Published online April 30, 2004
2342±2352 Nucleic Acids Research, 2004, Vol. 32, No. 8
DOI:
Three-dimensional motifs from the SCOR, structural
classi®cation of RNA database: extruded strands,
base triples, tetraloops and U-turns
Peter S. Klosterman1, Donna K. Hendrix1, Makio Tamura2, Stephen R. Holbrook2 and
Steven E. Brenner1,2,*
1Department of Plant and Microbial Biology, University of California at Berkeley, 111 Koshland Hall, Berkeley, CA
94720-3102, USA and 2Physical Biosciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road,
Berkeley, CA 94720, USA
Received as resubmission February 21, 2004; Accepted March 22, 2004
ABSTRACT The solution of high-resolution structures of the 30S (8) and
50S (9) ribosomal subunits has provided a greatly expanded
Release of the Structural Classi®cation of RNA view of RNA structure. Analysis of these structures has
(SCOR) database, , contains a deepened understanding of well-known motifs such as the
classi®cation of the internal and hairpin loops in a T-loop U-turn and identi®ed previously uncharacterized
comprehensive collection of 497 NMR and X-ray motifs (10). Analysis focusing on base pairs has produced a
RNA structures. This report discusses ®ndings pendium of non-Watson±Crick base pairs
the classi®cation that have not been reported (11,12), with an associated standard for annotations of RNA
previously. The SCOR database contains multiple motifs (13). This analysis has recently been summarized in a
examples of a newly described RNA motif, the base-pair centered review of RNA motifs (14).
extruded helical single strand. Internal loop base The Structural Classi®cation of RNA (SCOR) database
triples are classi®ed in SCOR according to their (15,16) has been created to aid in the understanding of RNA
structures, using data deposited in the Protein Data Bank
three-dimensional context. These internal loop
(PDB) (17) and Nucleic Acid Database
classication of RNA database extruded strands, 来自淘豆网www.taodocs.com转载请标明出处.