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 [?] PDB_00063 SOLUTION STRUCTURE OF THE RNASE P RNA (M1 RNA) P4 STEM OLIGORIBONUCLEOTIDE COMPLEXED WITH COBALT (II RNase P RNA Unknown RCSB Protein Data Bank 1F7H 27 PDB_00064 SOLUTION STRUCTURE OF THE RNASE P RNA (M1 RNA) P4 STEM C70U MUTANT OLIGORIBONUCLEOTIDE COMPLEXED WIT RNase P RNA Unknown RCSB Protein Data Bank 1F7I 27 PDB_00065 SOLUTION STRUCTURE OF HCV IRES RNA DOMAIN IIID IRES Unknown RCSB Protein Data Bank 1F84 29 PDB_00072 PENTAMERIC MODEL OF THE BACTERIOPHAGE PHI29 PROHEAD RNA Viral & Phage BACTERIOPHAGE PHI29 RCSB Protein Data Bank 1FOQ 545 PDB_00073 NMR VALIDATED MODEL OF DOMAIN IIID OF HEPATITIS C VIRUS INTERNAL RIBOSOME ENTRY SITE IRES HEPATITIS C VIRUS RCSB Protein Data Bank 1FQZ 27 PDB_00074 CRYSTAL STRUCTURE OF A 14BP RNA OLIGONUCLEOTIDE CONTAINING DOUBLE UU BULGES: A NOVEL INTRAMOLECULAR Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1FUF 28 PDB_00076 EUKARYOTIC DECODING REGION A-SITE RNA-PAROMOMYCIN COMPLEX Other rRNA TETRAHYMENA THERMOPHILA RCSB Protein Data Bank 1FYP 27 PDB_00079 A PREORGANIZED ACTIVE SITE IN THE CRYSTAL STRUCTURE OF THE TETRAHYMENA RIBOZYME Other Ribozyme TETRAHYMENA THERMOPHILA RCSB Protein Data Bank 1GRZ 494 PDB_00096 CRYSTAL STRUCTURE OF BPS-U2 SNRNA DUPLEX snRNA Unknown RCSB Protein Data Bank 1I9X 26 PDB_00101 CRYSTAL STRUCTURE OF A 14MER RNA CONTAINING DOUBLE UU BULGES IN TWO CRYSTAL FORMS: A NOVEL U*(AU) IN Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1IK5 28

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)