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

    [ Home | Search | Analyse | Submit structures | News | Help ]



General features for molecule ASE_00227
(click to expand/contract all tables)

Format:
Molecule ID [?]:ASE_00227
Molecule name [?]:RNase P RNA, Nephroselmis olivacea, strain NIES-484
Source [?]:RNase P Database
Source ID [?]:Nephroselmis olivacea, strain NIES-484
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 [?]:N/A
Validated by NMR or X-Ray [?]:No
Method for secondary structure determination [?]:Comparative sequence analysis
Number of molecules [?]:1
Length [?]:398
Fragments used [?]:No
Duplicated sequence [?]:No other molecule in the database has the same sequence
Number of domains [?]:1
Number of unpaired bases [?]:132
Number of paired bases [?]:266

Click on any header below for additional features.

Stem features

Number of stems [?]:21
Number of base pairs in stems [?]:93
Maximum length of a stem [?]:10
Average length of a stem [?]:4.43
Minimum length of a stem [?]:1
Maximum estimated free energy [?]:0
Average estimated free energy [?]:-6.21
Minimum estimated free energy [?]:-16.3

Hairpin loop features

Number of hairpin loops [?]:7
Maximum number of free bases in hairpin loops [?]:7
Average number of free bases in hairpin loops [?]:4.43
Minimum number of free bases in hairpin loop [?]:3

Bulge loop features
Number of bulge loops [?]:9
Maximum number of free bases in bulge loops [?]:3
Average number of free bases in bulge loops [?]:0.83
Minimum number of free bases in bulge loop [?]:0

Internal loop features
Number of internal loops [?]:3
Maximum number of free bases in internal loops:7
Average number of free bases in internal loops:3
Minimum number of free bases in internal loop:2
Maximum internal loop absolute asymmetry:4
Average internal loop absolute asymmetry:1.33
Minimum internal loop absolute asymmetry:0
Maximum internal loop relative asymmetry:2
Average internal loop relative asymmetry:1.33
Minimum internal loop relative asymmetry:1

Multi-loop features
Number of multi-loops [?]:2
Maximum number of free bases in multi-loops:11
Average number of free bases in multi-loops:2.86
Minimum number of free bases in multi-loop:0
Maximum multi-loop absolute asymmetry:10
Average multi-loop absolute asymmetry:3.34
Minimum multi-loop absolute asymmetry:0
Maximum multi-loop relative asymmetry:11
Average multi-loop relative asymmetry:1.77
Minimum multi-loop relative asymmetry:0
Maximum number of branches in multi-loops:4
Average number of branches in multi-loops:3.5
Minimum number of branches in multi-loops:3

Non-canonical base pairs features
Total number of non-canonical base pairs [?]: 6
Total number of AA non-canonical base pairs:1
Total number of AC non-canonical base pairs:3
Total number of AG non-canonical base pairs:1
Total number of CU non-canonical base pairs:1

Pseudoknot features
Number of pseudoknots [?]:2
Number of bands:5
Number of base pairs in bands:40
Maximum band length:16
Average band length:8
Minimum band length:5
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:4
Average number of un-bands:2.5
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:30
Average number of unpaired bases:23.5
Minimum number of unpaired bases:17
Several ways to remove minimum number of base pairs, per molecule:No
Minimum number of base pairs to remove, per molecule:12
Maximum number of base pairs to remove, per pseudoknot:6
Average number of base pairs to remove, per pseudoknot:6
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



    [ Home | Search | Analyse | Submit structures | News | Help ]

For questions, comments, suggestions and bug reports, please contact:

Copyright © 2004-2008 BETA LAB - University of British Columbia