Release of Halide Ions from the Buried Active Site of the
Haloalkane Dehalogenase LinB Revealed by Stopped-Flow
Fluorescence Analysis and Free Energy Calculations.

J 2013

Release of Halide Ions from the Buried Active Site of the Haloalkane Dehalogenase LinB Revealed by Stopped-Flow Fluorescence Analysis and Free Energy Calculations.

HLADILKOVA, J., Zbyněk PROKOP, Radka CHALOUPKOVÁ, Jiří DAMBORSKÝ, P. JUNGWIRTH et. al.

Základní údaje

Originální název

Release of Halide Ions from the Buried Active Site of the Haloalkane Dehalogenase LinB Revealed by Stopped-Flow Fluorescence Analysis and Free Energy Calculations.

Autoři

HLADILKOVA, J. (203 Česká republika), Zbyněk PROKOP (203 Česká republika, domácí), Radka CHALOUPKOVÁ (203 Česká republika, domácí), Jiří DAMBORSKÝ (203 Česká republika, garant, domácí) a P. JUNGWIRTH (203 Česká republika)

Vydání

Journal of Physical Chemistry B, 2013, 1520-6106

Další údaje

Jazyk

angličtina

Typ výsledku

Článek v odborném periodiku

Obor

10403 Physical chemistry

Stát vydavatele

Spojené státy

Utajení

není předmětem státního či obchodního tajemství

Impakt faktor

Impact factor: 3.377

Kód RIV

RIV/00216224:14310/13:00067017

Organizační jednotka

Přírodovědecká fakulta

DOI

http://dx.doi.org/10.1021/jp409040u

UT WoS

000327557700015

Klíčová slova anglicky

Haloalkane Dehalogenase LinB

Štítky

AKR, rivok

Změněno: 9. 4. 2014 11:42, prof. Mgr. Jiří Damborský, Dr.

Anotace

V originále

Release of halide ions is an essential step of the catalytic cycle of haloalkane dehalogenases. Here we describe experimentally and computationally the process of release of a halide anion from the buried active site of the haloalkane dehalogenase LinB. Using stopped-flow fluorescence analysis and umbrella sampling free energy calculations we showed that the anion binding is ion-specific and follows the ordering I- > Br- > Cl-. We have also addressed the issue of the protonation state of the catalytic His272 residue and its effect on the process of halide release. While deprotonation of His272 increases binding of anions in the access tunnel, we showed that the anionic ordering does not change with the switch of the protonation state. We also demonstrated that a sodium cation could relatively easily enter the active site, provided the His272 residue is singly protonated, and replace thus the missing proton. In contrast, Na+ is strongly repelled from the active site containing the doubly protonated His272 residue. Our study contributes towards understanding of the reaction mechanism of haloalkane dehalogenase enzyme family. Determination of the protonation state of the catalytic histidine throughout the catalytic cycle remains a challenge for future studies.

Návaznosti

GAP207/12/0775, projekt VaV

Název: Strukturně-funkční vztahy haloalkan dehalogenas

Investor: Grantová agentura ČR, Structure-functional Relationships of Haloalkane Dehalogenases

Citovat

HLADILKOVA, J., Zbyněk PROKOP, Radka CHALOUPKOVÁ, Jiří DAMBORSKÝ a P. JUNGWIRTH. Release of Halide Ions from the Buried Active Site of the Haloalkane Dehalogenase LinB Revealed by Stopped-Flow Fluorescence Analysis and Free Energy Calculations. Journal of Physical Chemistry B. 2013, roč. 117, č. 46, s. 14329–14335. ISSN 1520-6106. Dostupné z: https://dx.doi.org/10.1021/jp409040u.

@article{1170226,
   author = {Hladilkova, J. and Prokop, Zbyněk and Chaloupková, Radka and Damborský, Jiří and Jungwirth, P.},
   article_number = {46},
   doi = {http://dx.doi.org/10.1021/jp409040u},
   keywords = {Haloalkane Dehalogenase LinB},
   language = {eng},
   issn = {1520-6106},
   journal = {Journal of Physical Chemistry B},
   title = {Release of Halide Ions from the Buried Active Site of the Haloalkane Dehalogenase LinB Revealed by Stopped-Flow Fluorescence Analysis and Free Energy Calculations.},
   volume = {117},
   year = {2013}
}

TY  - JOUR
ID  - 1170226
AU  - Hladilkova, J. - Prokop, Zbyněk - Chaloupková, Radka - Damborský, Jiří - Jungwirth, P.
PY  - 2013
TI  - Release of Halide Ions from the Buried Active Site of the Haloalkane Dehalogenase LinB Revealed by Stopped-Flow Fluorescence Analysis and Free Energy Calculations.
JF  - Journal of Physical Chemistry B
VL  - 117
IS  - 46
SP  - 14329–14335
EP  - 14329–14335
SN  - 15206106
KW  - Haloalkane Dehalogenase LinB
N2  - Release of halide ions is an essential step of the catalytic cycle of haloalkane dehalogenases. Here we describe experimentally and computationally the process of release of a halide anion from the buried active site of the haloalkane dehalogenase LinB. Using stopped-flow fluorescence analysis and umbrella sampling free energy calculations we showed that the anion binding is ion-specific and follows the ordering I- > Br- > Cl-. We have also addressed the issue of the protonation state of the catalytic His272 residue and its effect on the process of halide release. While deprotonation of His272 increases binding of anions in the access tunnel, we showed that the anionic ordering does not change with the switch of the protonation state. We also demonstrated that a sodium cation could relatively easily enter the active site, provided the His272 residue is singly protonated, and replace thus the missing proton. In contrast, Na+ is strongly repelled from the active site containing the doubly protonated His272 residue. Our study contributes towards understanding of the reaction mechanism of haloalkane dehalogenase enzyme family. Determination of the protonation state of the catalytic histidine throughout the catalytic cycle remains a challenge for future studies.
ER  -

HLADILKOVA, J., Zbyněk PROKOP, Radka CHALOUPKOVÁ, Jiří DAMBORSKÝ a P. JUNGWIRTH. Release of Halide Ions from the Buried Active Site of the Haloalkane Dehalogenase LinB Revealed by Stopped-Flow Fluorescence Analysis and Free Energy Calculations. \textit{Journal of Physical Chemistry B}. 2013, roč.~117, č.~46, s.~14329–14335. ISSN~1520-6106. Dostupné z: https://dx.doi.org/10.1021/jp409040u.

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