RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

Search Criteria (click here to expand/contract) General features Type: Synthetic RNA 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

Search results: 450 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_01191 NMR STRUCTURE OF THE UGUU TETRALOOP OF DUCK EPSILON APICAL STEM LOOP Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2OJ7 8 PDB_01192 NMR STRUCTURE OF THE UGUU TETRALOOP OF DUCK EPSILON APICAL STEM LOOP OF THE HEPATITIS B VIRUS Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2OJ8 8 PDB_01194 NMR STRUCTURE OF A KISSING COMPLEX FORMED BETWEEN THE TAR RNA ELEMENT OF HIV-1 AND A LNA/RNA APTAMER Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2OOM 32 PDB_01204 STRUCTURE OF THE MRNA-BINDING DOMAIN OF ELONGATION FACTOR SELB FROM E.COLI IN COMPLEX WITH SECIS RNA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2PJP 23 PDB_01205 STRUCTURE OF THE MRNA BINDING FRAGMENT OF ELONGATION FACTOR SELB IN COMPLEX WITH SECIS RNA. Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2PLY 46 PDB_01206 NMR STRUCTURE OF A KISSING COMPLEX FORMED BETWEEN THE TAR RNA ELEMENT OF HIV-1 AND A LNA MODIFIED AP Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2PN9 32 PDB_01219 CRYSTAL STRUCTURE ANALYSIS OF THE RNA DODECAMER CGC-NF2- AAUUGGCG, WITH AN INCORPORATED 2,4-DIFLUORO Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2Q1O 44 PDB_01236 STRUCTURE OF THE M-BOX RIBOSWITCH APTAMER DOMAIN Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2QBZ 153 PDB_01237 SOLUTION STRUCTURE OF THE CR7 TERMINAL HAIRPIN LOOP FROM HUMAN TELOMERASE RNA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2QH2 24 PDB_01238 SOLUTION STRUCTURE OF THE U64 H/ACA SNORNA 3' TERMINAL HAIRPIN LOOP Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2QH3 23

Analyse the 450 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 450 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 450 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)