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_01284 CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI IN COMPLEX WITH PAROMOMYCIN AND RI 16S rRNA ESCHERICHIA COLI RCSB Protein Data Bank 2Z4M 1530 PDB_01285 CRYSTAL STRUCTURE OF THE BACTERIAL RIBOSOME FROM ESCHERICHIA COLI IN COMPLEX WITH PAROMOMYCIN AND RI 23S rRNA THERMUS THERMOPHILUS RCSB Protein Data Bank 2Z4N 2958 PDB_01300 T. TENGCONGENSIS GLMS RIBOZYME WITH G40A MUTATION, BOUND TO GLUCOSAMINE-6-PHOSPHATE Other Ribozyme THERMOANAEROBACTER TENGCONGENSIS RCSB Protein Data Bank 3B4A 142 PDB_01301 T. TENGCONGENSIS GLMS RIBOZYME WITH G40A MUTATION, BOUND TO GLUCOSAMINE-6-PHOSPHATE AND A SUBSTRATE Other Ribozyme THERMOANAEROBACTER TENGCONGENSIS RCSB Protein Data Bank 3B4B 141 PDB_01302 T. TENGCONGENSIS GLMS RIBOZYME BOUND TO GLUCOSAMINE-6- PHOSPHATE AND A SUBSTRATE RNA WITH A 2'5'-PHO Other Ribozyme THERMOANAEROBACTER TENGCONGENSIS RCSB Protein Data Bank 3B4C 139 RFA_00582 Y RNA, RF00019, K01562.1/1-110 Y RNA Unknown Rfam Database RF00019 K01562.1/110-1 110 RFA_00583 Y RNA, RF00019, K01563.1/1-100 Y RNA Unknown Rfam Database RF00019 K01563.1/100-1 100 RFA_00584 Y RNA, RF00019, K01564.1/1-77 Y RNA Unknown Rfam Database RF00019 K01564.1/77-1 77 RFA_00585 Y RNA, RF00019, L15431.1/36-134 Y RNA Unknown Rfam Database RF00019 L15431.1/134-36 99 RFA_00586 Y RNA, RF00019, L15432.1/36-124 Y RNA Unknown Rfam Database RF00019 L15432.1/124-36 89

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)