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

General features for molecule PDB_00135 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00135 Molecule name [?]: PEMV-1 P1-P2 FRAMESHIFTING PSEUDOKNOT REGULARIZED AVERAGE STRUCTURE Source [?]: RCSB Protein Data Bank Source ID [?]: 1KPZ Reference [?]: P.L.NIXON,A.RANGAN,Y-.G.KIM,A.RICH,D.W.HOFFMAN, M.HENNIG,D.P.GIEDROC. SOLUTION STRUCTURE OF A LUTEOVIRAL P1-P2 FRAMESHIFTING MRNA PSEUDOKNOT. J.MOL.BIOL. V. 322 621 2002 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 [?]: 28 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_00134 Number of domains [?]: 1 Number of unpaired bases [?]: 14 Number of paired bases [?]: 14

Click on any header below for additional features.

Stem features

Hairpin loop features Number of hairpin loops [?]: 0 Maximum number of free bases in hairpin loops [?]: N/A Average number of free bases in hairpin loops [?]: N/A Minimum number of free bases in hairpin loop [?]: N/A

Bulge loop features Number of bulge loops [?]: 0 Maximum number of free bases in bulge loops [?]: N/A Average number of free bases in bulge loops [?]: N/A Minimum number of free bases in bulge loop [?]: N/A

Internal loop features

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features Number of pseudoknots [?]: 1 Number of bands: 2 Number of base pairs in bands: 7 Maximum band length: 5 Average band length: 3.5 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 un-bands: 0 Average number of un-bands: 0 Minimum number of un-bands: 0 Maximum number of in-bands: 0 Average number of in-bands: 0 Minimum number of in-bands: 0 Maximum number of unpaired bases: 13 Average number of unpaired bases: 13 Minimum number of unpaired bases: 13 Several ways to remove minimum number of base pairs, per molecule: No Minimum number of base pairs to remove, per molecule: 2 Maximum number of base pairs to remove, per pseudoknot: 2 Average number of base pairs to remove, per pseudoknot: 2 Minimum number of base pairs to remove, per pseudoknot: 2 Minimum number of bands to remove, per molecule: 1 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

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