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

Search Criteria (click here to expand/contract) General features Type: Any Organism: Any Source: Any , Source ID: Any Length: Any Validated by NMR or X-Ray: I don't care Number of molecules in complex: Any Fragment: I don't care Duplicates: All molecules Sequence pattern: Any Abstract shape: Any Pseudoknot features Number of pseudoknots per molecule: Greater than or equal to 1

Search results: 2333 results found. (Click on the row to see the statistics for the chosen molecule.) RNA STRAND ID [?] Molecule name [?] Type [?] Organism [?] Source [?] Source ID [?] Length [?] PDB_00209 THE STRUCTURE OF AN RNA PSEUDOKNOT THAT CAUSES EFFICIENT FRAMESHIFTING IN MOUSE MAMMARY TUMOR VIRUS Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1RNK 34 PDB_00241 RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LOOP SEQUENCE, NMR, MINIMIZED AVERAGE STRUCTURE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2BJ2 40 PDB_00243 AN INVESTIGATION OF THE STRUCTURE OF THE PSEUDOKNOT WITHIN THE GENE 32 MESSENGER RNA OF BACTERIOPHAG Viral & Phage Unknown RCSB Protein Data Bank 2TPK 36 PDB_00269 CRYSTAL STRUCTURE OF AN RNA PSEUDOKNOT FROM BEET WESTERN YELLOW VIRUS INVOLVED IN RIBOSOMAL FRAMESHI Other rRNA BEET WESTERN RCSB Protein Data Bank 437D 28 PDB_00278 X-RAY CRYSTAL STRUCTURES OF 70S RIBOSOME FUNCTIONAL COMPLEXES Other RNA THERMUS THERMOPHILUS RCSB Protein Data Bank 486D 224 PDB_00335 HEPATITIS DELTA VIRUS RIBOZYME Other Ribozyme HEPATITIS DELTA VIRUS RCSB Protein Data Bank 1CX0 72 PDB_00340 MOLECULAR RECOGNITION BY THE VITAMIN B12 RNA APTAMER Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1DDY 140 PDB_00346 U1A SPLICEOSOMAL PROTEIN/HEPATITIS DELTA VIRUS GENOMIC RIBOZYME COMPLEX Other Ribozyme HEPATITIS DELTA VIRUS RCSB Protein Data Bank 1DRZ 72 PDB_00352 CORE OF THE ALU DOMAIN OF THE MAMMALIAN SRP Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1E8O 50 PDB_00370 CRYSTAL STRUCTURE OF A VITAMIN B12 BINDING RNA APTAMER WITH LIGAND AT 2.3 A Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1ET4 175

Analyse the 2333 results of your search Per molecule: Molecule length Number of stems Number of hairpin loops Number of bulges Number of internal loops Number of multi-loops Number of pseudoknots Number of bands Number of domains # base pairs to break for pseudoknot freeness # bands to break for pseudoknot freeness Average stem length Average hairpin size Average bulge size Average internal loop size Average multi-loop size Cumulative distribution Histograms Correlation vs. molecule length In all 2333 molecules: Stem length Stem free energy (estimated) Hairpin number of free bases Bulge number of free bases Internal loop number of free bases Internal loop absolute asymmetry Multi-loop number of free bases Multi-loop average absolute asymmetry Multi-loop number of branches Exterior loop number of free bases Pseudoknot number of bands Pseudoknot - min # of base pairs to break Pseudoknot - min # of bands to break Pseudoknot length Number of non-canonical base pairs and nearest neighbours Cumulative distribution Histograms (Cummulative distributions are not applicable to non-canonical base pairs) Remove outliers (not applicable to correlations and non-canonical base pairs) [?] Normalize by RNA type (not applicable to non-canonical base pairs) [?]

Download all 2333 results of your search Format [?]: CT (one file per entry) RNAML (one file per entry) BPSEQ (one file per entry) Dot-parentheses (one file per entry) Dot-parentheses (one file for all entries) FASTA (one file per entry) FASTA (one file for all entries)