Supplemental text


glycine dehydrogenase (decarboxylating) 1.4.4.2



Yüklə 0,98 Mb.
səhifə18/22
tarix03.01.2022
ölçüsü0,98 Mb.
#34516
1   ...   14   15   16   17   18   19   20   21   22
glycine dehydrogenase (decarboxylating) 1.4.4.2

no

no

no

lpdA

dihydrolipoate dehydrogenase



HS_1093


HD1623

HI1231

gcvH

lipoyl protein

no

no

no

gcvT

aminomethyltransferase 2.1.2.10

no

no

no

R. Serine degradation



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

L-serine to pyruvate










sdaB

L-serine deaminase 2 4.3.1.17

no

HD1142

HI0288

sdaA

L-serine deaminase 1

no

no

no

sdhY

L-serine deaminase 3

no

no

no

S. Alanine degradation



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

L-alanine to pyruvate










alanine dehydrogenase

1.4.1.1


HS_0232

HD1663

HI1362

T. Proline degradation



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

L-proline to L-glutamate










putA

proline dehydrogenase 1.5.99.8/Delta-1-pyrroline-5-carboxylate dehydrogenase 1.5.1.12



no

no

no

U. Phenylalanine degradation



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

L-phenylalanine to L-tyrosine










phhA phenylalanine-4-hydroxylase

1.14.16.1



no

no

no

V. Tyrosine degradation



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

phhC/tyrB

tyrosine aminotransferase 2.6.1.5



no

no

no

hppD

4-hydroxyphenylpyruvate dioxygenase 1.13.11.27

no

no

no

W.Tryptophan degradation



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

L-tryptophan to pyruvate










tnaA

tryptophanase



HS_0801

no

no

L-tryptophan to tryptamine










aromatic L-amino acid decarboxylase

no

no

no

L-tryptophan to indole-3-acetate










key enzyme: indolepyruvate carboxylase

no

no

no

L-tryptophan to anthranilate










tryptophan 2,3-dioxygenase 1.13.11.11

no

no

no

Table S7. Nucleotide metabolism



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

purA

adenylosuccinate synthetase



HS_1328

HD1807

HI1633

purB

adenylosuccinate lyase



HS_1593

HD1649

HI0639

purC

phosphoribosylaminoimidazole-succinocarboxamide synthase (SAICAR synthetase)



HS_1364

HD0251N-terminal

HD0252 C-terminal



HI1726

purD

phosphoribosylamine--glycine ligase



HS_1626

HD1042 C-terminal

HD1043 N-terminal



HI0888

purE

phosphoribosylaminoimidazole carboxylase (AIR carboxylase)



HS_0672

HD1424

HI1615

purF

amidophosphoribosyltransferase



HS_0916

HD1210 C-terminal

HD1209 N-terminal



HI1207

purH

phosphoribosylaminoimidazolecarboxamide formyltransferase



HS_1625

HD1703 N-terminal

HD1702 N-terminal



HI0887

purK

phosphoribosylaminoimidazole carboxylase, ATPase subunit



HS_0839

HD1421 C-terminal

HD1423 N-terminal



HI1616

purL

phosphoribosylformylglycinamidine synthase



HS_1503

HD2008 N-terminal

HD2009 central region

HD2010 C-terminal


HI0752

purM

phosphoribosylformylglycinamidine cyclo-ligase



HS_1551

HD0561

HI1429

purN

phosphoribosylglycinamide formyltransferase



HS_0913

HD0548

HI1428

purR

purine nucleotide synthesis repressor



HS_1032

HD1641

HI1635

purT

phosphoribosylglycinamide formyltransferase 2



HS_0549

HD0548

no – but this enzyme is redundant with purN

purU

formyltetrahydrofolate deformylase



HS_0786

no

HI1588

guaA

GMP synthase, glutamine-hydrolyzing (glutamine amidotransferase)



HS_0421

HD1504

HI0222

guaB

IMP dehydrogenase (inosine-5'-monophosphate dehydrogenase)



HS_0420

HD1503

HI0221

guaC

GMP reductase [Escherichia coli]



no

no

no

adk

adenylate kinase



HS_0648

HD0826


HI0349


gmk
guanylate kinase

HS_1457

HD1830


HI1743


ndk

nucleoside-diphosphate kinase



HS_0387

HD1053


HI0876


nrdA

ribonucleoside diphosphate reductase 1, alpha subunit



HS_1196


HD1731


HI1659


nrdB

ribonucleoside-diphosphate reductase 1, beta subunit



HS_0961


HD1732


HI1660


nrdE

ribonucleoside-diphosphate reductase 2, alpha subunit



no

no

no

nrdF

ribonucleoside-diphosphate reductase 2, beta subunit



no

no

no

carA/pyrA

carbamoyl phosphate synthetase, glutamine amidotransferase small subunit



no

HD0235



no

carB

carbamoyl phosphate synthase, large subunit



no

HD0233



no

pyrB

aspartate carbamoyltransferase, catalytic subunit



no

no


no


pyrC

dihydro-orotase



no

no

no

pyrD

dihydroorotate dehydrogenase



no

HD1626

HI1401

pyrE

orotate phosphoribosyltransferase



no

HD1759

HI0272

pyrF

orotidine 5`-phosphate decarboxylase



no

HD1356

HI1224

pyrG

CTP synthase (UTP--ammonia ligase)



HS_0552

HD0373

HI1077

pyrH

uridylate kinase



HS_0987

HD1597


HI1065

pyrI

aspartate carbamoyltransferase, regulatory subunit



no

no

no

pyrR

pyrimidine operon regulatory protein / uracil phosphoribosyltransferase



HS_1561

HD1178

HD1181


HI0459

Table S8. Genes involved in TCA cycle, Embden-Meyerhof, pentose phosphate, Entner-Doudoroff, ubiquinone/menaquinone biosynthesis and fermentation pathways in H. somnus 129Pt, H. ducreyi 35000HP and H. influenzae Rd.



TCA cycle

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

aceE

pyruvate dehydrogenase E1 component



HS_1095


HD1625


HI1233

aceF

pyruvate dehydrogenase, E2 complex



HS_1094


HD1624


HI1232

lpdA

pyruvate dehydrogenase multienzyme complex, E3



HS_1093


HD1623


HI1231


gltA

citrate synthase



HS_0960

no

no

acnA

aconitase



no

no

no

acnB

aconitate hydratase2



HS_1270


no

no

icd

isocitrate dehydrogenase



no

no

no

sucA

alpha ketoglutarate dehydrogenase



HS_0959


HD1336


HI1662


sucB

alpha ketoglutarate dehydrogenase, dihydrolipoamide succinyltransferase component



HS_0958


HD1334


HI1661


sucC

succinyl-CoA synthetase beta chain



HS_0957


no

HI1196


sucD

succinyl-CoA synthetase alpha chain



HS_0956


no

HI1197


sdhA

succinate dehydrogenase flavoprotein subunit



no

no

no

sdhB

succinate dehydrogenase iron-sulfur protein



no

no

no

sdhC

succinate dehydrogenase cytochrome b-556 subunit



no

no

no

sdhD

succinate dehydrogenase hydrophobic membrane anchor protei



no

no

no

fumA

fumarase



no

no

no

fumB

fumarate hydratase class I, anaerobic



no

no

no

fumC

fumarate hydratase class II



HS_1102


HD1986


HI1398

mdh

malate dehydrogenase



HS_1055


HD0264


HI1210

malate dehydrogenase, FAD/NAD(P)-binding domain

no

HD0165

no

frdA

fumarate reductase, flavoprotein subunit



HS_1277


HD0030


HI0835


frdB

fumarate reductase, iron-sulfur protein



HS_1278


HD0032


HI0834

frdC

fumarate reductase 15 kDa hydrophobic protein



HS_1279


HD0033


HI0833


frdD

fumarate reductase, 13 kDa hydrophobic protein



HS_1280


HD0034


HI0832


Embden-Meyerhof










glk

hexokinase (glucokinase)



HS_0379

no

no

putative glucokinase from Streptomyces coelicolor A3

NP_624417



no

no

HI0144


glucokinase from Streptomyces coelicolor A3

NP_626383



HS_1041

ROK


no

HI0182


pfkA

6-phosphofructokinase I



HS_0485


HD0465


HI0982

pfkB

6-phosphofructokinase II



no

no

no

fruK

1-phosphofructokinase



no

no


HI0447

fba

fructose bisphosphate aldolase



HS_0206


HD0864


HI0524

pgi

glucose 6-phosphate isomerase



HS_0938


HD0418


HI1576

tpiA

triosephosphate isomerase



HS_1591


HD0762


HI0678

gap

glyceraldehyde 3-phosphate dehydrogenase



HS_1466


HD1291


HI0001

pgk

phosphoglycerate kinase



HS_0207


HD0865


HI0525

gpmA

phosphoglycerate mutase 1



HS_1445


HD1659


HI0757


gpmB

phosphoglycerate mutase 2



HS_1664


no

no

eno

enolase


HS_0561


HD0477


HI0932

pyk

pyruvate kinase II



HS_1086


HD0446


HI1573

ldhA

fermentative D-lactate dehydrogenase, NAD-dependent



no



no

HI0085


dld

D-lactate dehydrogenase, FAD protein, NADH independent



HS_0784


no

HI1649


lldD/lctD

L-lactate dehydrogenase



no

HD0084


HI1739.1


ptsG

PTS system, glucose-specific IIABC component



no

no

no

crr

PTS system, glucose-specific enzyme II, A component



HS_1096


HD0227


HI1711

Pentose Phosphate










zwf

glucose 6-phosphate 1-dehydrogenase



HS_1651


HD0838


HI0558


pgl

6-phosphogluconolactonase



HS_1652


HD0836


HI0556


gnd

6-phosphogluconate dehydrogenase, decarboxylating



HS_1654


HD0833


HI0553


rpiA

ribose 5-phosphate isomerase A, constitutive



HS_0123


HD0199


HI0464

rpiB

ribose 5-phosphate isomerase B, inducible



no

no

no

rpe

ribulose phosphate 3-epimerase



HS_0175

HS_0057


HD1929


HI0566


tktA

transketolase I



HS_0551

HD1723

HI1023

tktB

transketolase II



no

no

no

talA

transaldolase A



no

no

no

talB

transaldolase B



HS_0204

HD0310

HI1125

Entner-Doudoroff










edd

phosphogluconate dehydratase



HS_0342

no

HI0738

eda

oxaloacetate decarboxylase



HS_1603

no

HI0047

Ubiquinone biosynthesis










ubiA

4-hydroxybenzoate-octaprenyltransferase



HS_0159


HD1647


no

ubiB

NADPH:flavin oxidoreductase



HS_0544

HD0717

no

ubiC

chorismate lyase



HS_0150


no

no

ubiD

3-octaprenyl-4-hydroxybenzoate carboxy-lyase



HS_0474


HD0197

no

ubiE

ubiquinone/menaquinone biosynthesis methyltransferase



HS_0542


HD0719

no

ubiH

2-octaprenyl-6-methoxyphenol hydroxylase



HS_0681

HD0579


no

ubiX

3-octaprenyl-4-hydroxybenzoate carboxy-lyase



HS_0915

HD1360


no

ubiG

3-demethylubiquinone 3-methyltransferase / 2-octaprenyl-6-hydroxyphenol methylase



HS_1162


HD1750


no

ubiF

2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinone hydroxylase



HS_1156


HD1874


no

menaquinone biosynthesis










menA

1,4-dihydroxy-2-naphthoate octaprenyltransferase



HS_0221

HD0683

HI0509


menB

dihydroxynaphthoic acid synthase



HS_0562

HD1925

HI0968

menC

o-succinylbenzoate-CoA synthase (OSB synthase)



HS_0563

HD1055

HI0969

menD

2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase



HS_0617

HD1853

HI0283

menE

O-succinylbenzoate-CoA synthase



HS_1207

HD1271

HI0194

menF

menaquinone-specific isochorismate



HS_0618

HD0621

HI0285

entC

isochorismate synthase, enterobactin specific



no

no

no

menG

S-adenosylmethionine:2-demethylmenaquinone methyltransferase



HS_0220

HD0166

HI0508

chorismate biosynthesis (shikimate pathway)










aroA

3-phosphoshikimate-1-carboxyvinyltransferase



HS_0613

HD1383

HI1589

aroB

3-dehydroquinate synthase



HS_1114

HD0422

HI0208

aroC

3-dehydroquinate dehydratase (chorismate synthase)



HS_1205

HD1274


HI0196

aroD

3-dehydroquinate dehydratase



no

no

no

aroE

5-enolpyruvoylshikimate-3-phosphate synthase



HS_0006


HD0415


HI0655

HI0607



aroF

3-deoxy-D-arabinoheptulosonate-7-phosphate synthase (DAHP synthetase)/

chorismate synthase


no


HD0444



no


aroG

2-dehydro-3-deoxyphosphoheptonate aldolase// 3-deoxy-D-arabinoheptulosonate-7-phosphate synthase (DAHP synthetase, phenylalanine repressible)



HS_0941


HD1475



HI1547


aroH

2-dehydro-3-deoxyphosphoheptonate aldolase



no

no

no

aroK

shikimate kinase I



HS_1113


HD0423


HI0207


aroL

shikimate kinase II



no

no

no

Fermentation










pyruvate to D-lactate










ldhA

D-lactate dehydrogenase



HS_0945


no

HI0085

dld

D-lactate dehydrogenase



HS_0784


no

HI1649


pyruvate to L-lactate










lldD

L-lactate dehydrogenase



no

HD0084

HI1739.1

pyruvate to formate and acetyl-CoA










pflB

formate acetyltransferase 1




HS_1136


HD0990


HI0180


acetyl-CoA to acetate










pta

phosphate acetyltransferase



HS_0802

HD1457

HI1203

ackA

acetate kinase A



HS_0803


HD1456


HI1204


acetyl-CoA to ethanol










adhE

acetaldehyde/alcohol dehydrogenase



no

no

no

Table S9. NAD biosynthesis and salvage

A. de novo pathway

Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

nadA

quinolinate synthetease A



no

no

no

nadB

L-aspartate oxidase



no

no

no

nadC

quinolinate phosphoribosyl transferase




no

no

no

nadD

NAMN adenylyltransferase




no

no

no

nadE

NAD synthetase, prefers NH3 over glutamine




no

no

no

B. salvage pathway (from MetaCyc (8))



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

NAD salvage pathway II










nadR

bifunctional protein: NMN adenylyltransferase; ribosylnicotinamide

kinase


HS_0087

HD0274

C-terminal fragment

HD0275

N-terminal fragment



HI0763

NAD salvage pathway I










NAD(+) nucleosidase

3.2.2.5


no

no

no

nudC

NADH pyrophosphatase



no

no

possibly HI0432 conserved hypothetical protein

47% aa identity



pncA

nicotinamidase and pyrazinamidase



no

no

no

pncB

nicotinate phosphoribosyltransferase



no

no

no

C. Nicotinate phosphoribosyltransferase pathway:



Gene

H. somnus 129Pt

H. ducreyi 35000HP

H. influenzae Rd

nadV

nicotinate phosphoribosyltransferase



HS_0002


HD1447

no

2.7.7.1


Yüklə 0,98 Mb.

Dostları ilə paylaş:
1   ...   14   15   16   17   18   19   20   21   22




Verilənlər bazası müəlliflik hüququ ilə müdafiə olunur ©muhaz.org 2024
rəhbərliyinə müraciət

gir | qeydiyyatdan keç
    Ana səhifə


yükləyin