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_00082 CRYSTAL STRUCTURE ANALYSIS OF A MUTANT P4-P6 DOMAIN (DELC209) OF TETRAHYMENA THEMOPHILA GROUP I INTR GI Intron TETRAHYMENA THEMOPHILA RCSB Protein Data Bank 1HR2 315 PDB_00107 SOLUTION STRUCTURE OF INFLUENZA A VIRUS PROMOTER Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1JO7 31 PDB_00112 DIMER INITIATION SEQUENCE OF HIV-1LAI GENOMIC RNA: NMR SOLUTION STRUCTURE OF THE EXTENDED DUPLEX Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1JU1 46 PDB_00132 CONSERVED RNA STRUCTURE WITHIN THE HCV IRES EIF3 BINDING SITE IRES Unknown RCSB Protein Data Bank 1KP7 30 PDB_00136 CRYSTAL STRUCTURE OF A RNA MOLECULE CONTAINING DOMAIN 5 AND 6 OF THE YEAST AI5G GROUP II SELF-SPLICI GII Intron YEAST RCSB Protein Data Bank 1KXK 70 PDB_00140 CRYSTAL STRUCTURE OF A MUTANT (C109G,G212C) P4-P6 DOMAIN OF THE GROUP I INTRON FROM TETRAHYMENA THER GI Intron Unknown RCSB Protein Data Bank 1L8V 314 PDB_00142 SOLUTION STRUCTURE OF THE LEAD-DEPENDENT RIBOZYME, NMR, 25 STRUCTURES Other Ribozyme Unknown RCSB Protein Data Bank 1LDZ 30 PDB_00144 CRYSTAL STRUCTURE OF THE HIGHLY CONSERVED RNA INTERNAL LOOP OF SRP Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1LNT 24 PDB_00145 SOLUTION STRUCTURE OF THE YEAST SPLICEOSOMAL U2 SNRNA- INTRON BRANCH SITE HELIX FEATURING A CONSERVE snRNA SACCHAROMYCES CEREVISIAE RCSB Protein Data Bank 1LPW 19 PDB_00149 STRUCTURE OF WILD-TYPE AND MUTANT INTERNAL LOOPS FROM THE SL-1 DOMAIN OF THE HIV-1 PACKAGING SIGNAL Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1M5L 38

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)