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

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General features for molecule ASE_00253
(click to expand/contract all tables)

Format:
Molecule ID [?]:ASE_00253
Molecule name [?]:RNase P RNA, Pyrococcus horikoshii, strain OT3
Source [?]:RNase P Database
Source ID [?]:Pyrococcus horikoshii, strain OT3
Reference [?]:James W. Brown (1999) The Ribonuclease P Database. Nucleic Acids Research 27:314.
Type [?]:Ribonuclease P RNA

[?]     PS figure     PDF figure
Figure from original source
Organism [?]:Pyrococcus horikoshii
Validated by NMR or X-Ray [?]:No
Method for secondary structure determination [?]:Comparative sequence analysis
Number of molecules [?]:1
Length [?]:329
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:129
Number of paired bases [?]:200

Click on any header below for additional features.

Stem features

Number of stems [?]:11
Number of base pairs in stems [?]:63
Maximum length of a stem [?]:13
Average length of a stem [?]:5.73
Minimum length of a stem [?]:2
Maximum estimated free energy [?]:-2.4
Average estimated free energy [?]:-13.13
Minimum estimated free energy [?]:-34.4

Hairpin loop features

Number of hairpin loops [?]:4
Maximum number of free bases in hairpin loops [?]:4
Average number of free bases in hairpin loops [?]:3.75
Minimum number of free bases in hairpin loop [?]:3

Bulge loop features
Number of bulge loops [?]:2
Maximum number of free bases in bulge loops [?]:2
Average number of free bases in bulge loops [?]:1
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:4
Maximum number of free bases in internal loops:13
Average number of free bases in internal loops:6.88
Minimum number of free bases in internal loop:1
Maximum internal loop absolute asymmetry:7
Average internal loop absolute asymmetry:4.25
Minimum internal loop absolute asymmetry:2
Maximum internal loop relative asymmetry:3
Average internal loop relative asymmetry:2
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:1
Maximum number of free bases in multi-loops:0
Average number of free bases in multi-loops:0
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:0
Average multi-loop absolute asymmetry:0
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:0
Average multi-loop relative asymmetry:0
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:4
Average number of branches in multi-loops:4
Minimum number of branches in multi-loops:4

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 0

Pseudoknot features
Number of pseudoknots [?]:2
Number of bands:5
Number of base pairs in bands:37
Maximum band length:12
Average band length:7.4
Minimum band length:4
Maximum number of bands per pseudoknot:3
Average number of bands per pseudoknot:2.5
Minimum number of bands per pseudoknot:2
Maximum number of un-bands:2
Average number of un-bands:1.5
Minimum number of un-bands:1
Maximum number of in-bands:0
Average number of in-bands:0
Minimum number of in-bands:0
Maximum number of unpaired bases:31
Average number of unpaired bases:26.5
Minimum number of unpaired bases:22
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:13
Maximum number of base pairs to remove, per pseudoknot:7
Average number of base pairs to remove, per pseudoknot:6.5
Minimum number of base pairs to remove, per pseudoknot:6
Minimum number of bands to remove, per molecule:2
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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