The challenge of annotating protein sequences: The tale of eight domains of unknown function in Pfam
The Pfam database is an important tool in genome annotation, since it provides a collection of curated protein families. However, a subset of these families, known as domains of unknown function (DUFs), remains poorly characterized. We have related sequences from DUF404, DUF407, DUF482, DUF608, DUF8...
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| Veröffentlicht in: | Computational biology and chemistry 2010-06, Vol.34 (3), p.210-214 |
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| container_title | Computational biology and chemistry |
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| creator | Goonesekere, Nalin C.W. Shipely, Krysten O’Connor, Kevin |
| description | The Pfam database is an important tool in genome annotation, since it provides a collection of curated protein families. However, a subset of these families, known as domains of unknown function (DUFs), remains poorly characterized. We have related sequences from DUF404, DUF407, DUF482, DUF608, DUF810, DUF853, DUF976 and DUF1111 to homologs in PDB, within the midnight zone (9–20%) of sequence identity. These relationships were extended to provide functional annotation by sequence analysis and model building. Also described are examples of residue plasticity within enzyme active sites, and change of function within homologous sequences of a DUF. |
| doi_str_mv | 10.1016/j.compbiolchem.2010.04.001 |
| format | Article |
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| ispartof | Computational biology and chemistry, 2010-06, Vol.34 (3), p.210-214 |
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| source | MEDLINE; Elsevier ScienceDirect Journals Complete |
| subjects | Annotations Biology Catalytic Domain Databases, Protein Domains of unknown function Function prediction Genomes Mathematical analysis Mathematical models Molecular Sequence Annotation - methods Pfam Proteins Sequence Analysis, Protein Sequence homology Sequence Homology, Amino Acid |
| title | The challenge of annotating protein sequences: The tale of eight domains of unknown function in Pfam |
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