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_00991 CRYSTAL STRUCTURE OF A MINIMAL, NATIVE (U39) ALL-RNA HAIRPIN RIBOZYME Hairp. Ribozyme Unknown RCSB Protein Data Bank 2D2K 61 PDB_00992 CRYSTAL STRUCTURE OF A MINIMAL, ALL-RNA HAIRPIN RIBOZYME WITH A PROPYL LINKER (C3) AT POSITION U39 Hairp. Ribozyme Unknown RCSB Protein Data Bank 2D2L 60 PDB_00993 STRUCTURE OF RIBOSOME BINDING DOMAIN OF THE TRIGGER FACTOR ON THE 50S RIBOSOMAL SUBUNIT FROM D. RADI 23S rRNA DEINOCOCCUS RADIODURANS RCSB Protein Data Bank 2D3O 2802 PDB_00996 AN ALTERNATING SHEARED AA PAIR IN 5'GGUGAAGGCU/3'PCCGAAGCCG: I. THE MAJOR CONFORMATION WITH A6/A15/A Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2DD2 20 PDB_00997 AN ALTERNATING SHEARED AA PAIR IN 5'GGUGAAGGCU/3'PCCGAAGCCG: II. THE MINOR CONFORMATION WITH A6/A5/A Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2DD3 20 PDB_01003 COMPLEX STRUCTURE OF CCA ADDING ENZYME WITH MINI-HELIX LACKING CCA tRNA ARCHAEOGLOBUS FULGIDUS RCSB Protein Data Bank 2DR5 32 PDB_01015 A SNAPSHOT OF THE 30S RIBOSOMAL SUBUNIT CAPTURING MRNA VIA THE SHINE- DALGARNO INTERACTION 16S rRNA THERMUS THERMOPHILUS RCSB Protein Data Bank 2E5L 1527 PDB_01020 GUANINE RIBOSWITCH A21U, U75A MUTANT BOUND TO HYPOXANTHINE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2EES 68 PDB_01021 GUANINE RIBOSWITCH A21G, U75C MUTANT BOUND TO HYPOXANTHINE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2EET 68 PDB_01022 GUANINE RIBOSWITCH U22A, A52U MUTANT BOUND TO HYPOXANTHINE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2EEU 68

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)