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

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General features for molecule PDB_00132
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00132
Molecule name [?]:CONSERVED RNA STRUCTURE WITHIN THE HCV IRES EIF3 BINDING SITE
Source [?]:RCSB Protein Data Bank
Source ID [?]:1KP7
Reference [?]:A.J.COLLIER,J.GALLEGO,R.KLINCK,P.T.COLE,S.J.HARRIS, G.P.HARRISON,F.ABOUL-ELA,G.VARANI,S.WALKER. A CONSERVED RNA STRUCTURE WITHIN THE HCV IRES EIF3-BINDING SITE.. NAT.STRUCT.BIOL. V. 9 375 2002 ASTM NSBIEW US ISSN 1072-8368
Type [?]:Internal Ribosome Entry Site

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:NMR; ran through RNAview
Number of molecules [?]:1
Length [?]:30
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:6
Number of paired bases [?]:24

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:12
Maximum length of a stem [?]:7
Average length of a stem [?]:6
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-6.6
Average estimated free energy [?]:-9.05
Minimum estimated free energy [?]:-11.5

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
Number of internal loops [?]:1
Maximum number of free bases in internal loops:3
Average number of free bases in internal loops:2
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:2
Average internal loop absolute asymmetry:2
Minimum internal loop absolute asymmetry:2
Maximum internal loop relative asymmetry:3
Average internal loop relative asymmetry:3
Minimum internal loop relative asymmetry:3

Multi-loop features

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 2
Total number of AG non-canonical base pairs:1
Total number of CC non-canonical base pairs:1

Pseudoknot features



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