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 Internal loop features Number of internal loops per molecule: Greater than or equal to 1

Search results: 2992 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_00652 CRYSTAL STRUCTURE OF MINIHELIX WITH 3' PUROMYCIN BOUND TO A- SITE OF THE 50S RIBOSOMAL SUBUNIT. 23S rRNA HALOARCULA MARISMORTUI RCSB Protein Data Bank 1Q81 2879 PDB_00653 CRYSTAL STRUCTURE OF CC-PUROMYCIN BOUND TO THE A-SITE OF THE 50S RIBOSOMAL SUBUNIT 23S rRNA HALOARCULA MARISMORTUI RCSB Protein Data Bank 1Q82 2879 PDB_00654 CRYSTAL STRUCTURE OF CCA-PHE-CAP-BIOTIN BOUND SIMULTANEOUSLY AT HALF OCCUPANCY TO BOTH THE A-SITE AN 23S rRNA HALOARCULA MARISMORTUI RCSB Protein Data Bank 1Q86 2882 PDB_00655 SOLUTION STRUCTURE OF THE MALACHITE GREEN RNA BINDING APTAMER Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1Q8N 38 PDB_00659 CRYSTAL STRUCTURE OF A CONSERVED RIBOSOMAL PROTEIN-RNA COMPLEX Other rRNA BACILLUS STEAROTHERMOPHILUS RCSB Protein Data Bank 1QA6 116 PDB_00663 CRYSTAL STRUCTURE OF AN 18 BASE PAIR COPY CONTROL RELATED RNA DUPLEX Synthetic RNA SYNTHETIC RCSB Protein Data Bank 1QCU 44 PDB_00675 STRUCTURE OF A DEACYLATED TRNA MINIHELIX BOUND TO THE E SITE OF THE LARGE RIBOSOMAL SUBUNIT OF HALOA 23S rRNA HALOARCULA MARISMORTUI RCSB Protein Data Bank 1QVF 2888 PDB_00676 STRUCTURE OF CCA OLIGONUCLEOTIDE BOUND TO THE TRNA BINDING SITES OF THE LARGE RIBOSOMAL SUBUNIT OF H 23S rRNA HALOARCULA MARISMORTUI RCSB Protein Data Bank 1QVG 2885 PDB_00679 CRYSTAL STRUCTURE OF THE COMPLETE CORE OF ARCHAEAL SRP AND IMPLICATIONS FOR INTER-DOMAIN COMMUNICATI Other RNA SULFOLOBUS SOLFATARICUS RCSB Protein Data Bank 1QZW 188 PDB_00701 STRUCTURE OF THE SIGNAL RECOGNITION PARTICLE INTERACTING WITH THE ELONGATION-ARRESTED RIBOSOME Synthetic RNA TURSIOPS TRUNCATUS RCSB Protein Data Bank 1RY1 302

Analyse the 2992 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 2992 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 2992 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)