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_00869 HIV-1 DIS RNA SUBTYPE F- ZN SOAKED Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1YXP 46 PDB_00874 CRYSTAL STRUCTURE OF RNASE III MUTANT E110Q FROM AQUIFEX AEOLICUS COMPLEXED WITH DOUBLE STRANDED RNA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1YZ9 44 PDB_00880 CRYSTAL STRUCTURE OF A COMPLEX OF THE RIBOSOME LARGE SUBUNIT WITH RAPAMYCIN 23S rRNA DEINOCOCCUS RADIODURANS RCSB Protein Data Bank 1Z58 2766 PDB_00886 HIV-1 DIS RNA SUBTYPE F- MONOCLINIC FORM Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1ZCI 92 PDB_00908 CRYSTAL STRUCTURE OF A GROUP I INTRON/TWO EXON COMPLEX THAT INCLUDES ALL CATALYTIC METAL ION LIGANDS GI Intron HOMO SAPIENS RCSB Protein Data Bank 1ZZN 222 PDB_00917 CRYSTAL STRUCTURE OF THE RNA SUBUNIT OF RIBONUCLEASE P. BACTERIAL A-TYPE. Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2A2E 266 PDB_00918 CRYSTAL STRUCTURE OF A LUTEOVIRAL RNA PSEUDOKNOT AND MODEL FOR A MINIMAL RIBOSOMAL FRAMESHIFTING MOT Viral & Phage Unknown RCSB Protein Data Bank 2A43 26 PDB_00919 CRYSTAL STRUCTURE OF BACTERIAL RIBONUCLEASE P RNA RNase P RNA Unknown RCSB Protein Data Bank 2A64 298 PDB_00922 STRUCTURE OF TRIGGER FACTOR BINDING DOMAIN IN BIOLOGICALLY HOMOLOGOUS COMPLEX WITH EUBACTERIAL RIBOS 23S rRNA DEINOCOCCUS RADIODURANS RCSB Protein Data Bank 2AAR 2766 PDB_00930 SOLUTION STRUCTURE OF THE C27A SCYLV P1-P2 FRAMESHIFTING PSEUDOKNOT, 20 LOWEST ENERGY STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2AP0 28

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)