Tertiary Structure Database

Non-canonical Base-pair Database — by admin — last modified 2010-04-23 18:32

The primary objective of this database is to provide rapid access to all the RNA structures in which a particular rare base pair has been found. A secondary objective is to summarize the important properties associated with each non-canonical base pair. A literature survey of RNA structures was performed to obtain information on the non-canonical base pairs.

RNABase — by admin — last modified 2010-04-23 18:32

RNABase consolidates all RNA containing structures from both the NDB and RCSB (formerly PDB). Every entry is automatically checked for conformational errors. We intend to incorporate a number of automatic conformational analyses. Intially, the only analysis provided will be a classification of all conformations observed at the nucleotide level as conformational codes (insert link to description of conformational codes).

SCOR: Structural Classification of RNA — by admin — last modified 2010-04-23 18:32

The Structural Classification of RNA (SCOR) is a database designed to provide a comprehensive perspective and understanding of RNA motif structure, function, tertiary interactions and their relationships. SCOR 2.0.3 provides a survey of the three-dimensional motifs contained in 579 NMR and X-ray RNA structures available as of May 15, 2004. This includes 8,270 secondary structural elements, of which 2,920 are hairpin loops and 5,350 are internal loops. The structural elements are organized in a directed acyclic graph (DAG) architecture, allowing multiple parent classes for a motif. Users can browse the database or search by PDB or NDB identifier, keyword or sequence. Descriptions and cartoon representations of each of the classes are available. RNA motifs reported in the literature (e.g. Kink turns, S-turns, GNRA loops) are incorporated into the classification.