands:3
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:18
Average number of unpaired bases:18
Minimum number of unpaired bases:18
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:6
Maximum number of base pairs to remove, per pseudoknot:6
Average number of base pairs to remove, per pseudoknot:6
Minimum number of base pairs to remove, per pseudoknot:6
Minimum number of bands to remove, per molecule:1
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



    [ Home | Search | Analyse | Submit structures | News | Help ]

For questions, comments, suggestions and bug reports, please contact:

Copyright © 2004-2008 BETA LAB - University of British Columbia