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 Bulge loop features Number of bulge loops, per molecule: Greater than or equal to 1

Search results: 2898 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_00019 S8 RRNA BINDING SITE FROM E. COLI, NMR, 6 STRUCTURES Other rRNA E. COLI RCSB Protein Data Bank 1BGZ 23 PDB_00022 HIV-1 RNA A-RICH HAIRPIN LOOP Viral & Phage HIV RCSB Protein Data Bank 1BVJ 23 PDB_00023 GENTAMICIN C1A A-SITE COMPLEX Other RNA Unknown RCSB Protein Data Bank 1BYJ 27 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_00030 5S RRNA STRUCTURE FITTED TO A CRYO-ELECTRON MICROSCOPIC MAP AT 7.5 ANGSTROMS RESOLUTION 5S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 1C2X 120 PDB_00034 CRYSTAL STRUCTURE OF THE RRE HIGH AFFINITY SITE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1CSL 28 PDB_00035 SOLUTION STRUCTURE OF A PHOSPHOROTHIOATE MODIFIED RNA BINDING SITE FOR PHAGE MS2 COAT PROTEIN Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1D0T 21 PDB_00037 CRYSTAL STRUCTURE OF HELIX II OF THE X. LAEVIS SOMATIC 5S RRNA WITH A CYTOSINE BULGE IN TWO CONFORMA Other rRNA Unknown RCSB Protein Data Bank 1DQF 19 PDB_00038 CRYSTAL STRUCTURE OF HELIX II OF THE X. LAEVIS SOMATIC 5S RRNA WITH A CYTOSINE BULGE IN TWO CONFORMA Other rRNA Unknown RCSB Protein Data Bank 1DQH 19 PDB_00039 CRYSTAL STRUCTURE OF THE REV BINDING ELEMENT OF HIV-1 Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1DUQ 104

Analyse the 2898 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 2898 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 2898 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)