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

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General features for molecule PDB_00138
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00138
Molecule name [?]:ATOMIC RESOLUTION CRYSTAL STRUCTURE OF A VIRAL RNA PSEUDOKNOT
Source [?]:RCSB Protein Data Bank
Source ID [?]:1L2X
Reference [?]:M.EGLI,G.MINASOV,L.SU,A.RICH. METAL IONS AND FLEXIBILITY IN A VIRAL RNA PSEUDOKNOT AT ATOMIC RESOLUTION.. PROC.NATL.ACAD.SCI.USA V. 99 4302 2002 ASTM PNASA6 US ISSN 0027-8424
Type [?]:Viral & Phage RNA

[?]     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 1.25 ANGSTROMS; ran through RNAview
Number of molecules [?]:1
Length [?]:28
Fragments used [?]:No
Duplicated sequence [?]:Molecules in the database with the same sequence: PDB_00139, PDB_00269
Number of domains [?]:1
Number of unpaired bases [?]:12
Number of paired bases [?]:16

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:8
Maximum band length:5
Average band length:4
Minimum band length:3
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:10
Average number of unpaired bases:10
Minimum number of unpaired bases:10
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:3
Maximum number of base pairs to remove, per pseudoknot:3
Average number of base pairs to remove, per pseudoknot:3
Minimum number of base pairs to remove, per pseudoknot:3
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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