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

General features for molecule PDB_00372 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00372 Molecule name [?]: REV RESPONSE ELEMENT (RRE) RNA COMPLEXED WITH REV PEPTIDE, NMR, 19 STRUCTURES Source [?]: RCSB Protein Data Bank Source ID [?]: 1ETG Reference [?]: J.L.BATTISTE,H.MAO,N.S.RAO,R.TAN,D.R.MUHANDIRAM, L.E.KAY,A.D.FRANKEL,J.R.WILLIAMSON. ALPHA HELIX-RNA MAJOR GROOVE RECOGNITION IN AN HIV-1 REV PEPTIDE-RRE RNA COMPLEX.. SCIENCE V. 273 1547 1996 ASTM SCIEAS US ISSN 0036-8075 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 34 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00371, PDB_00460 Number of domains [?]: 1 Number of unpaired bases [?]: 4 Number of paired bases [?]: 30

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 15 Maximum length of a stem [?]: 7 Average length of a stem [?]: 5 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -2.4 Average estimated free energy [?]: -7.17 Minimum estimated free energy [?]: -11.5

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 2 Average number of free bases in hairpin loops [?]: 2 Minimum number of free bases in hairpin loop [?]: 2

Bulge loop features Number of bulge loops [?]: 2 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 AG non-canonical base pairs: 2 Total number of GG non-canonical base pairs: 1

Pseudoknot features

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