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

General features for molecule PDB_00051 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00051 Molecule name [?]: NMR STRUCTURE OF STEM LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIP Source [?]: RCSB Protein Data Bank Source ID [?]: 1ESY Reference [?]: G.K.AMARASINGHE,R.N.DE GUZMAN,R.B.TURNER, M.F.SUMMERS. NMR STRUCTURE OF STEM-LOOP SL2 OF THE HIV-1 PSI RNA PACKAGING SIGNAL REVEALS A NOVEL A-U-A BASE-TRIPLE PLATFORM.. J.MOL.BIOL. V. 299 145 2000 ASTM JMOBAK UK ISSN 0022-2836 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 [?]: 19 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00383 Number of domains [?]: 1 Number of unpaired bases [?]: 5 Number of paired bases [?]: 14

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 7 Maximum length of a stem [?]: 5 Average length of a stem [?]: 3.5 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -2.1 Average estimated free energy [?]: -5.6 Minimum estimated free energy [?]: -9.1

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

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 [?]: 1 Total number of AA non-canonical base pairs: 1

Pseudoknot features

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