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_00018 NMR STRUCTURE OF THE DIMER INITIATION COMPLEX OF HIV-1 GENOMIC RNA, MINIMIZED AVERAGE STRUCTURE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1BAU 46 PDB_00020 RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LOOP SEQUENCE, NMR, 8 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1BJ2 40 PDB_00029 23S RRNA STRUCTURE FITTED TO A CRYO-ELECTRON MICROSCOPIC MAP AT 7.5 ANGSTROMS RESOLUTION 23S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 1C2W 2904 PDB_00041 SOLUTION STRUCTURE OF THE PSEUDOKNOT OF SRV-1 RNA, INVOLVED IN RIBOSOMAL FRAMESHIFTING Other RNA SRV RCSB Protein Data Bank 1E95 36 PDB_00053 CRYSTAL STRUCTURE OF A BIOTIN-BINDING RNA PSEUDOKNOT Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1F27 30 PDB_00056 SOLUTION STRUCTURE OF THE KISSING DIMER OF H3 GACG STEM- LOOP IN THE 5'-END DIMERIZATION SIGNAL OF M Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1F5U 36 PDB_00072 PENTAMERIC MODEL OF THE BACTERIOPHAGE PHI29 PROHEAD RNA Viral & Phage BACTERIOPHAGE PHI29 RCSB Protein Data Bank 1FOQ 545 PDB_00078 CRYSTAL STRUCTURE OF A GROUP I RIBOZYME DOMAIN: PRINCIPLES OF RNA PACKING Other Ribozyme Unknown RCSB Protein Data Bank 1GID 316 PDB_00079 A PREORGANIZED ACTIVE SITE IN THE CRYSTAL STRUCTURE OF THE TETRAHYMENA RIBOZYME Other Ribozyme TETRAHYMENA THERMOPHILA RCSB Protein Data Bank 1GRZ 494 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

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)