RNA STRAND molecule page

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

General features for molecule RFA_00429
(click to expand/contract all tables)

Format:

Molecule ID [?]:	RFA_00429
Molecule name [?]:	Hammerhead ribozyme (type III), RF00008, AJ536617.1/1-40
Source [?]:	Rfam Database
Source ID [?]:	RF00008 AJ536617.1/40-1
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 [?]:

Pseudoknot features