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_01049 HIV-1 DIS KISSING-LOOP IN COMPLEX WITH LIVIDOMYCIN Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2FD0 46 PDB_01059 NMR STRUCTURE OF THE AQUIFEX AEOLICUS TMRNA PSEUDOKNOT PK1 Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2G1W 22 PDB_01066 MODIFIED PYRIMIDINES SPECIFICALLY BIND THE PURINE RIBOSWITCH Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2G9C 68 PDB_01068 PRE-CLEAVAGE STATE OF THE THERMOANAEROBACTER TENGCONGENSIS GLMS RIBOZYME Other Ribozyme Unknown RCSB Protein Data Bank 2GCS 142 PDB_01069 POST-CLEAVAGE STATE OF THE THERMOANAEROBACTER TENGCONGENSIS GLMS RIBOZYME Other Ribozyme Unknown RCSB Protein Data Bank 2GCV 141 PDB_01070 CRYSTAL STRUCTURE OF THIAMINE PYROPHOSPHATE-SPECIFIC RIBOSWITCH IN COMPLEX WITH THIAMINE PYROPHOSPHA Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2GDI 160 PDB_01073 STRUCTURE OF THE S-ADENOSYLMETHIONINE RIBOSWITCH MRNA REGULATORY ELEMENT Synthetic RNA SYNTHETIC RCSB Protein Data Bank 2GIS 94 PDB_01088 STRUCTURE OF THE 30S SUBUNIT OF A PRE-TRANSLOCATIONAL E. COLI RIBOSOME OBTAINED BY FITTING ATOMIC MO 16S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2GY9 1716 PDB_01089 STRUCTURE OF THE 50S SUBUNIT OF A PRE-TRANSLOCATIONAL E. COLI RIBOSOME OBTAINED BY FITTING ATOMIC MO 23S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2GYA 2848 PDB_01090 STRUCTURE OF THE 30S SUBUNIT OF A SECM-STALLED E. COLI RIBOSOME COMPLEX OBTAINED BY FITTING ATOMIC M 16S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2GYB 1716

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)