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

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General features for molecule PDB_00757
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00757
Molecule name [?]:NMR STRUCTURE OF A SYNTHETIC SMALL MOLECULE, RBT158, BOUND TO HIV-1 TAR RNA
Source [?]:RCSB Protein Data Bank
Source ID [?]:1UUI
Reference [?]:B.DAVIS,M.AFSHAR,G.VARANI,A.I.MURCHIE,J.KARN, G.LENTZEN,M.DRYSDALE,J.BOWER,A.J.POTTER, I.D.STARKEY,T.SWARBRICK,F.ABOUL-ELA. RATIONAL DESIGN OF INHIBITORS OF HIV-1 TAR RNA THROUGH THE STABILISATION OF ELECTROSTATIC "HOT SPOTS".. J.MOL.BIOL. V. 336 343 2004 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 [?]:Yes
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00012, PDB_00306, PDB_00755, PDB_00756
Number of domains [?]:1
Number of unpaired bases [?]:9
Number of paired bases [?]:20

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:10
Maximum length of a stem [?]:6
Average length of a stem [?]:5
Minimum length of a stem [?]:4
Maximum estimated free energy [?]:-7.9
Average estimated free energy [?]:-10.6
Minimum estimated free energy [?]:-13.3

Hairpin loop features

Number of hairpin loops [?]:1
Maximum number of free bases in hairpin loops [?]:6
Average number of free bases in hairpin loops [?]:6
Minimum number of free bases in hairpin loop [?]:6

Bulge loop features
Number of bulge loops [?]:1
Maximum number of free bases in bulge loops [?]:3
Average number of free bases in bulge loops [?]:1.5
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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