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

General features for molecule PDB_01176 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01176 Molecule name [?]: THE STRUCTURE OF TANDEM GA RNA PAIRS WHEN FLANKING PAIRS ARE ISOG-ISOC PAIRS Source [?]: RCSB Protein Data Bank Source ID [?]: 2O81 Reference [?]: G.CHEN,R.KIERZEK,I.YILDIRIM,T.R.KRUGH,D.H.TURNER, S.D.KENNEDY. STACKING EFFECTS ON LOCAL STRUCTURE IN RNA: CHANGES IN THE STRUCTURE OF TANDEM GA PAIRS WHEN FLANKING GC PAIRS ARE REPLACED BY ISOG-ISOC PAIRS. J.PHYS.CHEM.B V. 111 6718 2007 ASTM JPCBFK US ISSN 1089-5647 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 [?]: 2 Length [?]: 18 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 2 Number of paired bases [?]: 16

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 8 Maximum length of a stem [?]: 8 Average length of a stem [?]: 8 Minimum length of a stem [?]: 8 Maximum estimated free energy [?]: -11 Average estimated free energy [?]: -11 Minimum estimated free energy [?]: -11

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 1 Average number of free bases in hairpin loops [?]: 1 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 [?]: 2 Total number of AG non-canonical base pairs: 2

Pseudoknot features