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_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 PDB_00153 STRUCTURE OF PROKARYOTIC SECIS MRNA HAIRPIN Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1MFK 23 PDB_00170 SOLUTION STRUCTURE OF HIV-1 STEM LOOP SL1 Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1N8X 36 PDB_00172 IRON RESPONSIVE ELEMENT RNA HAIRPIN, NMR, 15 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1NBR 29 PDB_00173 U80G U6 INTRAMOLECULAR STEM-LOOP RNA FROM SACCHAROMYCES CEREVISIAE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1NC0 24 PDB_00174 HIV-1 DIS(MAL) DUPLEX ZN-SOAKED Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1NLC 46 PDB_00177 SOLUTION STRUCTURE OF THE S. CEREVISIAE U6 INTRAMOLECULAR STEM-LOOP CONTAINING AN SP PHOSPHOROTHIOAT Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1NZ1 24 PDB_00179 HIV-1 DIS(MAL) DUPLEX RU HEXAMINE-SOAKED Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1O3Z 46 PDB_00181 THE STEM OF SL1 RNA IN HIV-1: STRUCTURE AND NUCLEOCAPSID PROTEIN BINDING FOR A 1X3 INTERNAL LOOP Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1OSW 22 PDB_00183 SOLUTION STRUCTURE OF HCV IRES DOMAIN IIA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1P5M 55

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)