RNA STRAND molecule page

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

General features for molecule NDB_00003
(click to expand/contract all tables)

Format:

Molecule ID [?]:	NDB_00003
Molecule name [?]:	STRUCTURES OF THE MISMATCHED DUPLEX D(GGGTGCCC)
Source [?]:	Nucleic Acid Database
Source ID [?]:	adh016
Reference [?]:	D.RABINOVICH,T.HARAN,M.EISENSTEIN,Z.SHAKKED. STRUCTURES OF THE MISMATCHED DUPLEX D(GGGTGCCC) AND ONE OF ITS WATSON-CRICK ANALOGUES D(GGGCGCCC). J.MOL.BIOL. V. 200 151 1988 ASTM JMOBAK UK ISSN 0022-2836
Type [?]:	Synthetic RNA	[?] PS figure PDF figure Figure from original source
Organism [?]:	SYNTHETIC
Validated by NMR or X-Ray [?]:	Yes
Method for secondary structure determination [?]:	X-RAY, RESOLUTION 2.50 ANGSTROMS; ran through RNAview
Number of molecules [?]:	2
Length [?]:	16
Fragments used [?]:	No
Duplicated sequence [?]:	No other molecule in the database has the same sequence
Number of domains [?]:	1
Number of unpaired bases [?]:	0
Number of paired bases [?]:	16

Click on any header below for additional features.

Stem features

Number of stems [?]:	1
Number of base pairs in stems [?]:	8
Maximum length of a stem [?]:	8
Average length of a stem [?]:	8
Minimum length of a stem [?]:	8
Maximum estimated free energy [?]:	-17.9
Average estimated free energy [?]:	-17.9
Minimum estimated free energy [?]:	-17.9

Hairpin loop features

Number of hairpin loops [?]:	1
Maximum number of free bases in hairpin loops [?]:	0
Average number of free bases in hairpin loops [?]:	0
Minimum number of free bases in hairpin loop [?]:	0

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