RNA STRAND molecule page

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

General features for molecule NDB_00016
(click to expand/contract all tables)

Format:

Molecule ID [?]:	NDB_00016
Molecule name [?]:	MOLECULAR STRUCTURE OF NICKED DNA. MODEL A4
Source [?]:	Nucleic Acid Database
Source ID [?]:	bdl021
Reference [?]:	J.AYMANI,M.COLL,G.A.VAN DER MAREL,J.H.VAN BOOM, A.H.-J.WANG,A.RICH. MOLECULAR STRUCTURE OF NICKED DNA: A SUBSTRATE FOR DNA REPAIR ENZYMES. PROC.NAT.ACAD.SCI.USA V. 87 2526 1990 ASTM PNASA6 US ISSN 0027-8424
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 3.00 ANGSTROMS; ran through RNAview
Number of molecules [?]:	3
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 [?]:	0
Number of paired bases [?]:	24

Click on any header below for additional features.

Stem features

Number of stems [?]:	1
Number of base pairs in stems [?]:	12
Maximum length of a stem [?]:	12
Average length of a stem [?]:	12
Minimum length of a stem [?]:	12
Maximum estimated free energy [?]:	-23.7
Average estimated free energy [?]:	-23.7
Minimum estimated free energy [?]:	-23.7

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