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

General features for molecule PDB_00809 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00809 Molecule name [?]: SOLUTION STRUCTURE OF THE EXTENDED U6 ISL AS OBSERVED IN THE U2/U6 COMPLEX FROM SACCHAROMYCES CEREVI Source [?]: RCSB Protein Data Bank Source ID [?]: 1XHP Reference [?]: D.G.SASHITAL,G.CORNILESCU,C.J.MCMANUS,D.A.BROW, S.E.BUTCHER. U2-U6 RNA FOLDING REVEALS A GROUP II INTRON-LIKE DOMAIN AND A FOUR-HELIX JUNCTION. NAT.STRUCT.MOL.BIOL. V. 11 1237 2004 US ISSN 1545-9993 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 [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 32 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 4 Number of paired bases [?]: 28

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 14 Maximum length of a stem [?]: 9 Average length of a stem [?]: 7 Minimum length of a stem [?]: 5 Maximum estimated free energy [?]: -5.4 Average estimated free energy [?]: -8.2 Minimum estimated free energy [?]: -11

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 3 Average number of free bases in hairpin loops [?]: 3 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 1 Maximum number of free bases in bulge loops [?]: 1 Average number of free bases in bulge loops [?]: 0.5 Minimum number of free bases in bulge loop [?]: 0

Internal loop features

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 3 Total number of AC non-canonical base pairs: 2 Total number of AG non-canonical base pairs: 1

Pseudoknot features