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

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General features for molecule PDB_01299
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_01299
Molecule name [?]:CRYSTAL STRUCTURE OF DOMAIN III OF THE CRICKET PARALYSIS VIRUS IRES RNA
Source [?]:RCSB Protein Data Bank
Source ID [?]:3B31
Reference [?]:D.A.COSTANTINO,J.S.PFINGSTEN,R.P.RAMBO,J.S.KIEFT. TRNA-MRNA MIMICRY DRIVES TRANSLATION INITIATION FROM A VIRAL IRES.. NAT.STRUCT.MOL.BIOL. V. 15 57 2008 US ISSN 1545-9993
Type [?]:Internal Ribosome Entry Site

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:N/A
Validated by NMR or X-Ray [?]:Yes
Method for secondary structure determination [?]:X-RAY, RESOLUTION 2.40 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:43
Fragments used [?]:Yes
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:13
Number of paired bases [?]:30

Click on any header below for additional features.

Stem features


Hairpin loop features

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

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 [?]: 0

Pseudoknot features
Number of pseudoknots [?]:1
Number of bands:2
Number of base pairs in bands:15
Maximum band length:10
Average band length:7.5
Minimum band length:5
Maximum number of bands per pseudoknot:2
Average number of bands per pseudoknot:2
Minimum number of bands per pseudoknot:2
Maximum number of un-bands:0
Average number of un-bands:0
Minimum number of un-bands:0
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:13
Average number of unpaired bases:13
Minimum number of unpaired bases:13
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:5
Maximum number of base pairs to remove, per pseudoknot:5
Average number of base pairs to remove, per pseudoknot:5
Minimum number of base pairs to remove, per pseudoknot:5
Minimum number of bands to remove, per molecule:1
Maximum number of bands to remove, per pseudoknot:1
Average number of bands to remove, per pseudoknot:1
Minimum number of bands to remove, per pseudoknot:1



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