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Tiêu đề The kinetic properties of various R258 mutants of deacetoxycephalosporin C synthase
Tác giả Hwei-Jen Lee, Young-Fung Dai, Chia-Yang Shiau, Christopher J. Schofield, Matthew D. Lloyd
Trường học National Defense Medical Centre
Chuyên ngành Biochemistry
Thể loại Journal article
Năm xuất bản 2003
Thành phố Taipei
Định dạng
Số trang 7
Dung lượng 215,05 KB

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Nội dung

Utilization of 2-oxoglutarate by the R258 mutants The level of 2-OG conversion in the presence of a penicillin substrate was reduced with all the R258 mutants Table 2, assay 1.. The R258

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The kinetic properties of various R258 mutants

of deacetoxycephalosporin C synthase

Hwei-Jen Lee1, Young-Fung Dai1, Chia-Yang Shiau2, Christopher J Schofield3and Matthew D Lloyd4 1

Department of Biochemistry, National Defense Medical Centre, Taipei, Taiwan, ROC;2Institute of Medical Science, National Defense Medical Centre, Taipei, Taiwan, ROC;3The Oxford Centre for Molecular Sciences and Dyson Perrins Laboratory, South Parks Road, Oxford, UK;4Department of Pharmacy and Pharmacology, University of Bath, Claverton Down, Bath, UK

Site-directed mutagenesis was used to investigate the control

of 2-oxoacid cosubstrate selectivity by

deacetoxycephalo-sporin C synthase The wild-type enzyme has a requirement

for 2-oxoglutarate and cannot efficiently use hydrophobic

2-oxoacids (e.g 2-oxohexanoic acid,

2-oxo-4-methyl-penta-noic acid) as the cosubstrate The following mutant enzymes

were produced: R258A, R258L, R258F, R258H and

R258K All of the mutants have broadened cosubstrate

selectivity and were able to utilize hydrophobic 2-oxoacids The efficiency of 2-oxoglutarate utilization by all mutants was decreased as compared to the wild-type enzyme, and

in some cases activity was abolished with the natural cosubstrate

Keywords: b-lactam biosynthesis; cephem; chemical cosub-strate rescue; nonhaem iron(II) oxygenase; 2-oxoglutarate

Deacetoxycephalosporin C synthase (DAOCS; Swiss-Prot

P18548) catalyses a key step in the cephamycin C

biosyn-thetic pathway in Streptomyces clavuligerus, i.e the

ring-expansion of penicillin N (1) to deacetoxycephalosporin C

(DAOC, 2) [1–7] (Scheme 1) A sequence-related oxygenase,

deacetylcephalosporin C synthase (DACS; Swiss-Prot

42220), catalyses the subsequent hydroxylation of the

exocy-clic methyl group of (2) to give deacetylcephalosporin C

(DAC, 3) The DAC product is then converted by a series of

reactions, including 7-hydroxylation, into cephamycin C (4)

Oxidative reactions in this pathway are catalysed by

nonhaem iron(II) and 2-oxoglutarate (2-OG)-dependent

oxygenases [4] Two of these enzymes, DAOCS and DACS,

are part of a sequence-related subgroup of enzymes [8],

which also include deacetoxy/deacetylcephalosporin C

syn-thase (the Cephalosporium acremonium bifunctional protein

catalysing the both ring-expansion and hydroxylation

reactions; Swiss-Prot P11935) and isopenicillin N synthase (which is not a 2-OG-dependent oxygenase, but catalyses the formation of the bicyclic penicillin nucleus; S clavuli-gerusenzyme Swiss-Prot P10621)

Understanding of the catalytic mechanism of DAOCS [9–11] has been advanced by a combination of biochemical and X-ray crystallographic studies [1,12–17] These studies have given insights into how the oxidation of 2-oxoglutarate (the cosubstrate) and the penicillin substrate are coupled R258 and S260 are located in the 2-OG binding pocket and bind the 5-carboxylate of the cosubstrate by electrostatic interactions Mutation of R258 to glutamine results in loss

of coupling between penicillin oxidation and 2-OG conver-sion [17] Moreover, the activity of the R258Q mutant could

be restored by the use of unnatural 2-oxoacids (which are not utilized by the wild-type enzyme) as cosubstrates (chemical cosubstrate rescue) [17] A similar change in cosubstrate selectivity upon mutation of the analogous arginine residue has been observed with the 2-OG-depend-ent oxygenase, phytanoyl-CoA 2-hydroxylase [18,19] This paper reports the biochemical properties of other DAOCS mutants, in which R258 has been replaced with uncharged

or positively charged amino acids

Materials and methods

Materials Chemicals were obtained from the Sigma-Aldrich Chemical

Co or Merck and were of at least analytical grade or higher Reagents were also supplied by: Amersham Biosciences (protein chromatography systems and columns); Bohringer-Mannheim (ATP); MBI (1 kb and 100 bp DNA gel markers); Bio-Rad (Kunkel mutagenesis reagents); New England Bio-Laboratories (enzymes for molecular biology); Novagen (pET vectors); Gibco/BRL (mutagenesis primers); Phenomenex (HPLC columns)

Correspondence to H.-J Lee, Department of Biochemistry, National

Defense Medical Centre, No 161, Sec 6, Minchuan East Road,

Neihu 114, Taipei, Taiwan, Republic of China.

Fax: + 886 2 87921544, Tel.: + 886 2 87910832,

E-mail: hjlee@ndmctsgh.edu.tw; and

M D Lloyd, Department of Pharmacy and Pharmacology,

University of Bath, Claverton Down, Bath BA2 7AY.

Tel.: + 44 1225 386786,

E-mail: M.D.Lloyd@bath.ac.uk

Abbreviations: DACS, deacetylcephalosporin C synthase; DAOCS,

deacetoxycephalosporin C synthase; ESI-MS, electrospray ionization

mass spectrometry; G-7-ADCA, phenylacetyl-7-aminodeacetoxy

cephalosporanic acid; 2-OG, 2-oxoglutarate; 2-OH, 2-oxohexanoate;

2-OMP, 2-oxo-4-methyl-pentanoate.

(Received 14 November 2002, revised 29 January 2003,

accepted 4 February 2003)

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Site-directed mutagenesis

Oligonucleotide-directed mutagenesis of R258 mutants was

performed using the Kunkel method [20,21] Single-stranded

DNA in the pET24a plasmid (pHL1 [1]) containing the

DAOCS gene was used as a template for mutant

produc-tion, with the appropriate primers (Table 1) The presence

of the desired mutations was confirmed by automated DNA

sequencing (ABI 3100 sequencer)

Protein purification

Recombinant DAOCS and mutant proteins were expressed

in Escherichia coli BL21(DE3) as described previously at

37C after induction by 0.4 mM isopropyl thio-b-D

-gal-actoside Wild-type and mutant enzymes were purified as

described [1,16] using a HiPrep 16/10 Q XL anion-exchange

column, which was eluted with 0.16–0.26MNaCl gradient

Fractions (10 mL) containing DAOCS (as judged by SDS/

PAGE analyses) were further purified using a Sephacryl

S-100 column (XK26 column, 2.6· 86 cm, 386 mL)

Protein oligomerization was assessed as reported [1] using

gel filtration chromatography with an S-200 10/30 column

equilibrated in gel filtration buffer Secondary structures of

the purified wild-type and mutant proteins were compared

by circular dichroism analyses The molecular masses of all

mutants were determined by ESI-MS (R258A: calculated

34470.6 Da, observed 34469 ± 5 Da; R258L: calculated 34512.6 Da, observed 34514 ± 5 Da; R258F: calculated 34546.7 Da; observed 34548 ± 4 Da; R258H: calculated 34536.6 Da, observed 34538 ± 5 Da; R258K: calculated 34527.7 Da, observed 34528 ± 6 Da)

Activity assays Production of deacetoxycephems was assayed using the reported HPLC or holed-plate assays [1] in a final volume of

100 lL Reaction mixtures contained 50 mMHepes/NaOH,

pH 7.5, 2 mM tris(carboxyethyl)phosphine, ascorbate, FeSO4and 2-oxoacid, and 10 mMpenicillin G or ampicillin

as prime substrate Approximately 0.05 mg of enzyme was used in each assay E coli· 580 was used as the indicator organism in the holed-plate assay [22] HPLC separation of the products was performed by isocratic elution with 25 mM ammonium bicarbonate in 16% (v/v) methanol on a Hypersil C4 column (250· 4.6 mm) Retention volumes for the G-7-ADCA and cephalexin products (from penicillin

G and ampicillin, respectively) were 21.6 and 11.2 mL, respectively 2-OG conversion assays were conducted as described previously [13], and were corrected for 2-OG conversion in the absence of penicillin substrate Apparent kinetic parameters for the penicillin substrate (± SD) were determined by HPLC assay [1] Rates were determined in at least triplicate for at least six concentrations of penicillin G

or ampicillin at a single defined concentration of the 2-oxoacid cosubstrate (2 mM)

Results and discussion

Purification and characterization of mutants Wild-type DAOCS and all mutants were purified to at least 85% purity (as judged by SDS/PAGE and gel filtration analyses) using a combination of anion-exchange and gel filtration chromatographies The DNA sequences of the R258 mutants and the ESI-MS analyses showed that only

Table 1 Primer sequences for production of the R258 mutants of

DAOCS by the Kunkel method [20,21].

Scheme 1 Conversion of penicillin N1 to cephamycin C4 2-OG ¼ 2-oxo-glutarate; R ¼ D -d-(a-aminoadipoyl)-; * methyl group incorporated into cephem ring by DAOCS.

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the desired mutations were present Circular dichroism

analyses indicated that no gross changes in the secondary

structure of the mutant enzymes had occurred compared to

wild type DAOCS

Activity assays for 2-oxoglutarate and penicillin

oxidation

Previously it has been reported that wild-type DAOCS is

only able to utilize a few 2-oxoacids as cosubstrates [17],

with the natural 2-oxoacid, 2-oxoglutarate, giving the

highest activity Significant activity was also observed with

2-oxohexanedioate (2-oxoadipate) (64%) and

2-oxopro-panoate (pyruvate) (5%) The R258Q mutation reduced

activity with 2-oxoglutarate and 2-oxopropanoate, but

allowed utilization of other 2-oxoacids

Thus, all mutants were assayed for their ability to catalyse

2-OG conversion and penicillin oxidation in the presence of

various 2-oxoacids (Table 2, Scheme 2) Cephem

produc-tion (G-7-ADCA or cephalexin from penicillin G or

ampicillin, respectively) was monitored by HPLC and

holed-plate bioassays The latter assay can give useful

confirmatory data, as this provides evidence that the enzyme

is producing a cephem antibiotic product However, a linear

response is only observed over a limited range of product

concentrations and the response also depends on the

antibiotic potency of the cephem product [23] Thus, the

results from the holed-plate assay should be interpreted with

care The effect of mutations appears to be similar regardless

of whether the prime substrate was penicillin G or ampicillin

Utilization of 2-oxoglutarate by the R258 mutants

The level of 2-OG conversion in the presence of a penicillin

substrate was reduced with all the R258 mutants (Table 2,

assay 1) The R258K mutant retained the highest levels

of activity in the presence of penicillin and ampicillin, presumably due to maintenance of a charge interaction between the lysine side-chain and 2-OG The R258H mutant retained little activity with 2-OG, which was surprising in light of the results with the R258K mutant This probably arises due to the R258H side-chain being deprotonated The R258A, R258L and R258F mutants almost completely abolished activity with 2-OG, presuma-bly due to unfavourable charge/hydrophobic interactions with the cosubstrate 5-carboxylate

Penicillin G and ampicillin oxidation in the presence

of 2-oxoglutarate All mutants displayed reduced penicillin conversion in the presence of 2-OG (Table 2, assays 2 and 3) In some cases

Table 2 Activity comparison of wild type and R258 mutants in the presence of alternative 2-oxoacids using 10 m M penicillin G or 10 m M ampicillin as substrate Results are normalized to wild-type enzyme with 2-oxoglutarate as cosubstrate The specific activities were 190 nmolÆmin)1Æmg)1for the 2-oxoglutarate conversion assay [7], 102 nmolÆmin)1Æmg)1for penicillin conversion by HPLC assay [1] and 72 nmolÆmin)1Æmg)1for the holed-plate assay [1] Standard deviations for these assays were approximately 15% and 10%, respectively, based on triplicate assays.

DAOCS enzyme

Penicillin G substrate (10 m M )

Ampicillin substrate (10 m M )

3 Holed-plate assay (cephalexin production) (a) 2-OG 41 7 < 2 < 2 < 2 < 2 < 2

Scheme 2 Conversion of penicillin G to G-7-ADCA and ampicillin to cephalexin by DAOCS.

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reduced penicillin oxidation is simply a consequence of the

less efficient utilization of 2-OG as a cosubstrate However,

reduced cephem production may also be due to uncoupling

of the two reactions, i.e the stoichiometry is less than 1 : 1

Comparison of the results for assays 1a and 2a imply that

the level of 2-OG conversion is greater than penicillin G

conversion by the R258A mutant, i.e some uncoupling is

occurring When ampicillin is used as the prime substrate

uncoupling is clearly present in all mutants except for

R258H, which does not catalyse conversion of 2-OG The

difference in the levels of coupling between 2-OG and

penicillin G or ampicillin oxidation is probably a reflected in

the apparent Kmvalues for these substrates

The interpretation of these results is complicated because

the levels of uncoupling will be variable depending on the

mutant and the nature of the cosubstrate Uncoupled

conversion has been shown to be responsible for

auto-oxidation of other oxygenases [24], and this may give rise to

enzyme inactivation This uncoupling may be a consequence

of steric interactions between the penicillin substrate and the

hydrophobic side-chain of the coproduct (the carboxylic acid

that is analogous to succinate in the wild-type reaction), thus

causing misorientation of the penicillin to the high-energy

ferryl [Fe(IV)¼O/Fe(III)–OÆ] intermediate [16,25]

Crystal-lographic analysis of DAOCS complexed with iron(II),

succinate and CO2demonstrated that the 4-carboxylate of

succinate may be bound by the side-chain of R160 or R162 in

the absence of any substrate [12] This structure may reflect

catalysis during uncoupled reaction cycles (i.e 2-OG conversion in the absence of a penicillin substrate) in the wild-type enzyme Functional analysis of R160 and R162 by site-directed mutagenesis suggests that these two residues bind the nucleus of the penicillin substrate [16]

Rescue of enzyme activity of R258 mutants

by alternative cosubstrates

In the case of wild-type DAOCS, 2-OG cannot be replaced

by either 2-OH or 2-OMP (Table 2, assays 2b and 2c) Because it was not possible to measure cosubstrate conver-sion (assay 1) the possibility of uncoupled 2-oxoacid conversion in the wild-type enzyme cannot be excluded All of the R258 mutants were able to catalyse cephem production from both penicillin G and ampicillin in the presence of aliphatic 2-oxoacids (2-OH and 2-OMP), showing that broadening of cosubstrate selectivity occurs when the side-chain of R258 is substituted by a positively charged, polar [17] or hydrophobic side-chain

Significant activity in the presence of hydrophobic cosubstrates was unexpected for the R258K and R258H mutants because the presence of a positive charge in the active site would be expected to suppress cosubstrate binding In the case of the R258K mutant this may be allowed because of disordering of the lysine side-chain, as was previously observed for the R258Q mutant (Fig 1) [17]

In the case of the R258H mutant it is more likely that the

Fig 1 Structure comparison of the active site of wild-type DAOCS (RCSB PDB accession no 1rxg) complexed with iron (II) and 2-oxoglutarate and the R258Q mutant (RCSB PDB accession no 1hjf) complexed with iron (II) and 2-oxo-4-methyl-pentanoate (2-OMP) Wild-type residues are represented by the red structure, mutant residues by the green structure This figure was produced using VIEWERPRO (http://www.accelrys.com/ viewer).

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imidazole side-chain is predominately in an uncharged state

or that the positive charge is no longer proximal to the

cosubstrate side-chain This result is consistent with loss of

activity in this mutant when 2-OG is used as the cosubstrate

Higher levels of penicillin oxidation were observed when

2-OMP was used as a cosubstrate compared to 2-OH The

results with the R258F mutant are particularly impressive,

as this single point mutation appears to almost completely

change the DAOCS cosubstrate selectivity from 2-OG to

hydrophobic cosubstrates

Kinetic parameters of R258 mutants

Kinetic parameters for the mutants were determined using

the HPLC assay with either penicillin G or ampicillin as

substrates, in the presence of 2-OG, 2-OH or 2-OMP, as

appropriate Due to the low activities of most mutants with

2-OG, only the R258K mutant was subjected to kinetic

analysis Similar trends were observed for both mutants and

cosubstrates irrespective of whether penicillin G or

ampi-cillin was the prime substrate (Tables 3 and 4), and the results are consistent with those presented in Table 2 However, care is required when interpreting these results for several reasons Firstly, only one concentration of cosub-strate was used in each experiment and so apparent kinetic parameters are reported Secondly, the concentration of the 2-oxoglutarate cosubstrate has been shown to be a critical factor in determining the activity of the wild-type enzyme, which displays complex biphasic kinetics [26] It is unclear if

a similar phenomenon is observed for rescuing cosubstrates with mutant enzymes

Mutants can be grouped into those that affect apparent

Km values, those that affect kcat values and those that affect both Kmand kcatvalues In the case of the R258K mutant with 2-OG, a modest decrease in kcatis observed whilst Km is considerably increased for both penicillin substrates

When 2-OH is used as cosubstrate a decrease in kcatis observed for the conversion of penicillin G in all mutants, except for the R258F mutant This decrease is absent when

Table 4 Kinetic parameters of R258 mutants using ampicillin as prime substrate Parameters were determined by HPLC assay with a fixed concentration of 2 m M cosubstrate.

Enzyme

Fixed cosubstrate

Table 3 Kinetic parameters of R258 mutants using penicillin G as substrate Parameters were determined by the HPLC assay with a fixed concentration of 2 m M cosubstrate.

Enzyme

Fixed cosubstrate

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2-OMP is used as cosubstrate The Kmvalues for penicillins

are significantly increased in mutants with side-chains that

can be positively charged (R258K and R258H), whilst

mutants with hydrophobic side-chains, such as R258F,

appear to have similar or slightly lower Kmvalues Similar

trends were observed when ampicillin was used as the prime

substrate, although the magnitude of the changes in kinetic

parameters do not always correspond to those observed

with penicillin G Notably, a modest increase in catalytic

efficiency (as judged by kcat/Km values) occurs for the

R258F mutant when 2-OMP is the cosubstrate with both

penicillin G and ampicillin

Role of arginine residues in controlling cosubstrate

selectivity

The results highlight the essential nature of an arginine

residue in the 2-oxoglutarate binding site in DAOCS and

related oxygenases in controlling cosubstrate selectivity The

key factors determining which alternative cosubstrates can

efficiently rescue oxygenase activity appear to be steric

constraints upon the size of the cosubstrate side-chain, and

the flexibility (or absence) of the substituted side-chain

2-Oxoacids with up to six carbons or equivalent appear

to be efficient cosubstrates, whilst larger 2-oxoacids (e.g

2-oxo-octanoate) are not [17,19] Efficient coupling of

cosubstrate conversion with penicillin oxidation is also

crucial, and this also appears to be partially controlled by

the size of the cosubstrate side-chain

Some oxygenases, e.g prolyl 4-hydroxylase [27]

appar-ently have an active site lysine residue in place of arginine,

but still maintain control of cosubstrate binding How this is

achieved is unclear, but it may be due to orientation of

several residue side-chains to accomplish the selective

charge–charge interaction The presence of an additional

histidine residue in the prolyl 4-hydroxylase binding site

may be required to maintain the lysine side-chain in a

positively charged state Thus, although the combination of

an arginine residue with a serine (or remote threonine [28])

residue appears to be an important mechanism for

control-ling cosubstrate selectivity in many oxygenases, it does not

appear to be universal

Acknowledgements

We thank Dr R T Aplin for mass spectrometric analyses and Dr B.

Odell for NMR analyses The Biotechnology and Biological Sciences

Research Council, Engineering and Physical Sciences Research

Coun-cil, Medical Research CounCoun-cil, the Wellcome Trust, the European

Union and the National Science Council, Republic of China are

thanked for financial assistance.

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