Table 3

Candidate binding sites for the ferric uptake regulator FUR

Gene

Operon

Function

Site

Position*

Score


Geobacter sulfurreducens PCA

381665

Fur

Ferric uptake regulator

ATGAtAtTCAcTTTCAg

-31

5.25

381666

feoB1 - R

Fe2+ transporter

cTGAAAgTGATTTTCAc

-192

5.18

383594

genX*-genY*

Cytochrome c family protein, putative

gTGAAAAaCATTTTCAa

-65

5.08

383590

X-feoA-feoA-feoB2

Porin, Fe2+ transporter

tTGAAAATGgaaTTCAT

-82

5.07

Geobacter metallireducens

379927

Fur

Ferric uptake regulator

tTGAAAATCAcTTTCAg

-30

5.54

379928

feoB1 - R

Fe2+ transporter

tTGAAAgTGAaTaTCAa

-48

5.33

378774

psp*

Porin?

tTGAAAAaGAcTTTCAT

-259

5.28

ATGAAtATGAaTTTCAa

-160

5.35

Desulfuromonas species

392427

fur2-feoB1 - R

Fe regulator, Fe2+ transporter

tTGAAAATCATTTTCAg

-34

5.72

390939

psp*

Porin?

tTGAtAATGgcTTTCAT

-139

5.22

cTGAAAAcGATTTTCAT

-86

5.46

391943

fur1

Ferric uptake regulator

tTGAAcATCATTTTCAT

-37

5.44

387887

feoA-feoB4

Fe2+ transporter

ATGAAAAcGAaTTTCAT

93

5.43

tTGAtAAaGAcTTTCAT

39

5.12

391875

genY*(N)

tTGAAAAcGgTTTTCAT

-105

5.28

389803

feoA-feoB2

Fe2+ transporter

cTGAAAAcCgTTTTCAa

-39

5.16

392265

feoA-feoB3

Fe2+ transporter

ATGAAAtaCAcTTTCAa

-54

5.13

Desulfovibrio vulgaris

209207

?

tTGAAAATtATTTTCAa

-35

5.42

ATtAtttTCAaTaTCAg

-29

4.06

206189

gdp*

GGDEF domain protein

tTGActtTGAaaaTCAT

-36

4.04

tTGAAAATCATaaTCAa

-30

5.32

208071

feoA-feoA-feoB

Fe2+ transporter

ATaAActTGAcaaTCAT

-99

3.91

tTGAcAATCATTTTCAT

-93

5.18

207866

foxR-pqqL*-atpX*-...

Regulator, Zn-dependent peptidase, ABC operon

tTGActtTGATTTTCAc

-195

4.31

tTGAtttTCAcTTTCAT

-189

5.01

209238

genY*(C)-genZ*

?

tTGAcAtTGATTTTCgT

-55

4.31

tTGAtttTCgTTTTCAa

-49

4.89

208179

fld*

Flavodoxin

tTGAAAAcaAaaaTCAa

-182

4.49

AcaAAAATCAaTTTCAa

-176

4.25

208641

hdd*

HD-domain protein

tTGAcAATGATTTTCtT

-93

4.46

ATGAtttTCtTTTTCAa

-87

4.81

208856

Has P-type ATPase/hydrolase domains

tTGAtttaGATTTTCAa

-87

4.79

taGAtttTCAaTTTCAg

-81

4.20

tTcAAttTCAgTaTCAa

-75

3.82

Desulfovibrio desulfuricans G20

395878

fur3

Ferric uptake regulator

ATGAAAATaATTTTCAT

-77

5.46

393004

pqqL*-atpX*-...

Zn-dependent peptidase, ABC operon

ATGAAAATaAaTTTCAT

-54

5.31

ATaAAttTCATTTTCAT

-48

4.65

392971

392971-70-69

MoxR-like ATPase, CoxE-like protein

cTGAAAtTGgTTTTCAa

-99

5.29

tTGgtttTCAaTaTCAg

-93

4.24

tTGAAAATGAaaTTtAT

-30

4.63

ATGAAAtTtATagTCAg

-24

4.19

393146

genY*(C)-genZ*

?

tTGAcAtTGATTTTCAT

-84

5.03

tTGAtttTCATTTTCAc

-78

4.81

393462

fld*

Flavodoxin

tTGAcAATGAaTTTCAT

-263

5.03

ATGAAttTCATTTTCAc

-257

4.99

394236

feoA-feoB

Fe2+ transporter

ATGAgAAgGATTTTCAa

-83

5.00

AgGAtttTCAaTTTCAc

-77

3.96

394235

feoA3

Fe2+ transporter

AgGAActTGAcaaTCAT

-60

3.91

tTGAcAATCATTcTCAT

-54

4.72

393956

gdp*

GGDEF domain protein

tTGAtttTGAgTTTCAT

-122

4.56

tTGAgttTCATaTTCAT

-116

4.55

395154

FoxR

AraC-type regulator

tTGAcAtTGAaaaTCAT

-189

4.38

tTGAAAATCATTTTCgc

-183

4.74

394231

pep*-fur1

Zn-dependent peptidase, Fe regulator

tTcAgAcTGgTTTTCAT

-281

3.75

cTGgtttTCATTaTCAT

-275

4.41

395541

hdd*

HD-domain protein

gTGAtAtTGAaaTTCtT

-105

3.96

tTGAAAtTCtTTaTCgc

-99

4.05

395164

fepA-feoA2-feoB2

Outer membrane receptor, Fe-transporter

cTGAtAAaGAaacTCAc

105

3.87

AaGAAAcTCAcTaTCAg

111

4.05


*Position relative to the start of translation. Lower case letters represent positions that do not conform to the consensus sequence. Multiple tandem sites in one regulatory region are shown in bold.

Rodionov et al. Genome Biology 2004 5:R90   doi:10.1186/gb-2004-5-11-r90

Open Data