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

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General features for molecule PDB_00115
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00115
Molecule name [?]:CRYSTAL STRUCTURE OF A BULGED RNA FROM THE SL2 STEM-LOOP OF THE HIV-1 PSI-RNA
Source [?]:RCSB Protein Data Bank
Source ID [?]:1JZV
Reference [?]:Y.XIONG,C.SUDARSANAKUMAR,J.DENG,M.PAN, M.SUNDARALINGAM. CRYSTAL STRUCTURE OF A BULGED RNA FROM THE SL2 STEM-LOOP OF THE HIV-1 PSI-RNA. TO BE PUBLISHED
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 [?]:X-RAY, RESOLUTION 1.70 ANGSTROMS; ran through RNAview
Number of molecules [?]:4
Length [?]:34
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:2
Number of unpaired bases [?]:2
Number of paired bases [?]:32

Click on any header below for additional features.

Stem features

Number of stems [?]:4
Number of base pairs in stems [?]:16
Maximum length of a stem [?]:4
Average length of a stem [?]:4
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:-6.4
Average estimated free energy [?]:-7.75
Minimum estimated free energy [?]:-9.1

Hairpin loop features

Number of hairpin loops [?]:2
Maximum number of free bases in hairpin loops [?]:0
Average number of free bases in hairpin loops [?]:0
Minimum number of free bases in hairpin loop [?]:0

Bulge loop features
Number of bulge loops [?]:2
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 [?]: 0

Pseudoknot features



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