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

General features for molecule PDB_00815 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00815 Molecule name [?]: CRYSTAL STRUCTURE OF ALFALFA MOSAIC VIRUS RNA 3'UTR IN COMPLEX WITH COAT PROTEIN N TERMINAL PEPTIDE Source [?]: RCSB Protein Data Bank Source ID [?]: 1XOK Reference [?]: L.M.GUOGAS,D.J.FILMAN,J.M.HOGLE,L.GEHRKE. COFOLDING ORGANIZES ALFALFA MOSAIC VIRUS RNA AND COAT PROTEIN FOR REPLICATION.. SCIENCE V. 306 2108 2004 ASTM SCIEAS US ISSN 0036-8075 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 3.00 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 36 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 18 Number of paired bases [?]: 18

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 9 Maximum length of a stem [?]: 5 Average length of a stem [?]: 4.5 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -7.7 Average estimated free energy [?]: -8.2 Minimum estimated free energy [?]: -8.7

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 5 Average number of free bases in hairpin loops [?]: 3 Minimum number of free bases in hairpin loop [?]: 1

Bulge loop features Number of bulge loops [?]: 0 Maximum number of free bases in bulge loops [?]: N/A Average number of free bases in bulge loops [?]: N/A Minimum number of free bases in bulge loop [?]: N/A

Internal loop features

Multi-loop features

Non-canonical base pairs features Total number of non-canonical base pairs [?]: 0

Pseudoknot features