Deciphering a novel thioredoxin-like fold family

Lisa N. Kinch, David Baker, Nick V. Grishin

Research output: Contribution to journalArticle

11 Citations (Scopus)

Abstract

Sequence- and structure-based searching strategies have proven useful in the identification of remote homologs and have facilitated both structural and functional predictions of many uncharacterized protein families. We implement these strategies to predict the structure of and to classify a previously uncharacterized cluster of orthologs (COG3019) in the thioredoxin-like fold superfamily. The results of each searching method indicate that thioltransferases are the closest structural family to COG3019. We substantiate this conclusion using the ab initio structure prediction method rosetta, which generates a thioredoxin-like fold similar to that of the glutaredoxin-like thioltransferase (NrdH) for a COG3019 target sequence. This structural model contains the thiol-redox functional motif CYS-X-X-CYS in close proximity to other absolutely conserved COG3019 residues, defining a novel thioredoxin-like active site that potentially binds metal ions. Finally, the rosetta-derived model structure assists us in assembling a global multiple-sequence alignment of COG3019 with two other thioredoxin-like fold families, the thioltransferases and the bacterial arsenate reductases (ArsC).

Original languageEnglish (US)
Pages (from-to)323-331
Number of pages9
JournalProteins: Structure, Function and Genetics
Volume52
Issue number3
DOIs
StatePublished - Aug 15 2003

Fingerprint

Glutaredoxins
Thioredoxins
Arsenate Reductases
Sequence Alignment
Structural Models
Model structures
Sulfhydryl Compounds
Oxidation-Reduction
Metal ions
Catalytic Domain
Metals
Ions
Proteins

Keywords

  • Fold recognition
  • Homology detection
  • Protein classification
  • PSI-BLAST
  • Rosetta
  • Structure prediction
  • Thiol redox
  • Thioltransferase
  • Threading

ASJC Scopus subject areas

  • Genetics
  • Structural Biology
  • Biochemistry

Cite this

Deciphering a novel thioredoxin-like fold family. / Kinch, Lisa N.; Baker, David; Grishin, Nick V.

In: Proteins: Structure, Function and Genetics, Vol. 52, No. 3, 15.08.2003, p. 323-331.

Research output: Contribution to journalArticle

Kinch, Lisa N. ; Baker, David ; Grishin, Nick V. / Deciphering a novel thioredoxin-like fold family. In: Proteins: Structure, Function and Genetics. 2003 ; Vol. 52, No. 3. pp. 323-331.
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