Structural basis for substrate discrimination by E. coli repair enzyme, AlkB.

ABSTRACT: E. coli AlkB, a repair enzyme of the dioxygenase family, catalyses the removal of mutagenic methylated nucleotides from the genome. Known for substrate promiscuity, AlkB's catalytic mechanism and conformational changes accompanying substrate binding have been extensively dissected. However, the structural parameters of various substrates governing their recognition by AlkB still remain elusive. In this work, through solution-state vibrational spectra of methylated substrates bound to AlkB in combination with computational analysis, we show that the recognition specificity is dictated by the protonation states of the substrates. Specificity is conferred predominantly through hydrogen bonding and cation-π interactions. Furthermore, we report on the interaction of AlkB with normal, unm

SUBMITTER: Jayanth N 

PROVIDER: S-EPMC9076979 | biostudies-literature | 2018 Jan

REPOSITORIES: biostudies-literature