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Acta Crystallogr D Biol Crystallogr. 2014 Jan;70(Pt 1):48-57. doi: 10.1107/S139900471302364X. Epub 2013 Dec 24.

Lysine carboxylation: unveiling a spontaneous post-translational modification.

Author information

1
Department of Bioengineering, University of Illinois at Chicago, 851 South Morgan Street, Room 218, Chicago, IL 60607, USA.
2
Children's National Medical Center, Center for Genetic Medicine Research, 111 Michigan Avenue NW, Washington, DC 20010-2970, USA.

Abstract

The carboxylation of lysine residues is a post-translational modification (PTM) that plays a critical role in the catalytic mechanisms of several important enzymes. It occurs spontaneously under certain physicochemical conditions, but is difficult to detect experimentally. Its full impact is unknown. In this work, the signature microenvironment of lysine-carboxylation sites has been characterized. In addition, a computational method called Predictor of Lysine Carboxylation (PreLysCar) for the detection of lysine carboxylation in proteins with available three-dimensional structures has been developed. The likely prevalence of lysine carboxylation in the proteome was assessed through large-scale computations. The results suggest that about 1.3% of large proteins may contain a carboxylated lysine residue. This unexpected prevalence of lysine carboxylation implies an enrichment of reactions in which it may play functional roles. The results also suggest that by switching enzymes on and off under appropriate physicochemical conditions spontaneous PTMs may serve as an important and widely used efficient biological machinery for regulation.

KEYWORDS:

PreLysCar; Predictor of Lysine Carboxylation; lysine carboxylation; metal-ion centers; spontaneous post-translational modifications; structural motif

PMID:
24419378
PMCID:
PMC3919261
DOI:
10.1107/S139900471302364X
[Indexed for MEDLINE]
Free PMC Article

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