Journal
NUCLEIC ACIDS RESEARCH
Volume 34, Issue -, Pages D131-D134Publisher
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkj058
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Funding
- NATIONAL HUMAN GENOME RESEARCH INSTITUTE [R01HG002665, K22HG000056] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R01GM066199] Funding Source: NIH RePORTER
- NHGRI NIH HHS [R01 HG002665, 1R01HG002665, K22 HG000056, K22 HG00056] Funding Source: Medline
- NIGMS NIH HHS [R01 GM066199, 1R01GM66199] Funding Source: Medline
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Metal ions are essential for the folding of RNA into stable tertiary structures and for the catalytic activity of some RNA enzymes. To aid in the study of the roles of metal ions in RNA structural biology, we have created MeRNA (Metals in RNA), a comprehensive compilation of all metal binding sites identified in RNA 3D structures available from the PDB and Nucleic Acid Database. Currently, our database contains information relating to binding of 9764 metal ions corresponding to 23 distinct elements, in 256 RNA structures. The metal ion locations were confirmed and ligands characterized using original literature references. MeRNA includes eight manually identified metal-ion binding motifs, which are described in the literature. MeRNA is searchable by PDB identifier, metal ion, method of structure determination, resolution and R-values for X-ray structure and distance from metal to any RNA atom or to water. New structures with their respective binding motifs will be added to the database as they become available. The MeRNA database will further our understanding of the roles of metal ions in RNA folding and catalysis and have applications in structural and functional analysis, RNA design and engineering. The MeRNA database is accessible at http://merna.lbl. gov.
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