An archetype correlation between bacterial rubredoxin and both bacterial and plant ferredoxins

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Vol. 35, No. 1, 1969

AN ARCHETYPE CORRELATION BETWEEN BACTERIAL RUBREDOXIN AHD BOTH BACTERIAL AND PLANT FERREDOXINS Boris Department

of Chemistry, Seattle,

Received

March

from Clostridium -

of Washington,

Washington

doxin,

obtained

of the

inorganic

protein

98105

rubredoxin,

pasteuri=,

reactions

structure

University

6, 1969

The non-heme iron

enzymatic

Weinstein

replaces

(Lovenberg

et al,

from Micrococcus ~binding

of this

sites

1965).

aerogenes, (Bachmeyer

amino acids

rubredoxin,

derived

from Peptostreptococcus

of

residues

array

fifty-two

preliminary

investigation

rubredoxins

may exhibit

related

to the

plant

The sequences sources--bacteria 1966;

1966,

196811;

tablished are very 1967;

green

in parallel useful

Matsubara,

19681, aerogenes -

(Matsubara

Another

rubre-

et al,

1967).

The

of a linear

et al,

1968a,

1968c).

elsdenii, -

(Bachmeyer to the

of

A third

possesses

et al,

conclusion

duplication,

chain

1968b). that

a A

the

and are possibly

ferredoxins.

[Clostridium -

Micrococcus

[spinach

an internal

of various

Benson et al,

19661,

now leads

in certain

was used in a study

second compound consists (Bachmeyer

originally

ferredoxin

fifty-three

similar

isolated

et al, alga

1968a)

isolated

pasteurianum Clostridium (Tsunoda 1968b1,

et al,

viewpoint

of

and evolutionary

109

et al,

plants

(Keresztes-Nagy

et al,

1968)1--were

between

functional

1964,

(Benson et al,

196711;

(Sugeno,

Comparisons

from different

(Tanaka

butyricum

alfalfa

[Scenedesmus

work.

from the

ferredoxins

the

ferredoxins

(Malkin

relationships

es-

et al, (Eck et

Vol. 35, No. 1, 1969

al,

1966,

BIOCHEMICAL

Jukes,

by undergoing

1966).

and plant

suggestive

of from

mediate

between

(Sasaki

et al,

one is able

the

nonphotosynthetic

of

the

biological

be expected

mind, is

afford

1969b).

similar

the Algal,

sequences, Chromatium

bacteria,

which

ferredoxin, appears

bacteria

interchange an "active between

to M. - aerogenes, other ferredoxin-rubredoxin

in

et al,

anaerobic

and rubredoxins,

for

would

origin.

limited

compounds

amples

have

residues,

and green

interplants

1967).

might

eration

scheme,

ferredoxins

a photosynthetic

In view ferredoxins

(Matsubara

a common archetype

derived

of twenty-nine

by recombination,

ferredoxins

bacterial,

homology

A prototype

lengthening

known bacterial

AND BIOPHYSICAL RESEARCH COMMUNICATIONS

a tentative

shown in

and the (Matsubara

gaps,

site"

these

since

1.

with

minor 19671.

proteins.

pairs.

exceptions, An interesting

110

bacterial

At present, work

With

involving

For ferredoxin,

the

or a residue

sequence

arrangement

Fig.

et al,

between

is

unavail-

this these

the follow

considtwo

numbering earlier

pattern

exof par-

is

Vol. 35, No. 1, 1969

tial

BIOCHEMICAL

correspondence

in the

rubredoxin

doxin.

emerges by allowing to match the

Unfortunately,

ternal

repetition

(1.191,

thus

bacterial

the

sequence data

rubredoxin

sets.

spinach

bility

and Clostridium

spinach

begins

mechanism (Matsubara

In Fig. pared

with

merit

et al,

3, spinach E. aerogenes

other

for

in Fig.

is high

for

the

with

two

when

regions

whose compati-

of deletions.

and larger

amino terminus

in-

in certain

2.

ferre-

ferredoxin-

ferredoxin,

are identical

at the

evident

reevaluation

employment

An alternative

in the

marginal

to similarities

is given

ferredoxin

ferredoxin.

ferredoxins

by the

presentation

in M. - aerogenes

is not

butyricum

cysteine

the IiBLX value

in hand for

has been called

was strengthened

generalized

is

initial

residue

appears

since

These points

additional

of

evidence

relationship

proteins.

the

equivalent

in rubredoxin,

a direct

Attention

AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Thirteen similar

A residues ones in

scheme for

and involves

the

a doubling

1969).

and Scenedesmus ferredoxins rubredoxin.

111

Most

significantly,

are comthe

Vol. 35, No. 1, 1969

Figwe

3.

BIOCHEMICAL

Similarities Identical

correlation

between positional

ferredoxins.

lower

than

spinach

related

for

with

serve it

vs. -

portions

is an important the

plant

of

and 0.87)

are

regions

is

of sug-

definitely

Rubredoxin

phylogenetic

and

slightly

The fit

which

the bacterial

rubredoxin.

the plant

ferredoxin.

ferredoxins.

both

aerogenes

selected

relic,

to future

to bridge

(0.96 for

M. aerogenes -

as a guide

appears

initial

numbers derived

ferredoxin

associated

femedoxins with Hicmcoccus within each peptide.

The MBDC values

rubredoxin

doubt

and Scenedesmus am underscored

commences in the

algal

gests

spinach residues

AND BIOPHYSICAL RESEARCH COMMUNICATIONS

will

no

work in this and plant

area,

ferre-

doxins. Finally, first,

two additional

the

and plant

residue

and,

plants

nonphotosynthetic include

between rubredoxin

genetic

the division

groups--green

to

with

as to their

second,

revised

reciprocity

ferredoxins

suggestion

observations

need mentioning: the

does not

evolution

of the

algal,

the

(Sasaki

ferredoxins

rubredoxins.

112

et al,

support

(Eck et al, into

and algae , photosynthetic

bacteria

bacterial, one 1966);

three

bacteria,

1967)--must

and be

BIOCHEMICAL

Vol. 35, No. 1, 1969

AND BIOPHYSICAL RESEARCH COMMUNICATIONS

ACKNOWLEDGEMENTS The author H. Matsubara in this for

wishes

to thank

Drs.

and H. R. Whiteley

invesigation

support

and the

C. R. Cantor,

for

suggestions

National

Institutes

T.

H. Jukes,

and interest of Health

(AM 12616-01). REFERENCES

Bachmayer, H., Benson, A. M., and Whiteley, H. R., -Biochem., Bachmayer, H., Piette, L. H., H. R., --Proc. Nat. Acad. d, Sci

Yasunobu K. T., 7, 986 11968). = Yasunobu, K. T., 57, 122 (1967).

Bachmayer, H., Yasunobu, K. T., Peel, J. Chem ., z, 1022 (1968). -- Biol.

J.

L.,

Garrard,

W. T.,

and Whiteley, and Mayhew,

S.,

Bachmeyer, SciAcad. 2'

H., Yasunobu, K. T., and Whiteley, H. R., Proc. Nat. 59 1273 (1968). =' K. T., Proc. Nat. Acad. Benson, A. M., Mower, H. F., and Yasunobu, ;,Sci 55, 1532 (1966); Arch. Biochem. Biophys., 121,'3m667). Benson, A. M. and Yasunobu, 126. 653 (1968). Eck,

R. V. and Dayhoff,

Jukes, T. H., Molecules New York, 1966, p. 229. Keresztes-Nagy, (1966).

Malkin, (1967).

M. O.,

S., Perini, (1968).

R. and Rabinowitz,

Matsubara Symposia Proteins, Matsubara, Acad. ;,Sci -Matsubara, 243, 1725 Chem., E,

Science,

H.,

E.,

F.,

Tampakushitsu

Proc. --C.,

Sasaki, R. M., 439 (1967).

University

J. --

Chem.,

Biol.

Kakusan

w,

and Chain,

E.,

Acad.

Rev.

H., Jukes, T. H., and Cantor, in Biology, Structure, Function in press. No. 21 (19691, H., 2,

Columbia

Nat.

Ann. --

Biophys.,

363 (1966).

and Margoliash,

B. E., J.

Biochem. 152,

and Evolution, -

W. and Sobel,

Matsubara,

Arch.

S. and Margoliash,

Keresztes-Nagy, communication Lovenberg, (1965).

K. T.,

&,

5955

=54, 193 =36,

113

632 (1968).

C. R., Brookhaven and Evolution in R. K.,

--Proc.

H., Sasaki, R. M., and Chain, R. K., J. (1968); Matsubara, H., and Saski, R. M, 1732 (1968). 113

-,241

personal

Biochem., 13,

Press,

Biol. mol. --

Nat. Chem.,

Vol. 35, No. 1, 1969

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

R. M. and Matsubara, Sasaki, 2, 467 (1967). Sugeno, K. and Matsubara, 951 (1968).

H., H.,

Biochem.

Biochem.

Biophys. Biophys.

Res. Res.

Commun.,

Commun.,

Tanaka, M., Nakashima, T., Benson, A., Mower, H. F., and Yasunobu, K. T., Biochem. Biophys. Res. Commun., 2, 422 (1964); Biochem., 5, 1666 (1966) . = Tsunoda, J. N., Yasunobu, K. T., and Whiteley, H. R., -J. e. -,, Chem E, 6262 (1968).

114

32 ='