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

General features for molecule PDB_00932 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00932 Molecule name [?]: CLASS I GTP APTAMER Source [?]: RCSB Protein Data Bank Source ID [?]: 2AU4 Reference [?]: J.M.CAROTHERS,J.H.DAVIS,J.J.CHOU,J.W.SZOSTAK. SOLUTION STRUCTURE OF AN INFORMATIONALLY COMPLEX HIGH-AFFINITY RNA APTAMER TO GTP.. RNA V. 12 567 2006 ASTM RNARFU UK ISSN 1355-8382 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 [?]: NMR; ran through RNAview Number of molecules [?]: 1 Length [?]: 41 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 15 Number of paired bases [?]: 26

Click on any header below for additional features.

Stem features Number of stems [?]: 3 Number of base pairs in stems [?]: 13 Maximum length of a stem [?]: 6 Average length of a stem [?]: 4.33 Minimum length of a stem [?]: 2 Maximum estimated free energy [?]: 0 Average estimated free energy [?]: -8 Minimum estimated free energy [?]: -13.6

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

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 Number of internal loops [?]: 2 Maximum number of free bases in internal loops: 7 Average number of free bases in internal loops: 3.25 Minimum number of free bases in internal loop: 1 Maximum internal loop absolute asymmetry: 5 Average internal loop absolute asymmetry: 3.5 Minimum internal loop absolute asymmetry: 2 Maximum internal loop relative asymmetry: 3 Average internal loop relative asymmetry: 3 Minimum internal loop relative asymmetry: 3

Multi-loop features

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

Pseudoknot features