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

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General features for molecule PDB_00053
(click to expand/contract all tables)

Format:
Molecule ID [?]:PDB_00053
Molecule name [?]:CRYSTAL STRUCTURE OF A BIOTIN-BINDING RNA PSEUDOKNOT
Source [?]:RCSB Protein Data Bank
Source ID [?]:1F27
Reference [?]:J.NIX,D.SUSSMAN,C.WILSON. THE 1.3 A CRYSTAL STRUCTURE OF A BIOTIN-BINDING PSEUDOKNOT AND THE BASIS FOR RNA MOLECULAR RECOGNITION.. J.MOL.BIOL. V. 296 1235 2000 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 [?]:X-RAY, RESOLUTION 1.30 ANGSTROMS; ran through RNAview
Number of molecules [?]:2
Length [?]:30
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:8
Number of paired bases [?]:22

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:11
Maximum band length:6
Average band length:5.5
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:8
Average number of unpaired bases:8
Minimum number of unpaired bases:8
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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