RNA STRAND v2.0 - The RNA secondary STRucture and statistical ANalysis Database

General features for molecule PDB_00810 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00810 Molecule name [?]: THE STRUCTURE OF A RIGOROUSLY CONSERVED RNA ELEMENT WITHIN THE SARS VIRUS GENOME Source [?]: RCSB Protein Data Bank Source ID [?]: 1XJR Reference [?]: M.P.ROBERTSON,H.IGEL,R.BAERTSCH,D.HAUSSLER, M.ARES JR.,W.G.SCOTT. THE STRUCTURE OF A RIGOROUSLY CONSERVED RNA ELEMENT WITHIN THE SARS VIRUS GENOME. PLOS BIOL. V. 3 86 2005 US ISSN 1544-9173 Type [?]: Synthetic RNA [?]     PS figure     PDF figure Figure from original source Organism [?]: SYNTHETIC Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: X-RAY, RESOLUTION 2.70 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 47 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 13 Number of paired bases [?]: 34

Click on any header below for additional features.

Stem features Number of stems [?]: 4 Number of base pairs in stems [?]: 17 Maximum length of a stem [?]: 8 Average length of a stem [?]: 4.25 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: -2.4 Average estimated free energy [?]: -5.05 Minimum estimated free energy [?]: -9.6

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 3 Average number of free bases in hairpin loops [?]: 3 Minimum number of free bases in hairpin loop [?]: 3

Bulge loop features Number of bulge loops [?]: 2 Maximum number of free bases in bulge loops [?]: 2 Average number of free bases in bulge loops [?]: 0.75 Minimum number of free bases in bulge loop [?]: 0

Internal loop features Number of internal loops [?]: 1 Maximum number of free bases in internal loops: 3 Average number of free bases in internal loops: 2.5 Minimum number of free bases in internal loop: 2 Maximum internal loop absolute asymmetry: 1 Average internal loop absolute asymmetry: 1 Minimum internal loop absolute asymmetry: 1 Maximum internal loop relative asymmetry: 1 Average internal loop relative asymmetry: 1 Minimum internal loop relative asymmetry: 1

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 3 Total number of AC non-canonical base pairs: 1 Total number of AG non-canonical base pairs: 2

Pseudoknot features