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

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General features for molecule PDB_00044
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00044
Molecule name [?]:STRUCTURE OF RNA (5'-GGUGGGCGCAGCUUCGGCUGCGGUACCAC-3'), NMR, 5 STRUCTURES
Source [?]:RCSB Protein Data Bank
Source ID [?]:1EBS
Reference [?]:R.D.PETERSON,J.FEIGON. STRUCTURAL CHANGE IN REV RESPONSIVE ELEMENT RNA OF HIV-1 ON BINDING REV PEPTIDE.. J.MOL.BIOL. V. 264 863 1996 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 [?]:29
Fragments used [?]:No
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00042
Number of domains [?]:1
Number of unpaired bases [?]:3
Number of paired bases [?]:26

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:13
Maximum length of a stem [?]:8
Average length of a stem [?]:6.5
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-7.6
Average estimated free energy [?]:-11.55
Minimum estimated free energy [?]:-15.5

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

Pseudoknot features



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