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

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General features for molecule PDB_00169
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Format:
Molecule ID [?]:PDB_00169
Molecule name [?]:STRUCTURE OF THE PYRIMIDINE-RICH INTERNAL LOOP IN THE Y- DOMAIN OF POLIOVIRUS 3'UTR
Source [?]:RCSB Protein Data Bank
Source ID [?]:1N66
Reference [?]:E.M.LESCRINIER,M.TESSARI,F.J.VAN KUPPEVELD, W.J.MELCHERS,C.W.HILBERS,H.A.HEUS. STRUCTURE OF THE PYRIMIDINE-RICH INTERNAL LOOP IN THE POLIOVIRUS 3'-UTR: THE IMPORTANCE OF MAINTAINING PSEUDO-2-FOLD SYMMETRY IN RNA HELICES CONTAINING TWO ADJACENT NON-CANONICAL BASE-PAIRS.. J.MOL.BIOL. V. 331 759 2003 ASTM JMOBAK UK ISSN 0022-2836
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 [?]:22
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:2
Number of paired bases [?]:20

Click on any header below for additional features.

Stem features

Number of stems [?]:1
Number of base pairs in stems [?]:10
Maximum length of a stem [?]:10
Average length of a stem [?]:10
Minimum length of a stem [?]:10
Maximum estimated free energy [?]:-12.4
Average estimated free energy [?]:-12.4
Minimum estimated free energy [?]:-12.4

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 [?]: 3
Total number of AG non-canonical base pairs:1
Total number of CU non-canonical base pairs:1
Total number of UU non-canonical base pairs:1

Pseudoknot features



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