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

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



General features for molecule PDB_00073
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00073
Molecule name [?]:NMR VALIDATED MODEL OF DOMAIN IIID OF HEPATITIS C VIRUS INTERNAL RIBOSOME ENTRY SITE
Source [?]:RCSB Protein Data Bank
Source ID [?]:1FQZ
Reference [?]:R.KLINCK,E.WESTHOF,S.WALKER,M.AFSHAR,A.COLLIER, F.ABOUL-ELA. A POTENTIAL RNA DRUG TARGET IN THE HEPATITIS C VIRUS INTERNAL RIBOSOMAL ENTRY SITE.. RNA V. 6 1423 2000 ASTM RNARFU UK ISSN 1355-8382
Type [?]:Internal Ribosome Entry Site

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:HEPATITIS C VIRUS
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:NMR; ran through RNAview
Number of molecules [?]:1
Length [?]:27
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:7
Number of paired bases [?]:20

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:10
Maximum length of a stem [?]:5
Average length of a stem [?]:5
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-3.9
Average estimated free energy [?]:-5.3
Minimum estimated free energy [?]:-6.7

Hairpin loop features

Number of hairpin loops [?]:1
Maximum number of free bases in hairpin loops [?]:6
Average number of free bases in hairpin loops [?]:6
Minimum number of free bases in hairpin loop [?]:6

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 [?]: 3
Total number of AA non-canonical base pairs:1
Total number of AG non-canonical base pairs:2

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