RNA STRAND molecule page

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

General features for molecule PDB_00220
(click to expand/contract all tables)

Format:

Molecule ID [?]:	PDB_00220
Molecule name [?]:	STRUCTURE REFINEMENT FOR A 24-NUCLEOTIDE RNA HAIRPIN, NMR, MINIMIZED AVERAGE STRUCTURE
Source [?]:	RCSB Protein Data Bank
Source ID [?]:	1TFN
Reference [?]:	D.J.KERWOOD,P.N.BORER. STRUCTURE REFINEMENT FOR A 24-NUCLEOTIDE RNA HAIRPIN. MAGN.RESON.CHEM. V. 33 136 1996 ASTM MRCHEG UK ISSN 0749-1581
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 [?]:	Molecules in the database with the same sequence: PDB_00206
Number of domains [?]:	1
Number of unpaired bases [?]:	6
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 [?]:	6
Average length of a stem [?]:	4.5
Minimum length of a stem [?]:	3
Maximum estimated free energy [?]:	-2.4
Average estimated free energy [?]:	-6.65
Minimum estimated free energy [?]:	-10.9

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 [?]:	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 AA non-canonical base pairs:	1

Pseudoknot features