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 Internal loop features Number of internal loops per molecule: Greater than or equal to 1

Search results: 2992 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_01166 STRUCTURAL INVESTIGATION OF THE GLMS RIBOZYME BOUND TO ITS CATALYTIC COFACTOR Other Ribozyme HOMO SAPIENS RCSB Protein Data Bank 2NZ4 604 PDB_01169 CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING SITE COMPLEXED WITH PAROMAMINE Other rRNA Unknown RCSB Protein Data Bank 2O3V 43 PDB_01170 CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING SITE IN PRESENCE OF PAROMOMYCIN Other rRNA Unknown RCSB Protein Data Bank 2O3W 43 PDB_01171 CRYSTAL STRUCTURE OF THE PROKARYOTIC RIBOSOMAL DECODING SITE COMPLEXED WITH PAROMAMINE DERIVATIVE NB Other RNA Unknown RCSB Protein Data Bank 2O3X 42 PDB_01172 CRYSTAL STRUCTURE OF THE HOMO SAPIENS CYTOPLASMIC RIBOSOMAL DECODING SITE IN PRESENCE OF PAROMAMINE Other rRNA Unknown RCSB Protein Data Bank 2O3Y 43 PDB_01173 STRUCTURE OF 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WITH TH 23S rRNA DEINOCOCCUS RADIODURANS RCSB Protein Data Bank 2O43 2766 PDB_01174 STRUCTURE OF 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WITH TH 23S rRNA DEINOCOCCUS RADIODURANS RCSB Protein Data Bank 2O44 2766 PDB_01175 STRUCTURE OF THE 23S RRNA OF THE LARGE RIBOSOMAL SUBUNIT FROM DEINOCOCCUS RADIODURANS IN COMPLEX WIT 23S rRNA DEINOCOCCUS RADIODURANS RCSB Protein Data Bank 2O45 2766 PDB_01178 1.5 A X-RAY CRYSTAL STRUCTURE OF APRAMYCIN COMPLEX WITH RNA FRAGMENT GGCGUCGCUAGUACCG/GGUACUAAAAGUCG Other rRNA Unknown RCSB Protein Data Bank 2OE5 33 PDB_01179 2.4A X-RAY CRYSTAL STRUCTURE OF UNLIGANDED RNA FRAGMENT GGGCGUCGCUAGUACC/CGGUACUAAAAGUCGCC CONTAININ Other rRNA Unknown RCSB Protein Data Bank 2OE6 33

Analyse the 2992 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 2992 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 2992 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)