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R E S E A R C H L E T T E R
AnovelNADPH-dependentoxidoreductasewithaunique domainstructure in the hyperthermophilicArchaeon,ThermococcuslitoralisAndras Toth1, Maria Takacs2, Geza Groma1, Gabor Rakhely1,2 & Kornel L. Kovacs1,2
1Institute of Biophysics, Biological Research Center, Hungarian Academy of Sciences, Szeged, Hungary; and 2Department of Biotechnology, University of
Szeged, Szeged, Hungary
Correspondence: Kornel L. Kovacs,
Department of Biotechnology, University of
Szeged, H-6726, Kozep fasor 52, Szeged,
Hungary. Tel.: 136 62 544 351; fax: 136 62
544 352; e-mail: [email protected]
Received 29 August 2007; accepted 3 January
2008.
First published online 18 March 2008.
DOI:10.1111/j.1574-6968.2008.01085.x
Editor: Christiane Dahl
Keywords
hyperthermophilic Archaea; Thermococcus
litoralis ; sulfur oxidoreductase.
Abstract
Thermococcus litoralis, a hyperthermophilic Archaeon, is able to reduce elemental
sulfur during fermentative growth. An unusual gene cluster (nsoABCD) was
identified in this organism. In silico analysis suggested that three of the genes
(nsoABC) probably originated from Eubacteria and one gene (nsoD) from Archaea.
The putative NsoA and NsoB are similar to NuoE- and NuoF-type electron
transfer proteins, respectively. NsoC has a unique domain structure and contains a
GltD domain, characteristic of glutamate synthase small subunits, which seems to
be integrated into a NuoG-type sequence. Flavin and NAD(P)H binding sites and
conserved cysteines forming iron–sulfur clusters binding motifs were identified in
the protein sequences deduced. The purified recombinant NsoC contains one FAD
cofactor per protein molecule and catalyzes the reduction of polysulfide with
NADPH as an electron donor and it also reduces oxygen. It was concluded that the
Nso complex is a new type of NADPH-oxidizing enzyme using sulfur and/or
oxygen as an electron acceptor.
Introduction
Thermococcus litoralis, growing optimally at 85 1C, is a
member of the archaeal Thermococcales order (Neuner
et al., 1990). These are heterotrophic hyperthermophiles
utilizing carbohydrates and peptides and produce acetate,
CO2 and H2 or, in the presence of sulfur, H2S, as major end
products (Fiala & Stetter, 1986; Neuner et al., 1990). During
fermentative metabolism, extensively studied in Pyrococcus
furiosus and also in T. litoralis, reduced ferredoxin and
NADPH are generated (Adams & Kletzin, 1996). To main-
tain the catabolic pathways, oxidized ferredoxin and
NADP1 pools must be replenished. A possible way of
disposing of excess reductants is the transfer of electrons to
the terminal electron acceptor S0 catalyzed by sulfur reduc-
tase enzymes.
At present, the sulfur metabolism of P. furiosus is the best
known among Thermococcales species. It has four character-
ized enzymes that possess sulfur reductase activity in vitro:
two heterotetrameric [NiFe] hydrogenases (Hyh1, Hyh2),
which are also named sulfhydrogenases (Ma et al., 1993,
2000), the heterodimeric sulfide dehydrogenase (Sud) (Ma
& Adams, 1994) and the monomeric coenzyme A-depen-
dent NAD(P)H sulfur oxidoreductase (NSR) (Schut et al.,
2007). While the involvement of NSR in S0 reduction in vivo
has been suggested (Schut et al., 2007), neither the hydro-
genases nor Sud might play a role in S0 reduction within the
cells (Schut et al., 2001).
In T. litoralis, the molecular and biochemical background
of sulfur metabolism is poorly understood. Thus far, only a
soluble [NiFe] hydrogenase (Hyh1) has been characterized
in this archaeon, which has sulfur reductase activity
(Rakhely et al., 1999). In this paper, we report on the
molecular and biochemical characterization of a new, un-
ique sulfur reductase in T. litoralis.
Materials and methods
Strains and growth conditions
Thermococcus litoralis DSM5473 were grown under anaero-
bic conditions at 85 1C in a complex medium, as described
previously (Diruggiero et al., 2000), in the presence (0.1%,
w/v) or in the absence of sulfur.
FEMS Microbiol Lett 282 (2008) 8–14c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
Escherichia coli XL1-BlueMRF’ and BL21(DE3)Codon-
Plus-RIL (Stratagene) strains were cultivated in Luria–
Bertani medium (LB) at 37 1C (Ausubel et al., 1996).
Antibiotics were used at the following concentrations:
ampicillin (100mg mL�1) and streptomycin (25 mg mL�1).
DNA techniques
DNA manipulation steps were carried out using general
procedures (Ausubel et al., 1996) or the manufacturers’
instructions. Site-specific mutagenesis was performed by
the QuikChange II XL Site-Directed Mutagenesis Kit
(Stratagene).
Isolation, cloning and sequencing of the nsooperon
The genomic region of T. litoralis upstream from the hyh2
operon (for accession number see: Fig. 1) was cloned and
sequenced by chromosomal walking (Fig. 1a). Partial geno-
mic libraries created from XbaI and SphI digested genomic
DNA in pBluescript SK1 were screened for overlapping
clones, using digoxigenin-labelled PCR probes obtained
with LSHO10/LSHO11 (LSHO10: 50-AAGGACGTTCCTG
TCCATGAAG-30; LSHO11: 50-AGTCGGCATGAACTCTT
GTGGA-30) and LSHO14/LSHO18 (LSHO14: 50-TCCTCT
GCTTCCTCAACTTC-30; LSHO18: 50-AATAGAGGCGAT
GCCAGAAC-30) primer pairs. These 3926-bp (pLU9) and
5103-bp (pLS91) genomic fragments were subcloned and
sequenced on both strands by primer walking.
RNA isolation, reverse transcriptase (RT)-PCR andprimer extension
Total RNA extracted from T. litoralis using TriReagent
(Sigma) was treated with RNAse-free DNAse I (Fermentas).
In RT-PCR experiments, MMLV RT (Promega) was used
to synthesize cDNA from 1mg of total RNA using the primer
LSHO37 (50-TAATCCTCTGCACTCCTCTC-30) matching
to the 30 end of the nsoD transcript. Then, the PCR was
performed with the following primers (amplifying part of
the nsoA gene): LSHO1 (50-CGCAGCAATTCCACAAGA
GT-30) and LSHO2 (50-AGAATGGTGGGTGGTAATCA-30).
The transcriptional start point of the nso operon was
determined by primer-extension experiments with the
LSHO51 (50-AGGCAGTTTTAGGTATTTTGAAATCTCC
TC-30) end-labelled primer (Ausubel et al., 1996).
Expression and purification of rNsoC
For construction of the vector expressing the NsoC protein
fused to the tandem FLAG-tag-Strep-tag II at the C terminus
(designated as rNsoC), nsoC was amplified from genomic
DNA in two parts with the LSHO38/LSHO39 and LSHO40/
LSHO41 primer pairs (LSHO38: 50-CATATGGTCAAGCT
CATCGTGAAT-30; LSHO39: 50-GTAATAGGCGCATG
CAAGT-30; LSHO40: 50-GACTTGCATGCGCCTATTAC-30;
LSHO41: 50-GAGGGAGAATATCTCCTTCAC-30). The PCR
fragments were inserted into the SmaI and EcoRV sites of
pBluescript SK(1), resulting in pUP31 and pUP32 plas-
mids, respectively. pUP3 was constructed by insertion of the
SphI–BamHI fragment of pUP31 into the corresponding
sites of pUP32. The nsoC gene was excised from pUP3 with
NdeI–SalI and ligated into the same sites of the pMHE6
expression vector (Fodor et al., 2004) (pUP3CFS).
For purification of rNsoC, a BL21(DE3)CodonPlus-RIL/
pUP3CFS culture (100 mL) induced with 0.5 mM isopropyl-
b-D-thiogalactopyranoside at 22 1C was harvested and re-
suspended in 9 mL of TBS buffer [50 mM Tris-HCl (pH 8.0),
150 mM NaCl, 2 mM dithiothreitol], and then sonicated.
Cell debris was removed by centrifugation (15 000 g, 10 min,
4 1C). The cell extract was loaded onto a gravity flow column
Fig. 1. (a) Organization of the genomic locus containing the nso operon in Thermococcus litoralis located upstream of the hyh2BDGA operon (both
gene clusters are deposited in the GenBank with the accession no.: EU024408). The main clones are shown by doublehead arrows. (b) Sequence of the
promoter region of the nso operon. The transcriptional start site is designated by a bold letter and an arrow. The TATA and transcription factor BRE
sequences, together with the putative ribosomal-binding site (RBS) of nsoA, are underlined. The translation start codon of nsoA is given in italics and the
first two amino acids of NsoA are also indicated.
FEMS Microbiol Lett 282 (2008) 8–14 c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
9NADPH-dependent sulfur oxidoreductase from T. litoralis
containing 500 mL of Strep-Tactin Sepharose affinity resin
(IBA). The column was washed 10 times with 1.5 mL of TBS
buffer. The rNsoC was eluted three times with 300 mL TBS
supplemented with 2.5 mM desthiobiotin.
Enzyme assays
Sulfur reductase activity was routinely measured by the
polysulfide-dependent oxidation of NADPH. The assays
were performed at 65 1C in mixtures (2 mL) containing
100 mM HEPES buffer (pH 8.9), 0.3 mM NADPH, 0.2 mM
polysulfide and various amounts of samples. Activities were
calculated from the initial change in A340 nm, and were
corrected for nonenzymatic NADPH conversion. One unit
of sulfur reductase activity catalyzed the oxidation of
1mmol NADPH min�1. Polysulfide solution was prepared
by the reaction of 40 g of elemental sulfur with 20 g of
Na2S � 9H2O in 100 mL of water (Lengyel, 1999).
NADPH-dependent reduction of other substrates, such as
oxygen, benzyl viologen, methyl viologen and 5,50-dithio-
bis-(2-nitrobenzoic acid) (DTNB), was measured in mix-
tures containing 50 mM Tris-HCl (pH 8.0) and 0.3 mM
NADPH monitoring the absorbance changes at 340, 600
and 412 nm.
Glutamate dehydrogenase activity was determined at
65 1C by the glutamate-driven reduction of NADP1 mea-
sured at 340 nm (Ma et al., 1994).
Protein analysis
The native molecular mass (Mr) of rNsoC was determined
by gel filtration chromatography on a Bio-Silect SEC 250-5
size exclusion column (Bio-Rad) using thyroglobulin (Mr
670 000), bovine gamma globulin (Mr 158 000), ovalbumin
(Mr 44 000), myoglobin (Mr 17 000) and Vitamin B-12 (Mr
1350) as molecular mass standards.
For identification of the flavin cofactor in rNsoC by thin-
layer chromatography (TLC), it was extracted from the
protein as described in Stanton & Jensen (1993). The yellow
solution was run on a thin-layer silica gel plate
(5 cm� 10 cm, 200 mm) using an n-butanol–acetic acid–
water (12 : 3 : 5) solvent system. Pure flavin compounds:
FMN, FAD, and riboflavin were used as standards. After
drying the silica plates, the compounds were visualized by
UV shadowing (365 nm).
Results and discussion
Isolation of the nso operon
The operon encoding the soluble hydrogenase II (hyh2BG-
DA) in T. litoralis has been identified (A. Toth, M. Takacs, G.
Groma1, G. Rakhely & K.L. Kovacs, unpublished results).
Upstream of hyh2B, on a 7.9-kb genomic region (for
isolation see ‘Materials and methods’) five ORFs were
identified (Fig. 1a). Four of them formed a putative gene
cluster, which were designated as nso (NADPH-dependent
sulfur oxidoreductase). An additional ORF (orf1) with an
unknown function was identified downstream from the
nsoD gene, in the opposite direction.
Transcriptional analysis of the nso operon
The genomic organization of the nso genes suggested that
they form one transcription unit, which was confirmed by
RT-PCR experiments. cDNA was synthesized using a reverse
primer matching to the 30 end of the nsoD gene transcript,
and PCR was performed on this cDNA as a template with
primers designed for the nsoA gene. The expected PCR
product showed that full-length cDNA could be synthesized
containing even the nsoA gene; consequently, all the four nso
genes were located on a single transcript (data not shown).
Nevertheless, alternative promoters within the operon could
not be excluded.
The transcriptional start site of the nso genes was deter-
mined by primer-extension experiments (Fig. 1b). The initia-
tion point was preceded by typical archaeal promoter ele-
ments, like TATA box and transcription factor B recognition
element (BRE) located in appropriate positions (Soppa, 1999).
In silico analysis of Nso proteins
The deduced NsoA, NsoB and NsoC subunits showed the
highest resemblance to the products of putative genes of
Thermococcus kodakaraensis designated as TK1614, TK1613
and TK1612, but the nsoD gene was not found in the
T. kodakaraensis genome (Fukui et al., 2005) (Fig. 2). Gene
clusters organized similarly to the nso operon could not be
identified among other known archaeal sequences, indicat-
ing the narrow occurence of nso-like operons in the Archaea
domain.
The NsoA and NsoB proteins showed significant homol-
ogy to the NuoE and NuoF subunits of the NADH:ubiqui-
none oxidoreductase of E. coli (Leif et al., 1995) and to the
NuoE- and NuoF-related subunits of the NAD1-linked
formate dehydrogenase of Ralstonia eutropha (Oh & Bo-
wien, 1998), the [FeFe] hydrogenase of Thermotoga mariti-
ma (Verhagen et al., 1999), and the NADH dehydrogenase I
of Caldicellulosiruptor saccharolyticus encoded by the
Csac0619 gene (Fig. 2).
Two glycine-rich conserved regions were recognized in
NsoB. The GxGxxG motif is involved in the formation of the
hydrophobic ADP-binding pocket of NAD(P)(H)-binding
sites (McKie & Douglas, 1991). The presence of a glycine
residue in the last position of the motif is typical for
NAD(H)-binding proteins rather than NADP(H)-binding
FEMS Microbiol Lett 282 (2008) 8–14c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
10 A. Toth et al.
enzymes (Scrutton et al., 1990). The second motif is similar
to FMN-binding sites (Leif et al., 1995).
Because NsoA and NsoB exhibit high degrees of resem-
blance to the well-characterized NuoE and NuoF subunits of
various enzyme complexes, they are expected to have similar
functions, NADH oxidoreductase and electron transfer, in
the Nso complex proposed.
The NsoC protein showed similarity to a hypothetical
molybdopterin oxidoreductase from C. saccharolyticus
(Csac0621), to a monomeric [FeFe] hydrogenase of Desulfi-
tobacterium hafniense (Nonaka et al., 2006) and to a mono-
meric formate dehydrogenase of Shewanella oneidensis
(Heidelberg et al., 2002) (Fig. 2). A nearly 400 amino acid
long region of NsoC (and similar proteins) designated as the
GltD domain (c. residues 100� 500) resembled the small
subunit of eubacterial glutamate synthases (GltD) (Vanoni
& Curti, 1999). The GltD domain exhibited the highest
identity to GltD of Clostridium thermocellum (accession no.:
YP001036803) (Fig. 2) and showed similarity (45% identity)
to the large, GltD-like subunit of the sulfide dehydrogenase
of P. furiosus (Hagen et al., 2000).
In the GltD domain, a GxGxxA motif was suggested to be
responsible for NADP(H) rather than for NAD(H) binding
(Scrutton et al., 1990), and two other motifs were recognized
that corresponded to a FAD-binding site of some flavopro-
teins like disulfide reductases (Vanoni & Curti, 1999). The N
and C terminal parts of NsoC resembled the N terminus of
NuoG type proteins, which contained FeS cluster-binding
motifs of cysteines well characterized in NuoG of E. coli (Leif
et al., 1995) (Fig. 2). Furthermore, there are two conserved
sequence patterns located at the N terminus and close to the
C terminal end of the GltD domain characteristic exclusive
to NsoC-related proteins (Fig. 3).
The domain structure of NsoC and NsoC-related proteins
may have arisen from the integration of a eubacterial GltD
polypeptide into a eubacterial NuoG-related protein (Fig.
3). The proposed mechanism for the formation of these
fusion proteins could explain the arrangement of the
cysteine motifs present specifically in these enzymes.
The nsoD gene as part of the nso operon was found in
T. litoralis only (Fig. 2). The deduced NsoD showed the
highest sequence similarity to an uncharacterized NAD(P)H
Fig. 2. Schematic structural organization of Thermococcus litoralis Nso proteins and their homologues. Sequence motifs for binding of NADH, NADPH,
FMN, FAD, molybdopterin guanine dinucleotide (MGD) and H-cluster within the polypeptides are indicated. Black and gray bands represent sequence
motifs for the coordination of [2Fe–2S] and [4Fe–4S] centers, respectively. Light gray bands indicate sequence motifs characteristic of NsoC-type
proteins. Identities between Nso and its homologues are given above the schematic proteins. Identities of the GltD domain of NsoC with GltD domains
of NsoC-type proteins are indicated in brackets.
FEMS Microbiol Lett 282 (2008) 8–14 c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
11NADPH-dependent sulfur oxidoreductase from T. litoralis
oxidase from P. furiosus (56% identity) (Robb et al., 2001).
However, its role in the Nso complex is cryptic.
Purification and characterization ofrecombinant NsoC protein
The in silico analysis of Nso proteins did not reveal sequence
motifs of known catalytic centers, like the H-cluster forming
residues characteristic of the [FeFe] hydrogenases or molyb-
dopterin-binding site peculiar to the formate dehydro-
genases. To establish the enzymatic properties of the Nso
complex, its simultaneous heterologous expression was
attempted. However, only NsoC could be expressed in
substantial amounts, while expression of the other subunits
was not successful. Reconstitution of the complex from the
individual components expressed separately also failed
because of poor expression of NsoA and NsoB. Therefore,
the 111-kDa recombinant NsoC protein (rNsoC) was ex-
pressed and purified by affinity chromatography. The native
molecular mass of purified protein, estimated by size-
exclusion chromatography, was 670 kDa, which suggested
that the native rNsoC was a hexamer.
In the UV-visible absorption spectrum of the oxidized
enzyme, the 390 nm peak indicated the possible presence of
iron–sulfur clusters (Orme-Johnson & Orme-Johnson,
1982), while the peak at 450 nm with a shoulder at around
480 nm was characteristic of oxidized flavoproteins (Fig. 4),
which agreed with the in silico analyis. The flavin cofactor
released after boiling of rNsoC in methanol was identified as
FAD by TLC (data not shown). The amount of FAD
extracted from rNsoC was 0.79� 0.02 mol mol�1 of enzyme,
assuming eFAD = 11.3 mM�1 cm�1 at 450 nm. Therefore,
rNsoC seems to contain one noncovalently bound FAD
cofactor per protein molecule.
The absorption peak at 450 nm decreased rapidly after
addition of NADPH under anaerobic conditions, indicating
the reduction of FAD. The peak partially reappeared when
oxygen was added to the enzyme solution (Fig. 4). These
observations showed that NsoC could use NADPH as an
electron donor and the FAD cofactor participated in the
electron transfer from NADPH to oxygen.
Enzymatic properties of rNsoC
Purified rNsoC catalyzed the oxidation of NADPH in the
presence of polysulfide with a specific activity of
0.35� 0.01 U mg�1; therefore, it was classified as sulfur
reductase. The enzyme could also catalyze the NADPH-
dependent reduction of artificial electron carriers, like
benzyl viologen and methyl viologen, and the disulfide
bond-containing substrate 5,50-dithiobis-(2-nitrobenzoic
acid) at rates of 17.11� 0.43, 1.17� 0.02 and
0.06� 0.002 U mg�1, respectively. Moreover, rNsoC had
remarkable NADPH oxidase activity under aerobic reaction
conditions (1.08� 0.07 U mg�1), which was also detected in
the case of some sulfur reductase enzymes, like sulfide
dehydrogenase of P. furiosus (Ma & Adams, 1994). In these
assays, NADH could not replace NADPH, which suggested
that rNsoC exclusively uses NADPH as an electron donor in
accordance with the in silico analysis. NADP1 reductase
reactions with reduced viologen dyes could not be detected.
The rate of the activity increased with the assay tempera-
ture up to 80 1C. However, the temperature optimum of the
enzyme could not be determined due to the significant
thermolability of NADPH above 80 1C. The pH optimum
of the sulfur reductase activity of rNsoC was around pH 8.9
(data not shown).
Fig. 3. Proposed mechanism for the formation of NsoC-type proteins.
Structural elements of the proteins are indicated as described in the
legend of Fig. 2.
Fig. 4. UV/visible absorption spectra of rNsoC. The absorption spectrum
of aerobically purified rNsoC (2.6 mg mL�1) in 50 mM Tris-HCl (pH 8.0)
and 150 mM NaCl at 65 1C is indicated by a solid line. The dashed line
indicates the spectrum after anaerobe addition of NADPH (1 mM), and
the dotted line shows the spectrum of rNsoC following the addition of
oxygen to the NADPH-supplemented samples.
FEMS Microbiol Lett 282 (2008) 8–14c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
12 A. Toth et al.
The kinetic parameters of rNsoC are summarized in
Table 1. The apparent Km value for polysulfide reduction
was slightly lower than that measured for P. furiosus enzymes
possessing sulfur reductase activity (Ma & Adams, 1994; Ma
et al., 2000). The affinity of rNsoC to O2 as another potential
physiological substrate was similar, but the NADPH oxidase
activity of the enzyme was much lower as compared with
that of NAD(P)H oxidases (Yang & Ma, 2005).
Enzymes that have sulfur or disulfide reductase activity
contain a single redox active cysteine or two cysteines in a
CxxC motif, which play an essential role in the catalytic
mechanism (Claiborne et al., 1999). However, a systematic
site-directed mutagenesis study revealed that in the se-
quence of NsoC no single cysteine was essential for catalytic
function (data not shown). This indicates a potentially new,
although unknown, catalytic mechanism.
Sulfur reductase activity in T. litoralis
To demonstrate that T. litoralis cells have NAD(P)H-depen-
dent sulfur reductase activity, cell extracts were prepared,
which catalyzed the reduction of colloidal sulfur and poly-
sulfide using NADPH as the electron donor at a rate of
0.021 U mg�1 and 0.065 U mg�1, respectively. These values
were similar to the sulfur reductase activities of P. furiosus
cell extracts (Ma & Adams, 1994). NADH-dependent poly-
sulfide reduction with T. litoralis cell extracts could also be
measured (specific activity of 0.029 U mg�1). To localize the
sulfur reductase activity of T. litoralis, cell fractions were
prepared (120 000 g for 1.5 h). Ninety-two percent and 74%
of the NADPH-dependent colloidal sulfur and polysulfide
reductase activities were present in the cytoplasmic frac-
tions, respectively. A similar distribution was found for the
marker cytoplasmic enzyme, glutamate dehydrogenase
(GDH). These results suggested the presence of cytoplasmic
NADPH-dependent sulfur reductase in T. litoralis.
Conclusions
An operon consisting of four genes (nsoABCD) was isolated
from T. litoralis. A similar gene cluster could be found only
in the genome of T. kodakaraensis among the sequenced
Archaea species. The operon codes for a complex in which
NsoABC subunits seem to be more closely related to various
eubacterial nucleotide-binding oxidoreductases than to ar-
chaeal proteins; therefore, this gene cluster is likely of
bacterial origin. This hypothesis is supported by the fact
that the codon frequency in nsoABC genes does not corre-
spond to the overall codon usage of T. litoralis (http://
www.kazusa.or.jp/codon/).
The complex had an unusual hybrid domain structure
and no typical catalytic center could be recognized. In silico
analysis suggested the complex to bind both NADH and
NADPH, flavins and iron–sulfur clusters. Biochemical ana-
lysis showed that the recombinant NsoC subunit had
NADPH-dependent sulfur reductase activity. According to
in silico analysis, the NsoB subunit can bind NADH; there-
fore, both NADH and NADPH might serve as substrates for
the Nso complex. Moreover, oxygen could also be used as a
substrate; therefore, the enzyme might have a role in the
regeneration of NADP1 pool via sulfur reduction and in the
protection of cells against oxidative stress.
Acknowledgements
This work has been supported by EU FP6 projects (HyVolu-
tion SES6 019825 and NEST STRP SOLAR-H 5166510) and
by domestic funds (NKTH, GVOP, Asboth, Baross, DEAK-
KKK, KN-RET). We gratefully acknowledge Rozsa Verebely
for excellent technical assistance.
References
Adams MWW & Kletzin A (1996) Oxidoreductase-type enzymes
and redox proteins involved in fermentative metabolisms of
hyperthermophilic Archaea. Adv Protein Chem 48: 101–180.
Ausubel FM, Brent R, Kingston RE, Moore DD, Seidman JG,
Smith JA & Struhl K (1996) Current Protocols in Molecular
Biology. Wiley, New York.
Claiborne A, Yeh JI, Mallett TC, Luba J, Crane EJ III, Charrier V &
Parsonage D (1999) Protein-sulfenic acids: diverse roles for an
unlikely player in enzyme catalysis and redox regulation.
Biochemistry 38: 15407–154516.
Diruggiero J, Dunn D, Maeder DL, Holley-Shanks R, Chatard J,
Horlacher R, Robb FT, Boos W & Weiss RB (2000) Evidence of
recent lateral gene transfer among hyperthermophilic archaea.
Mol Microbiol 38: 684–693.
Fiala G & Stetter KO (1986) Pyrococcus furiosus sp. nov. represents
a novel genus of marine heterotrophic archaebacteria growing
optimally at 100 1C. Arch Microbiol 145: 56–61.
Fodor BD, Kovacs AT, Csaki R, Hunyadi-Gulyas E, Klement E,
Maroti G, Meszaros LS, Medzihradszky KF, Rakhely G &
Kovacs KL (2004) Modular broad-host-range expression
vectors for single-protein and protein complex purification.
Appl Environ Microbiol 70: 712–721.
Table 1. Kinetic parameters for rNsoC�
Substrate (mM) Apparent Km (mM) Apparent Vmax (U mg�1)
Polysulfide (0–0.9) 0.54� 0.08 1.39� 0.17
DTNBw (0–4.0) 0.55� 0.09 0.18� 0.03
Benzyl viologen (0–0.3) 0.056� 0.003 28.02� 2.04
Methyl viologen (0–2.0) 0.84� 0.14 9.43� 0.66
Oxygen (0–0.134) 0.11� 0.02 1.81� 0.17
NADPHz (0–0.3) 0.087� 0.008 1.34� 0.09
�Assays were carried out at 65 1C using 0.3 mM NADPH as a cosubstrate.
The experimental data were curvefitted by nonlinear regression.w5,50-Dithiobis-(2-nitrobenzoic acid).zThe cosubstrate was oxygen under aerobic reaction conditions.
FEMS Microbiol Lett 282 (2008) 8–14 c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
13NADPH-dependent sulfur oxidoreductase from T. litoralis
Fukui T, Atomi H, Kanai T, Matsumi R, Fujiwara S & Imanaka T
(2005) Complete genome sequence of the hyperthermophilic
archaeon Thermococcus kodakaraensis KOD1 and comparison
with Pyrococcus genomes. Genome Res 15: 352–263.
Hagen WR, Silva PJ, Amorim MA, Hagedoorn PL, Wassink H,
Haaker H & Robb FT (2000) Novel structure and redox
chemistry of the prosthetic groups of the iron-sulfur
flavoprotein sulfide dehydrogenase from Pyrococcus furiosus;
evidence for a [2Fe–2S] cluster with Asp(Cys)3 ligands. J Biol
Inorg Chem 5: 527–534.
Heidelberg JF, Paulsen IT, Nelson KE et al. (2002) Genome
sequence of the dissimilatory metal ion-reducing bacterium
Shewanella oneidensis. Nat Biotechnol 20: 1118–1123.
Leif H, Sled VD, Ohnishi T, Weiss H & Friedrich T (1995)
Isolation and characterization of the proton-translocating
NADH: ubiquinone oxidoreductase from Escherichia coli. Eur J
Biochem 230: 538–548.
Lengyel B (1999) Altalanos es szervetlen kemiai praktikum
Nemzeti Tankonyvkiado, Budapest (in Hungarian).
Ma K & Adams MWW (1994) Sulfide dehydrogenase from the
hyperthermophilic archaeon Pyrococcus furiosus: a new
multifunctional enzyme involved in the reduction of elemental
sulfur. J Bacteriol 176: 6509–6517.
Ma K, Schicho RN, Kelly RM & Adams MWW (1993)
Hydrogenase of the hyperthermophile Pyrococcus furiosus is an
elemental sulfur reductase or sulfhydrogenase: evidence for a
sulfur-reducing hydrogenase ancestor. Proc Natl Acad Sci USA
90: 5341–5344.
Ma K, Robb FT & Adams MWW (1994) Purification and
characterization of NADP-specific alcohol dehydrogenase and
glutamate dehydrogenase from the hyperthermophilic
archaeon Thermococcus litoralis. Appl Environ Microbiol 60:
562–568.
Ma K, Weiss R & Adams MWW (2000) Characterization of
hydrogenase II from the hyperthermophilic archaeon
Pyrococcus furiosus and assessment of its role in sulfur
reduction. J Bacteriol 182: 1864–1871.
McKie JH & Douglas KT (1991) Evidence for gene duplication
forming similar binding folds for NAD(P)H and FAD in
pyridine nucleotide-dependent flavoenzymes. FEBS Lett 279:
5–8.
Neuner A, Jannasch HW, Belkin S & Stetter KO (1990)
Thermococcus litoralis sp. nov.: a new species of extremely
thermophilic marine archaebacteria. Arch Microbiol 153:
205–207.
Nonaka H, Keresztes G, Shinoda Y, Ikenaga Y, Abe M, Naito K,
Inatomi K, Furukawa K, Inui M & Yukawa H (2006) Complete
genome sequence of the dehalorespiring bacterium
Desulfitobacterium hafniense Y51 and comparison with
Dehalococcoides ethenogenes 195. J Bacteriol 188: 2262–
2274.
Oh JI & Bowien B (1998) Structural analysis of the fds operon
encoding the NAD1-linked formate dehydrogenase of
Ralstonia eutropha. J Biol Chem 273: 26349–26360.
Orme-Johnson WH & Orme-Johnson NR (1982) Iron-sulfur
proteins: the problem of determining the cluster type.
Iron-sulfur proteins (Spiro TG, ed). Wiley-Interscience,
New York.
Rakhely G, Zhou ZH, Adams MWW & Kovacs KL (1999)
Biochemical and molecular characterization of the [NiFe]
hydrogenase from the hyperthermophilic archaeon,
Thermococcus litoralis. Eur J Biochem 266: 1158–1165.
Robb FT, Maeder DL, Brown JR, DiRuggiero J, Stump MD, Yeh
RK, Weiss RB & Dunn DM (2001) Genomic sequence of
hyperthermophile, Pyrococcus furiosus: implications for
physiology and enzymology. Methods Enzymol 330: 134–157.
Schut GJ, Zhou J & Adams MWW (2001) DNA microarray
analysis of the hyperthermophilic archaeon Pyrococcus
furiosus: evidence for a new type of sulfur-reducing enzyme
complex. J Bacteriol 183: 7027–7036.
Schut GJ, Bridger SL.& & Adams MWW (2007) Insights into the
metabolism of elemental sulfur by the hyperthermophilic
archaeon Pyrococcus furiosus: characterization of a coenzyme
A-dependent NAD(P)H sulfur oxidoreductase. J Bacteriol 189:
4431–4441.
Scrutton NS, Berry A & Perham RN (1990) Redesign of the
coenzyme specificity of a dehydrogenase by protein
engineering. Nature 343: 38–43.
Soppa J (1999) Transcription initiation in Archaea: facts, factors
and future aspects. Mol Microbiol 31: 1295–1305.
Stanton TB & Jensen NS (1993) Purification and characterization
of NADH oxidase from Serpulina (Treponema) hyodysenteriae.
J Bacteriol 175: 2980–2987.
Yang X & Ma K (2005) Purification and characterization of an
NADH oxidase from extremely thermophilic anaerobic
bacterium Thermotoga hypogea. Arch Microbiol 183:
331–337.
Vanoni MA & Curti B (1999) Glutamate synthase: a complex
iron-sulfur flavoprotein. Cell Mol Life Sci 55: 617–638.
Verhagen MFJM, O’Rourke T & Adams MWW (1999) The
hyperthermophilic bacterium, Thermotoga maritima, contains
an unusually complex iron-hydrogenase: amino acid sequence
analyses versus biochemical characterization. Biochim Biophys
Acta 1412: 212–229.
FEMS Microbiol Lett 282 (2008) 8–14c� 2008 Federation of European Microbiological SocietiesPublished by Blackwell Publishing Ltd. All rights reserved
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