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

General features for molecule PDB_00945 (click to expand/contract all tables) Format: CT RNAML Bpseq Dot-parentheses FASTA Molecule ID [?]: PDB_00945 Molecule name [?]: COMPLETE RNA POLYMERASE II-RNA INHIBITOR COMPLEX Source [?]: RCSB Protein Data Bank Source ID [?]: 2B63 Reference [?]: H.KETTENBERGER,A.EISENFUEHR,F.BRUECKNER,M.THEIS, M.FAMULOK,P.CRAMER. STRUCTURE OF AN RNA POLYMERASE II-RNA INHIBITOR COMPLEX ELUCIDATES TRANSCRIPTION REGULATION BY NONCODING RNAS. NAT.STRUCT.MOL.BIOL. V. 13 44 2006 US ISSN 1545-9993 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 3.80 ANGSTROMS; ran through RNAview Number of molecules [?]: 1 Length [?]: 31 Fragments used [?]: No Duplicated sequence [?]: No other molecule in the database has the same sequence Number of domains [?]: 2 Number of unpaired bases [?]: 11 Number of paired bases [?]: 20

Click on any header below for additional features.

Stem features Number of stems [?]: 2 Number of base pairs in stems [?]: 10 Maximum length of a stem [?]: 6 Average length of a stem [?]: 5 Minimum length of a stem [?]: 4 Maximum estimated free energy [?]: -5.5 Average estimated free energy [?]: -7.05 Minimum estimated free energy [?]: -8.6

Hairpin loop features Number of hairpin loops [?]: 2 Maximum number of free bases in hairpin loops [?]: 5 Average number of free bases in hairpin loops [?]: 4.5 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