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

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General features for molecule PDB_00022
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00022
Molecule name [?]:HIV-1 RNA A-RICH HAIRPIN LOOP
Source [?]:RCSB Protein Data Bank
Source ID [?]:1BVJ
Reference [?]:E.V.PUGLISI,J.D.PUGLISI. HIV-1 A-RICH RNA LOOP MIMICS THE TRNA ANTICODON STRUCTURE.. NAT.STRUCT.BIOL. V. 5 1033 1998 ASTM NSBIEW US ISSN 1072-8368
Type [?]:Viral & Phage RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:HIV
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:NMR; ran through RNAview
Number of molecules [?]:1
Length [?]:23
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:5
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 [?]:5
Average length of a stem [?]:4.5
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:-2.9
Average estimated free energy [?]:-7.2
Minimum estimated free energy [?]:-11.5

Hairpin loop features

Number of hairpin loops [?]:1
Maximum number of free bases in hairpin loops [?]:4
Average number of free bases in hairpin loops [?]:4
Minimum number of free bases in hairpin loop [?]:4

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 AG non-canonical base pairs:1

Pseudoknot features



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