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

General features for molecule PDB_01191 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01191 Molecule name [?]: NMR STRUCTURE OF THE UGUU TETRALOOP OF DUCK EPSILON APICAL STEM LOOP Source [?]: RCSB Protein Data Bank Source ID [?]: 2OJ7 Reference [?]: F.C.GIRARD,O.M.OTTINK,K.A.AMPT,M.TESSARI, S.S.WIJMENGA. THERMODYNAMICS AND NMR STUDIES ON DUCK, HERON AND HUMAN HBV ENCAPSIDATION SIGNALS.. NUCLEIC ACIDS RES. V. 35 2800 2007 ASTM NARHAD UK ISSN 0305-1048 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 [?]: 8 Fragments used [?]: Yes Duplicated sequence [?]: Molecules in the database with the same sequence: PDB_01192 Number of domains [?]: 1 Number of unpaired bases [?]: 2 Number of paired bases [?]: 6

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 3 Maximum length of a stem [?]: 3 Average length of a stem [?]: 3 Minimum length of a stem [?]: 3 Maximum estimated free energy [?]: -2.5 Average estimated free energy [?]: -2.5 Minimum estimated free energy [?]: -2.5

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

Multi-loop features

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

Pseudoknot features