RNA STRAND molecule page

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

General features for molecule PDB_00190
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00190
Molecule name [?]:	SOLUTION STRUCTURE OF THE HIV-1 FRAMESHIFT INDUCING STEM- LOOP RNA
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1PJY
Reference [?]:	D.W.STAPLE,S.E.BUTCHER. SOLUTION STRUCTURE OF THE HIV-1 FRAMESHIFT INDUCING STEM-LOOP RNA.. NUCLEIC ACIDS RES. V. 31 4326 2003 ASTM NARHAD UK ISSN 0305-1048
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 [?]:	22
Fragments used [?]:	No
Duplicated sequence [?]:	Molecules in the database with the same sequence: PDB_01153
Number of domains [?]:	1
Number of unpaired bases [?]:	2
Number of paired bases [?]:	20

Click on any header below for additional features.

Stem features

Number of stems [?]:	1
Number of base pairs in stems [?]:	10
Maximum length of a stem [?]:	10
Average length of a stem [?]:	10
Minimum length of a stem [?]:	10
Maximum estimated free energy [?]:	-22
Average estimated free energy [?]:	-22
Minimum estimated free energy [?]:	-22

Hairpin loop features

Number of hairpin loops [?]:	1
Maximum number of free bases in hairpin loops [?]:	2
Average number of free bases in hairpin loops [?]:	2
Minimum number of free bases in hairpin loop [?]:	2

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

Pseudoknot features