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

    [ Home | Search | Analyse | Submit structures | News | Help ]



General features for molecule PDB_00111
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00111
Molecule name [?]:STRUCTURE OF SL4 RNA FROM THE HIV-1 PACKAGING SIGNAL
Source [?]:RCSB Protein Data Bank
Source ID [?]:1JTW
Reference [?]:D.J.KERWOOD,M.J.CAVALUZZI,P.N.BORER. STRUCTURE OF SL4 RNA FROM THE HIV-1 PACKAGING SIGNAL.. BIOCHEMISTRY V. 40 14518 2001 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 [?]:16
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 [?]:12

Click on any header below for additional features.

Stem features

Number of stems [?]:1
Number of base pairs in stems [?]:6
Maximum length of a stem [?]:6
Average length of a stem [?]:6
Minimum length of a stem [?]:6
Maximum estimated free energy [?]:-5
Average estimated free energy [?]:-5
Minimum estimated free energy [?]:-5

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 AG non-canonical base pairs:1

Pseudoknot features



    [ Home | Search | Analyse | Submit structures | News | Help ]

For questions, comments, suggestions and bug reports, please contact:

Copyright © 2004-2008 BETA LAB - University of British Columbia