TraR auto-inducer enhances protein backbone fluctuations in DNA binding domain

J. Vreede; K.J. Hellingwerf; W. Crielaard

doi:10.1016/j.febslet.2008.01.062

TraR auto-inducer enhances protein backbone fluctuations in DNA binding domain

J. Vreede
, K.J. Hellingwerf
, W. Crielaard

Research output: Contribution to Journal › Article › Academic › peer-review

Abstract

The bacterium Agrobacterium tumefaciens mediates quorum sensing via TraR, a N-3-oxo-octanoyl-l-homoserine lactone (OOHL) signaling transcription factor. TraR consists of an N-terminal Per-Arnt-Sim domain (PAS-domain) containing OOHL and a C-terminal helix-turn-helix motif (HTF-motif) binding DNA, thus comprising a complete signaling pathway. Using Molecular Dynamics, we investigate the influence of OOHL on the dynamics of the protein. The OOHL binding pocket is in contact with water, leading to dynamic changes in OOHL-protein interactions. These rearrangements increase fluctuations in the PAS-domain, and, interestingly, also enhance fluctuations in the HTF-motif. Our results imply OOHL in inducing fluctuations in TraR that may facilitate DNA binding.

Original language	English
Pages (from-to)	805-809
Journal	FEBS Letters
Volume	582
Issue number	5
DOIs	https://doi.org/10.1016/j.febslet.2008.01.062
Publication status	Published - 2008

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@article{0817edb829594363bcb2d710bd3f3c7b,

title = "TraR auto-inducer enhances protein backbone fluctuations in DNA binding domain",

abstract = "The bacterium Agrobacterium tumefaciens mediates quorum sensing via TraR, a N-3-oxo-octanoyl-l-homoserine lactone (OOHL) signaling transcription factor. TraR consists of an N-terminal Per-Arnt-Sim domain (PAS-domain) containing OOHL and a C-terminal helix-turn-helix motif (HTF-motif) binding DNA, thus comprising a complete signaling pathway. Using Molecular Dynamics, we investigate the influence of OOHL on the dynamics of the protein. The OOHL binding pocket is in contact with water, leading to dynamic changes in OOHL-protein interactions. These rearrangements increase fluctuations in the PAS-domain, and, interestingly, also enhance fluctuations in the HTF-motif. Our results imply OOHL in inducing fluctuations in TraR that may facilitate DNA binding. ",

author = "J. Vreede and K.J. Hellingwerf and W. Crielaard",

year = "2008",

doi = "10.1016/j.febslet.2008.01.062",

language = "English",

volume = "582",

pages = "805--809",

journal = "FEBS Letters",

issn = "0014-5793",

publisher = "John Wiley and Sons Inc.",

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}

TY - JOUR

T1 - TraR auto-inducer enhances protein backbone fluctuations in DNA binding domain

AU - Vreede, J.

AU - Hellingwerf, K.J.

AU - Crielaard, W.

PY - 2008

Y1 - 2008

N2 - The bacterium Agrobacterium tumefaciens mediates quorum sensing via TraR, a N-3-oxo-octanoyl-l-homoserine lactone (OOHL) signaling transcription factor. TraR consists of an N-terminal Per-Arnt-Sim domain (PAS-domain) containing OOHL and a C-terminal helix-turn-helix motif (HTF-motif) binding DNA, thus comprising a complete signaling pathway. Using Molecular Dynamics, we investigate the influence of OOHL on the dynamics of the protein. The OOHL binding pocket is in contact with water, leading to dynamic changes in OOHL-protein interactions. These rearrangements increase fluctuations in the PAS-domain, and, interestingly, also enhance fluctuations in the HTF-motif. Our results imply OOHL in inducing fluctuations in TraR that may facilitate DNA binding.

AB - The bacterium Agrobacterium tumefaciens mediates quorum sensing via TraR, a N-3-oxo-octanoyl-l-homoserine lactone (OOHL) signaling transcription factor. TraR consists of an N-terminal Per-Arnt-Sim domain (PAS-domain) containing OOHL and a C-terminal helix-turn-helix motif (HTF-motif) binding DNA, thus comprising a complete signaling pathway. Using Molecular Dynamics, we investigate the influence of OOHL on the dynamics of the protein. The OOHL binding pocket is in contact with water, leading to dynamic changes in OOHL-protein interactions. These rearrangements increase fluctuations in the PAS-domain, and, interestingly, also enhance fluctuations in the HTF-motif. Our results imply OOHL in inducing fluctuations in TraR that may facilitate DNA binding.

U2 - 10.1016/j.febslet.2008.01.062

DO - 10.1016/j.febslet.2008.01.062

M3 - Article

SN - 0014-5793

VL - 582

SP - 805

EP - 809

JO - FEBS Letters

JF - FEBS Letters

IS - 5

ER -

TraR auto-inducer enhances protein backbone fluctuations in DNA binding domain

Abstract

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