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

General features for molecule PDB_01251 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01251 Molecule name [?]: STRUCTURE OF THE RNA BROMINATED TRIDECAMER R(GCGUU- 5BUGAAACGC) AT 1.4 A (BR1) Source [?]: RCSB Protein Data Bank Source ID [?]: 2R1S Reference [?]: Y.TIMSIT,S.BOMBARD. THE 1.3 A RESOLUTION STRUCTURE OF THE RNA TRIDECAMER R(GCGUUUGAAACGC): METAL ION BINDING CORRELATES WITH BASE UNSTACKING AND GROOVE CONTRACTION.. RNA V. 13 2098 2007 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 [?]: X-RAY, RESOLUTION 1.40 ANGSTROMS; ran through RNAview Number of molecules [?]: 2 Length [?]: 26 Fragments used [?]: No Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_01252, PDB_01253, PDB_01254 Number of domains [?]: 1 Number of unpaired bases [?]: 0 Number of paired bases [?]: 26

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 13 Maximum length of a stem [?]: 13 Average length of a stem [?]: 13 Minimum length of a stem [?]: 13 Maximum estimated free energy [?]: -19.6 Average estimated free energy [?]: -19.6 Minimum estimated free energy [?]: -19.6

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 0 Average number of free bases in hairpin loops [?]: 0 Minimum number of free bases in hairpin loop [?]: 0

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 [?]: 1 Total number of GG non-canonical base pairs: 1

Pseudoknot features