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_00931 SOLUTION STRUCTURE OF THE C27A SCYLV P1-P2 FRAMESHIFTING PSEUDOKNOT, AVERAGE STRUCTURE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2AP5 28 PDB_00933 CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI AT 3.5 A RESOLUTION. THIS FILE CON 16S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2AVY 1530 PDB_00934 CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI AT 3.5 A RESOLUTION. THIS FILE CON 23S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2AW4 2958 PDB_00935 CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI AT 3.5 A RESOLUTION. THIS FILE CON 16S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2AW7 1530 PDB_00936 CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI AT 3.5 A RESOLUTION. THIS FILE CON 23S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2AWB 2958 PDB_00944 GUANINE RIBOSWITCH C74U MUTANT BOUND TO 2,6-DIAMINOPURINE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2B57 65 PDB_00946 30S RIBOSOMAL SUBUNIT, TRNAS, MRNA AND RELEASE FACTOR RF1 FROM A CRYSTAL STRUCTURE OF THE WHOLE RIBO 16S rRNA THERMUS THERMOPHILUS RCSB Protein Data Bank 2B64 1673 PDB_00947 50S RIBOSOMAL SUBUNIT FROM A CRYSTAL STRUCTURE OF RELEASE FACTOR RF1, TRNAS AND MRNA BOUND TO THE RI 23S rRNA THERMUS THERMOPHILUS RCSB Protein Data Bank 2B66 2937 PDB_00950 STRUCTURE OF HIV-1(LAI) GENOMIC RNA DIS Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2B8R 46 PDB_00951 STRUCTURE OF HIV-1(MAL) GENOMIC RNA DIS Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2B8S 46

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)