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 Bulge loop features Number of bulge loops, per molecule: Greater than or equal to 1

Search results: 2898 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 [?] CRW_01624 d.5.e.T.monococcum 5S rRNA Unknown Gutell Lab CRW Site d.5.e.T.monococcum 120 CRW_01625 d.5.e.T.thermophila.2 5S rRNA Tetrahymena thermophila Gutell Lab CRW Site d.5.e.T.thermophila.2 120 CRW_01626 d.5.e.U.unicinctus 5S rRNA Unknown Gutell Lab CRW Site d.5.e.U.unicinctus 120 NDB_00015 UNUSUAL HELICAL PACKING IN CRYSTALS OF DNA BEARING A MUTATION HOT SPOT Unknown Unknown Nucleic Acid Database bdl018 24 PDB_00002 BRANCHPOINT HELIX FROM YEAST AND BINDING SITE FOR PHAGE GA/MS2 COAT PROTEINS, NMR, 12 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 17RA 21 PDB_00003 PAROMOMYCIN BINDING INDUCES A LOCAL CONFORMATIONAL CHANGE IN THE A SITE OF 16S RRNA, NMR, 20 STRUCTU Other RNA Unknown RCSB Protein Data Bank 1A3M 27 PDB_00006 SOLUTION STRUCTURE OF A SUBSTRATE FOR THE ARCHAEAL PRE-TRNA SPLICING ENDONUCLEASES: THE BULGE-HELIX- Other RNA Unknown RCSB Protein Data Bank 1A9L 38 PDB_00009 FIVE-NUCLEOTIDE BULGE LOOP FROM TETRAHYMENA THERMOPHILA GROUP I INTRON GI Intron Unknown RCSB Protein Data Bank 1AJL 19 PDB_00010 HIV-2 TAR-ARGININAMIDE COMPLEX, NMR, 20 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1AJU 30 PDB_00013 IRON RESPONSIVE ELEMENT RNA HAIRPIN, NMR, 15 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1AQO 29

Analyse the 2898 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 2898 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 2898 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)