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

Search Criteria (click here to expand/contract) General features Type: Synthetic RNA 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

Search results: 450 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_00010 HIV-2 TAR-ARGININAMIDE COMPLEX, NMR, 20 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1AJU 30 PDB_00012 CIS-ACTING RNA REGULATORY ELEMENT (HIV-1 TAR), NMR, 20 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1ANR 29 PDB_00013 IRON RESPONSIVE ELEMENT RNA HAIRPIN, NMR, 15 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1AQO 29 PDB_00015 HAIRPIN WITH AGAA TETRALOOP, NMR, 4 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1ATV 17 PDB_00016 HAIRPIN WITH AGAU TETRALOOP, NMR, 3 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1ATW 15 PDB_00018 NMR STRUCTURE OF THE DIMER INITIATION COMPLEX OF HIV-1 GENOMIC RNA, MINIMIZED AVERAGE STRUCTURE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1BAU 46 PDB_00020 RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LOOP SEQUENCE, NMR, 8 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1BJ2 40 PDB_00021 SL3 HAIRPIN FROM THE PACKAGING SIGNAL OF HIV-1, NMR, 11 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1BN0 20 PDB_00031 SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE- PAIR Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1C4L 18 PDB_00034 CRYSTAL STRUCTURE OF THE RRE HIGH AFFINITY SITE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1CSL 28

Analyse the 450 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 450 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 450 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)

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