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

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General features for molecule PDB_00122
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00122
Molecule name [?]:BULGED ADENOSINE IN AN RNA DUPLEX
Source [?]:RCSB Protein Data Bank
Source ID [?]:1K8S
Reference [?]:V.THIVIYANATHAN,A.B.GULIAEV,N.B.LEONTIS, D.G.GORENSTEIN. SOLUTION CONFORMATION OF A BULGED ADENOSINE BASE IN AN RNA DUPLEX BY RELAXATION MATRIX REFINEMENT.. J.MOL.BIOL. V. 300 1143 2000 ASTM JMOBAK UK ISSN 0022-2836
Type [?]:Other RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:NMR; ran through RNAview
Number of molecules [?]:2
Length [?]:25
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:1
Number of paired bases [?]:24

Click on any header below for additional features.

Stem features

Number of stems [?]:2
Number of base pairs in stems [?]:12
Maximum length of a stem [?]:7
Average length of a stem [?]:6
Minimum length of a stem [?]:5
Maximum estimated free energy [?]:-10.9
Average estimated free energy [?]:-13.85
Minimum estimated free energy [?]:-16.8

Hairpin loop features

Number of hairpin loops [?]:1
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 [?]: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 [?]: 0

Pseudoknot features



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