RNA STRAND v2.0  The RNA secondary STRucture and statistical ANalysis Database
[
Home
 Search
 Analyse
 Submit structures
 News
 Help
]
General features for molecule CRW_00347 (click to expand/contract all tables)



Molecule ID [?]:  CRW_00347 
Molecule name [?]:  d.16.e.H.sapiens 
Source [?]:  Gutell Lab CRW Site 
Source ID [?]:  d.16.e.H.sapiens 
Reference [?]:  http://www.rna.ccbb.utexas.edu; Cannone J.J., Subramanian S., Schnare M.N., Collett J.R., D Souza L.M., Du Y., Feng B., Lin N., Madabusi L.V., Muller K.M., Pande N., Shang Z., Yu N., and Gutell R.R. (2002). The Comparative RNA Web (CRW) Site: An Online Database of Comparative Sequence and Structure Information for Ribosomal, Intron, and other RNAs. BioMed Central Bioinformatics, 3:2. [Correction: BioMed Central Bioinformatics. 3:15.] 
Type [?]:  16S Ribosomal RNA  [?]
PS figure
PDF figure Figure from original source 
Organism [?]:  Homo sapiens 
Validated by NMR or XRay [?]:  No 
Method for secondary structure determination [?]:  Comparative sequence analysis 
Number of molecules [?]:  1 
Length [?]:  1870 
Fragments used [?]:  No 
Duplicated sequence [?]:  No other molecule in the database has the same sequence 
Number of
domains [?]:  4 
Number of unpaired bases [?]:  836 
Number of paired bases [?]:  1034 

Click on any header below for additional features.

Number of stems [?]:  113 
Number of base pairs in stems [?]:  490 
Maximum length of a stem [?]:  15 
Average length of a stem [?]:  4.35 
Minimum length of a stem [?]:  1 
Maximum estimated free energy [?]:  0.3 
Average estimated free energy [?]:  6.05 
Minimum estimated free energy [?]:  28.9 

Number of hairpin loops [?]:  30 
Maximum number of free bases in hairpin loops [?]:  10 
Average number of free bases in hairpin loops [?]:  5.6 
Minimum number of free bases in hairpin loop [?]:  3 

Number of bulge loops [?]:  33 
Maximum number of free bases in bulge loops [?]:  4 
Average number of free bases in bulge loops [?]:  0.74 
Minimum number of free bases in bulge loop [?]:  0 

Number of internal loops [?]:  35 
Maximum number of free bases in internal loops:  8 
Average number of free bases in internal loops:  3.01 
Minimum number of free bases in internal loop:  1 
Maximum internal loop absolute asymmetry:  4 
Average internal loop absolute asymmetry:  1.17 
Minimum internal loop absolute asymmetry:  0 
Maximum internal loop relative asymmetry:  5 
Average internal loop relative asymmetry:  1.77 
Minimum internal loop relative asymmetry:  1 

Number of multiloops [?]:  14 
Maximum number of free bases in multiloops:  128 
Average number of free bases in multiloops:  6.24 
Minimum number of free bases in multiloop:  0 
Maximum multiloop absolute asymmetry:  125 
Average multiloop absolute asymmetry:  7.21 
Minimum multiloop absolute asymmetry:  0 
Maximum multiloop relative asymmetry:  42.67 
Average multiloop relative asymmetry:  1.58 
Minimum multiloop relative asymmetry:  0 
Maximum number of branches in multiloops:  5 
Average number of branches in multiloops:  3.64 
Minimum number of branches in multiloops:  3 

Noncanonical base pairs features

Total number of noncanonical base pairs [?]: 
54 
Total number of AA noncanonical base pairs:  5 
Total number of AC noncanonical base pairs:  16 
Total number of AG noncanonical base pairs:  10 
Total number of CC noncanonical base pairs:  4 
Total number of CU noncanonical base pairs:  9 
Total number of GG noncanonical base pairs:  3 
Total number of UU noncanonical base pairs:  7 

Number of pseudoknots [?]:  3 
Number of bands:  6 
Number of base pairs in bands:  27 
Maximum band length:  8 
Average band length:  4.5 
Minimum band length:  2 
Maximum number of bands per pseudoknot:  2 
Average number of bands per pseudoknot:  2 
Minimum number of bands per pseudoknot:  2 
Maximum number of unbands:  3 
Average number of unbands:  1.67 
Minimum number of unbands:  0 
Maximum number of inbands:  1 
Average number of inbands:  0.33 
Minimum number of inbands:  0 
Maximum number of unpaired bases:  32 
Average number of unpaired bases:  23 
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:  8 
Maximum number of base pairs to remove, per pseudoknot:  3 
Average number of base pairs to remove, per pseudoknot:  2.67 
Minimum number of base pairs to remove, per pseudoknot:  2 
Minimum number of bands to remove, per molecule:  3 
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 ©
20042008 BETA LAB  University of British Columbia
