PFAMPDB {PFAM.db} | R Documentation

## Mappings from a PFAM Accession number to a PDB ID

### Description

This is an R object that always contains mappings from a PFAM accession (AC) to a PDB ID

### Details

The PDB ID along with the start point and end point have been attached to the PFAM accessions in this object.

More Details: PDB (http://www.rcsb.org/pdb/index.html), the single worldwide repository for the processing and distribution of 3-D biological macromolecular structure data. Reference: H.M. Berman, J. Westbrook, Z. Feng, G. Gilliland, T.N. Bhat, H. Weissig, I.N. Shindyalov, P.E. Bourne: The Protein Data Bank. Nucleic Acids Research , 28 pp. 235-242 (2000)

### References

http://www.sanger.ac.uk/Software/Pfam/ and ftp://ftp.sanger.ac.uk/pub/databases/Pfam/current_release/userman.txt

### Examples

            #To map from PFAM to PDB:
            x <- PFAMPDB
            # Get the PFAM identifiers that are mapped to a PDB
            mapped_keys <- mappedkeys(x)
            # Convert to a list
            xx <- as.list(x[mapped_keys])
            if(length(xx) > 0) {
              # Get the PDB info for the first five PFAM IDs
              xx[1:5]
              # Get the first one
              xx[[1]]
            }

[Package PFAM.db version 2.2.0 Index]