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

General features for molecule PDB_00073 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00073 Molecule name [?]: NMR VALIDATED MODEL OF DOMAIN IIID OF HEPATITIS C VIRUS INTERNAL RIBOSOME ENTRY SITE Source [?]: RCSB Protein Data Bank Source ID [?]: 1FQZ Reference [?]: R.KLINCK,E.WESTHOF,S.WALKER,M.AFSHAR,A.COLLIER, F.ABOUL-ELA. A POTENTIAL RNA DRUG TARGET IN THE HEPATITIS C VIRUS INTERNAL RIBOSOMAL ENTRY SITE.. RNA V. 6 1423 2000 ASTM RNARFU UK ISSN 1355-8382 Type [?]: Internal Ribosome Entry Site [?]     PS figure     PDF figure Figure from original source Organism [?]: HEPATITIS C VIRUS Validated by NMR or X-Ray [?]: Yes Method for secondary structure determination [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 27 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 7 Number of paired bases [?]: 20

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 10 Maximum length of a stem [?]: 5 Average length of a stem [?]: 5 Minimum length of a stem [?]: 5 Maximum estimated free energy [?]: -3.9 Average estimated free energy [?]: -5.3 Minimum estimated free energy [?]: -6.7

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 6 Average number of free bases in hairpin loops [?]: 6 Minimum number of free bases in hairpin loop [?]: 6

Bulge loop features Number of bulge loops [?]: 1 Maximum number of free bases in bulge loops [?]: 1 Average number of free bases in bulge loops [?]: 0.5 Minimum number of free bases in bulge loop [?]: 0

Internal loop features

Multi-loop features

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

Pseudoknot features

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