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_00250 3.5 A STRUCTURE OF FRAGMENT I FROM E. COLI 5S RRNA 5S rRNA E. COLI RCSB Protein Data Bank 357D 60 PDB_00253 3.0 A STRUCTURE OF FRAGMENT I FROM E. COLI 5S RRNA 5S rRNA E. COLI RCSB Protein Data Bank 364D 60 PDB_00255 THE STRUCTURAL BASIS OF HAMMERHEAD RIBOZYME SELF-CLEAVAGE Ham. Ribozyme Unknown RCSB Protein Data Bank 379D 41 PDB_00264 CRYSTAL STRUCTURE OF A LEADZYME; METAL BINDING AND IMPLICATIONS FOR CATALYSIS Synthetic RNA SYNTHETIC RCSB Protein Data Bank 429D 48 PDB_00265 STRUCTURE OF SARCIN/RICIN LOOP FROM RAT 28S RRNA Other rRNA Unknown RCSB Protein Data Bank 430D 29 PDB_00276 CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA 23S rRNA E. COLI RCSB Protein Data Bank 480D 27 PDB_00277 CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA 23S rRNA E. COLI RCSB Protein Data Bank 483D 27 PDB_00312 U1A-UTRRNA, NMR, 31 STRUCTURES Other rRNA HOMO SAPIENS RCSB Protein Data Bank 1AUD 30 PDB_00317 BOVINE IMMUNODEFICIENCY VIRUS TAT-TAR COMPLEX, NMR, 5 STRUCTURES Synthetic RNA BOVINE IMMUNODEFICIENCY VIRUS RCSB Protein Data Bank 1BIV 28 PDB_00326 IDENTIFICATION OF KNOWN PROTEIN AND RNA STRUCTURES IN A 5 A MAP OF THE LARGE RIBOSOMAL SUBUNIT FROM Other rRNA HALOARCULA MARISMORTUI RCSB Protein Data Bank 1C04 87

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)