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

General features for molecule CRW_00583 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: CRW_00583 Molecule name [?]: s.233.a.H.marismortui.3.schem Source [?]: Gutell Lab CRW Site Source ID [?]: s.233.a.H.marismortui.3.schem 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 [?]: 23S Ribosomal 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 [?]: 2930 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: CRW_00469, CRW_00579 Number of domains [?]: 1 Number of unpaired bases [?]: 1056 Number of paired bases [?]: 1874

Click on any header below for additional features.

Stem features Number of stems [?]: 113 Number of base pairs in stems [?]: 456 Maximum length of a stem [?]: 18 Average length of a stem [?]: 4.04 Minimum length of a stem [?]: 1 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -6.77 Minimum estimated free energy [?]: -30.6

Hairpin loop features Number of hairpin loops [?]: 53 Maximum number of free bases in hairpin loops [?]: 15 Average number of free bases in hairpin loops [?]: 5.15 Minimum number of free bases in hairpin loop [?]: 3 Total number of UUCG hairpin motifs per molecule [?]: 1

Bulge loop features Number of bulge loops [?]: 26 Maximum number of free bases in bulge loops [?]: 4 Average number of free bases in bulge loops [?]: 0.75 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 30 Maximum number of free bases in internal loops: 8 Average number of free bases in internal loops: 3.1 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 6 Average internal loop absolute asymmetry: 1.33 Minimum internal loop absolute asymmetry: 0 Maximum internal loop relative asymmetry: 4 Average internal loop relative asymmetry: 1.6 Minimum internal loop relative asymmetry: 1

Multi-loop features Number of multi-loops [?]: 4 Maximum number of free bases in multi-loops: 6 Average number of free bases in multi-loops: 1.81 Minimum number of free bases in multi-loop: 0 Maximum multi-loop absolute asymmetry: 6 Average multi-loop absolute asymmetry: 1.81 Minimum multi-loop absolute asymmetry: 0 Maximum multi-loop relative asymmetry: 6 Average multi-loop relative asymmetry: 0.84 Minimum multi-loop relative asymmetry: 0 Maximum number of branches in multi-loops: 5 Average number of branches in multi-loops: 4 Minimum number of branches in multi-loops: 3

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 29 Total number of AA non-canonical base pairs: 4 Total number of AC non-canonical base pairs: 5 Total number of AG non-canonical base pairs: 11 Total number of CC non-canonical base pairs: 2 Total number of CU non-canonical base pairs: 2 Total number of GG non-canonical base pairs: 1 Total number of UU non-canonical base pairs: 4

Pseudoknot features Number of pseudoknots [?]: 8 Number of bands: 89 Number of base pairs in bands: 481 Maximum band length: 33 Average band length: 5.4 Minimum band length: 1 Maximum number of bands per pseudoknot: 68 Average number of bands per pseudoknot: 11.13 Minimum number of bands per pseudoknot: 2 Maximum number of un-bands: 23 Average number of un-bands: 3.63 Minimum number of un-bands: 0 Maximum number of in-bands: 20 Average number of in-bands: 2.88 Minimum number of in-bands: 0 Maximum number of unpaired bases: 464 Average number of unpaired bases: 64.5 Minimum number of unpaired bases: 0 Several ways to remove minimum number of base pairs, per molecule: Yes Minimum number of base pairs to remove, per molecule: 52 Maximum number of base pairs to remove, per pseudoknot: 32 Average number of base pairs to remove, per pseudoknot: 6.5 Minimum number of base pairs to remove, per pseudoknot: 1 Minimum number of bands to remove, per molecule: 35 Maximum number of bands to remove, per pseudoknot: 23 Average number of bands to remove, per pseudoknot: 4.38 Minimum number of bands to remove, per pseudoknot: 1