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

General features for molecule PDB_01239 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_01239 Molecule name [?]: SOLUTION STRUCTURE OF THE U85 C/D-H/ACA SCARNA 5' TERMINAL HAIRPIN LOOP Source [?]: RCSB Protein Data Bank Source ID [?]: 2QH4 Reference [?]: C.A.THEIMER,B.E.JADY,N.CHIM,P.RICHARD,K.E.BREECE, T.KISS,J.FEIGON. STRUCTURAL AND FUNCTIONAL CHARACTERIZATION OF HUMAN TELOMERASE RNA PROCESSING AND CAJAL BODY LOCALIZATION SIGNALS.. MOL.CELL V. 27 869 2007 ASTM MOCEFL US ISSN 1097-2765 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 [?]: 18 Fragments used [?]: Yes Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 1 Number of unpaired bases [?]: 4 Number of paired bases [?]: 14

Click on any header below for additional features.

Stem features Number of stems [?]: 1 Number of base pairs in stems [?]: 7 Maximum length of a stem [?]: 7 Average length of a stem [?]: 7 Minimum length of a stem [?]: 7 Maximum estimated free energy [?]: -13.1 Average estimated free energy [?]: -13.1 Minimum estimated free energy [?]: -13.1

Hairpin loop features Number of hairpin loops [?]: 1 Maximum number of free bases in hairpin loops [?]: 4 Average number of free bases in hairpin loops [?]: 4 Minimum number of free bases in hairpin loop [?]: 4

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 AG non-canonical base pairs: 1

Pseudoknot features