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

General features for molecule PDB_00995 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00995 Molecule name [?]: THREE CONSECUTIVE SHEARED GA PAIRS IN 5'GGUGGAGGCU/3'PCCAAAGCCG Source [?]: RCSB Protein Data Bank Source ID [?]: 2DD1 Reference [?]: G.CHEN,S.D.KENNEDY,J.QIAO,T.R.KRUGH,D.H.TURNER. AN ALTERNATING SHEARED AA PAIR AND ELEMENTS OF STABILITY FOR A SINGLE SHEARED PURINE-PURINE PAIR FLANKED BY SHEARED GA PAIRS IN RNA. BIOCHEMISTRY V. 45 6889 2006 ASTM BICHAW US ISSN 0006-2960 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 [?]: 20 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 [?]: 18

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 9 Maximum length of a stem [?]: 9 Average length of a stem [?]: 9 Minimum length of a stem [?]: 9 Maximum estimated free energy [?]: -12.2 Average estimated free energy [?]: -12.2 Minimum estimated free energy [?]: -12.2

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 [?]: 3 Total number of AG non-canonical base pairs: 3

Pseudoknot features