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_00213 SOLUTION STRUCTURE OF MLV PSI SITE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1S9S 101 PDB_00216 FIRST STEM LOOP OF THE SL1 RNA FROM CAENORHABDITIS ELEGANS, NMR, MINIMIZED AVERAGE STRUCTURE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1SLO 19 PDB_00217 FIRST STEM LOOP OF THE SL1 RNA FROM CAENORHABDITIS ELEGANS, NMR, 16 STRUCTURES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1SLP 19 PDB_00218 REFINED SOLUTION STRUCTURE OF THE S. CEREVISIAE U6 INTRAMOLECULAR STEM LOOP (ISL) RNA USING RESIDUAL Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1SY4 24 PDB_00220 STRUCTURE REFINEMENT FOR A 24-NUCLEOTIDE RNA HAIRPIN, NMR, MINIMIZED AVERAGE STRUCTURE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1TFN 24 PDB_00240 SOLUTION NMR STRUCTURE OF A SUBSTRATE FOR THE ARCHAEAL PRE- TRNA SPLICING ENDONUCLEASES: THE BULGE-H tRNA Unknown RCSB Protein Data Bank 2A9L 38 PDB_00250 3.5 A STRUCTURE OF FRAGMENT I FROM E. COLI 5S RRNA 5S rRNA E. COLI RCSB Protein Data Bank 357D 60 PDB_00253 3.0 A STRUCTURE OF FRAGMENT I FROM E. COLI 5S RRNA 5S rRNA E. COLI RCSB Protein Data Bank 364D 60 PDB_00257 A 1.3 A RESOLUTION CRYSTAL STRUCTURE OF THE HIV-1 TRANS- ACTIVATION RESPONSE REGION RNA STEM REVEALS Synthetic RNA SYNTHETIC RCSB Protein Data Bank 397D 27 PDB_00272 CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITE Synthetic RNA SYNTHETIC RCSB Protein Data Bank 462D 46

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)