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_00104 CRYSTAL STRUCTURE OF AN RNA DUPLEX WITH URIDINE BULGES Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1J9H 36 PDB_00108 NMR STRUCTURE OF THE LP5.1 HAIRPIN FROM BACILLUS RNASE P RNA REFINED WITH RESIDUAL DIPOLAR COUPLINGS RNase P RNA Unknown RCSB Protein Data Bank 1JOX 21 PDB_00109 NMR STRUCTURE OF THE LP5.1 HAIRPIN FROM BACILLUS RNASE P RNA REFINED WITHOUT RESIDUAL DIPOLAR COUPLI RNase P RNA Unknown RCSB Protein Data Bank 1JP0 21 PDB_00112 DIMER INITIATION SEQUENCE OF HIV-1LAI GENOMIC RNA: NMR SOLUTION STRUCTURE OF THE EXTENDED DUPLEX Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1JU1 46 PDB_00113 SOLUTION STRUCTURE OF HELIX III IN XENOPUS OOCYTE 5S RRNA. Other RNA Unknown RCSB Protein Data Bank 1JUR 22 PDB_00115 CRYSTAL STRUCTURE OF A BULGED RNA FROM THE SL2 STEM-LOOP OF THE HIV-1 PSI-RNA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1JZV 34 PDB_00122 BULGED ADENOSINE IN AN RNA DUPLEX Other RNA Unknown RCSB Protein Data Bank 1K8S 25 PDB_00136 CRYSTAL STRUCTURE OF A RNA MOLECULE CONTAINING DOMAIN 5 AND 6 OF THE YEAST AI5G GROUP II SELF-SPLICI GII Intron YEAST RCSB Protein Data Bank 1KXK 70 PDB_00141 SOLUTION STRUCTURE OF THE U6 INTRAMOLECULAR STEM-LOOP RNA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1LC6 24 PDB_00143 SOLUTION STRUCTURE OF THE UNMODIFIED U2 SNRNA-INTRON BRANCH SITE HELIX FROM S. CEREVISIAE GI Intron SACCHAROMYCES CEREVISIAE RCSB Protein Data Bank 1LMV 19

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)