RNA STRAND molecule page

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

General features for molecule PDB_00683
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00683
Molecule name [?]:	NMR SOLUTION STRUCTURE OF THE IIIC DOMAIN OF GB VIRUS B IRES ELEMENT
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1R4H
Reference [?]:	R.RIJNBRAND,V.THIVIYANATHAN,K.KALUARACHCHI, S.M.LEMON,D.G.GORENSTEIN. MUTATIONAL AND STRUCTURAL ANALYSIS OF STEM-LOOP IIIC OF THE HEPATITIS C VIRUS AND GB VIRUS B INTERNAL RIBOSOME ENTRY SITES.. J.MOL.BIOL. V. 343 805 2004 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 [?]:	NMR; ran through RNAview
Number of molecules [?]:	1
Length [?]:	10
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 [?]:	6

Click on any header below for additional features.

Stem features

Number of stems [?]:	1
Number of base pairs in stems [?]:	3
Maximum length of a stem [?]:	3
Average length of a stem [?]:	3
Minimum length of a stem [?]:	3
Maximum estimated free energy [?]:	-6.7
Average estimated free energy [?]:	-6.7
Minimum estimated free energy [?]:	-6.7

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 [?]:

Pseudoknot features