RNA STRAND molecule page

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

General features for molecule PDB_00173
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00173
Molecule name [?]:	U80G U6 INTRAMOLECULAR STEM-LOOP RNA FROM SACCHAROMYCES CEREVISIAE
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1NC0
Reference [?]:	D.G.SASHITAL,A.M.ALLMANN,S.VAN DOREN,S.E.BUTCHER. STRUCTURAL BASIS FOR A LETHAL MUTATION IN U6 RNA. BIOCHEMISTRY V. 42 1470 2003 ASTM BICHAW US ISSN 0006-2960
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 [?]:	NMR; ran through RNAview
Number of molecules [?]:	1
Length [?]:	24
Fragments used [?]:	No
Duplicated sequence [?]:	No other molecule in the database has the same sequence
Number of domains [?]:	1
Number of unpaired bases [?]:	4
Number of paired bases [?]:	20

Click on any header below for additional features.

Stem features

Number of stems [?]:	2
Number of base pairs in stems [?]:	10
Maximum length of a stem [?]:	6
Average length of a stem [?]:	5
Minimum length of a stem [?]:	4
Maximum estimated free energy [?]:	-5.4
Average estimated free energy [?]:	-8.75
Minimum estimated free energy [?]:	-12.1

Hairpin loop features

Number of hairpin loops [?]:	1
Maximum number of free bases in hairpin loops [?]:	3
Average number of free bases in hairpin loops [?]:	3
Minimum number of free bases in hairpin loop [?]:	3

Bulge loop features

Number of bulge loops [?]:	1
Maximum number of free bases in bulge loops [?]:	1
Average number of free bases in bulge loops [?]:	0.5
Minimum number of free bases in bulge loop [?]:	0

Internal loop features

Multi-loop features

Non-canonical base pairs features

Total number of non-canonical base pairs [?]:	1
Total number of AG non-canonical base pairs:	1

Pseudoknot features