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

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



General features for molecule RFA_00431
(click to expand/contract all tables)

Format:
Molecule ID [?]:RFA_00431
Molecule name [?]:Hammerhead ribozyme (type III), RF00008, AJ536620.1/1-40
Source [?]:Rfam Database
Source ID [?]:RF00008 AJ536620.1/40-1
Reference [?]:Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R. Eddy and Alex Bateman, Rfam: annotating non-coding RNAs in complete genomes, Nucleic Acids Res. 2005 33:D121-D124.
Type [?]:Hammerhead Ribozyme

[?]     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 [?]:40
Fragments used [?]:N/A
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:2
Number of unpaired bases [?]:22
Number of paired bases [?]:18

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:9
Maximum length of a stem [?]:5
Average length of a stem [?]:4.5
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:-7.9
Average estimated free energy [?]:-9.4
Minimum estimated free energy [?]:-10.9

Hairpin loop features

Number of hairpin loops [?]:2
Maximum number of free bases in hairpin loops [?]:8
Average number of free bases in hairpin loops [?]:6
Minimum number of free bases in hairpin loop [?]:4

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



    [ 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