an oxidized electron donor

a reduced electron donor

a deaminated amino group acceptor

an aminated amino group acceptor

Charged-LEU-tRNAs

LEU-tRNAs

a 2-oxo acid

an amino acid

an acyl-CoA

a carboxylate

an oxidized ferredoxin [iron-sulfur] cluster

a reduced ferredoxin [iron-sulfur] cluster

NAD(P)H

NAD(P)+

an L-tyrosyl-[tRNAtyr]

a tRNAtyr

(2Z,4Z)-2-hydroxy-5-carboxymuconate-6-semialdehyde

4α,14α-dimethyl-porifersta-8,25(27)-dienol

2-amino-4,5-dihydroxy-6-oxo-7-(phosphooxy)heptanoate

4-methylcyclohex-1,5-diene-1-carbonyl-CoA

isoshowacene

2-hydroxyhexadecanal

16-sinapoyloxypalmitate

3-methylquinolin-2-ol

(22R)-hydroxycholesterol

N-(2-methylpropyl)hydroxylamine

chloroeremomycin

3-hydroxy-3-methylbutanoate

2',3',4'-O-methyl-rhamnosyl tetracyclic spinosyn pseudoaglycone

2',3'-O-methyl-rhamnosyl tetracyclic spinosyn pseudoaglycone

2'-O-methyl-rhamnosyl tetracyclic spinosyn pseudoaglycone

rhamnosyl tetracyclic spinosyn pseudoaglycone

rhamnosyl tricyclic spinosyn pseudoaglycone

spinosyn tricyclic macrolactone

11-dehydro-15-oxo spinosyn macrolactone

15-oxo spinosyn macrolactone

spinosyn macrolactone

diethylamine N-oxide

triethylamine N-oxide

UDP-2-acetamido-2-deoxy-α-D-ribo-hex-3-uluronate

nitroxyl

trans,octacis-decaprenylphospho-β-D-arabinofuranose

1,3-dihydro-2H-imidazol-2-one

2-phenylethyl β-D-glucopyranoside

formyl hopane

ribosyl hopane

adenosyl hopane

(2Z)-2-hydroxypenta-2,4-dienoate

(2S,4S)-4-hydroxy-2,3,4,5-tetrahydrodipicolinate

(2Z)-2,4-dihydroxypent-2-enoate

(2E,7Z,10Z,13Z,16Z,19Z)-docosahexaenoyl-CoA

(3R,5Z,8Z,11Z,14Z,17Z)-3-hydroxydocosapentaenoyl-CoA

(5Z,8Z,11Z,14Z,17Z)-3-oxodocosapentaenoyl-CoA

(+)-3'-hydroxylarreatricin

(+)-larreatricin

2-trans,4-trans-xanthoxin

H₂O

CO₂

3-methyl-2-oxobutanoate

phosphoenolpyruvate

5'-phosphoribosyl-4-(N-succinocarboxamide)-5-aminoimidazole

5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate

3-dehydroshikimate

shikimate

oxaloacetate

shikimate 3-phosphate

4-amino-4-deoxychorismate

β-D-ribosylnicotinate

β-nicotinate D-ribonucleotide

1,4-dihydroxy-2-naphthoyl-CoA

4-(2'-carboxyphenyl)-4-oxobutyryl-CoA

(S)-dihydroorotate

glycerone phosphate

carbamoyl phosphate

α-D-glucosamine 1-phosphate

N¹-(5-phospho-β-D-ribosyl)glycinamide

5-phospho-β-D-ribosylamine

(lipoyl)adenylate

5-amino-1-(5-phospho-β-D-ribosyl)imidazole

2-C-methyl-D-erythritol-2,4-cyclodiphosphate

(E)-4-hydroxy-3-methylbut-2-en-1-yl diphosphate

DNA without lesion

coproporphyrinogen III

1,4-dihydroxy-2-naphthoate

3-deoxy-α-D-manno-2-octulosonate

α-D-galactosyl-(1,3)-β-D-galactosyl-(1,4)-N-acetyl-D-glucosamine

β-D-galactosyl-(1→4)-N-acetyl-D-glucosamine

norspermidine

carboxynorspermidine

nicotinate adenine dinucleotide

lipid IV_A

lipid A disaccharide (E. coli)

xanthine

thiamine diphosphate

thiamine phosphate

4-amino-2-methyl-5-(diphosphooxymethyl)pyrimidine

(2S)-2-amino-3-oxo-4-phosphooxybutanoate

3-amino-1-hydroxyacetone 1-phosphate

4-phosphooxy-L-threonine

prenyl diphosphate

(S)-2-amino-6-oxohexanoate

1,6-anhydro-N-acetyl-β-muramate

N-acetyl-β-D-glucosamine-1,6-anhydro-N-acetyl-β-D-muramate

2-dehydropantoate

2-(formamido)-N¹-(5-phospho-β-D-ribosyl)acetamidine

orotidine 5'-phosphate

glycolate

carboxyphosphate

4-methyl-2-oxopentanoate

(S)-3-methyl-2-oxopentanoate

N²-formyl-N¹-(5-phospho-β-D-ribosyl)glycinamide

3-deoxy-D-manno-octulosonate 8-phosphate

(4Z)-2-oxohept-4-enedioate

(2Z,4Z)-2-hydroxyhepta-2,4-dienedioate

isopentenyl diphosphate

2,5-didehydro-D-gluconate

2-keto-D-gluconate

4'-phosphopantetheine

(R)-4'-phosphopantothenoyl-L-cysteine

2-dehydro-3-deoxy-D-gluconate 6-phosphate

2-dehydro-3-deoxy-D-gluconate

3-(O-geranylgeranyl)-sn-glycerol 1-phosphate

4-prenylphlorisobutyrophenone

3-dehydroquinate

2-C-methyl-D-erythritol 4-phosphate

2,5-diamino-6-(5-phospho-D-ribosylamino)pyrimidin-4(3H)-one

lipid X

hydrogen peroxide

4-chloro-2-methyl-cis,cis-muconate

4-methylmuconolactone

2-chloro-4-methyl-cis,cis-muconate

(2R)-2-chloro-2,5-dihydro-5-oxofuran-2-acetate

2-succinylbenzoate

3-deoxy-D-arabino-heptulosonate 7-phosphate

1-piperideine 6-carboxylate

aminoacetone

1,2-dihydro-β-NADP

enol-phenylpyruvate

ammonia

(R)-pantothenate

hydroxypyruvate

3-phosphooxypyruvate

O-acetyl-L-serine

5-amino-6-(D-ribitylamino)uracil

(R)-4'-phosphopantothenate

5-enolpyruvoyl-shikimate 3-phosphate

pyrazine-2-carboxylate

acetyl phosphate

1-deoxy-L-glycero-tetrulose 4-phosphate

N-carbamoylputrescine

2-maleylacetate

D-gluconate 6-phosphate

6-phospho D-glucono-1,5-lactone

N⁵-carboxyaminoimidazole ribonucleotide

N-acetyl-D-muramate 6-phosphate

isochorismate

(1R,6R)-6-hydroxy-2-succinylcyclohexa-2,4-diene-1-carboxylate

2-succinyl-5-enolpyruvoyl-6-hydroxy-3-cyclohexene-1-carboxylate

glutathione disulfide

quinolinate

L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine

D-alanyl-D-alanine

L-alanyl-γ-D-glutamyl-meso-diaminopimelate

L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanine

carbamate

glycine

L-aspartate

L-glutamate

L-glutamine

L-phenylalanine

L-tryptophan

L-serine

L-alanine

L-isoleucine

L-valine

L-leucine

L-tyrosine

L-threonine

L-cysteine

L-methionine

S-adenosyl-L-methionine

L-aspartate 4-semialdehyde

S-adenosyl-L-homocysteine

L-homoserine

meso-diaminopimelate

L-2-amino-3-oxobutanoate

L-aspartyl-4-phosphate

L-saccharopine

N-carbamoyl-L-aspartate

3-phospho-L-serine

D-alanine

D-glutamate

β-alanine

4-aminobenzoate

acetate

orotate

(R)-pantoate

pristanate

octanoate

palmitate

stearate

laurate

7-hydroxylaurate

decanoate

18-hydroxyoleate

16-hydroxypalmitate

18-hydroxystearate

1-cis-vaccenoyl-2-palmitoleoyl-sn-glycerol-3-phosphate

1-myristoyl-2-palmitoleoyl-sn-glycerol 3-phosphate

1-palmitoyl-2-palmitoleoyl-sn-glycerol 3-phosphate

1-palmitoyl-2-cis-vaccenoyl phosphatidate

1,2-dicis-vaccenoyl-phosphatidate

(15Z)-tetracosenoate

oleate

phytenate

linoleate

α-linolenate

(R)-lactate

(R)-glycerate

pyruvate

formate

2-oxoglutarate

2-oxobutanoate

3-phenyl-2-oxopropanoate

3-oxoadipate

chorismate

3-methyl-cis,cis-muconate

α,ω-9Z-octadecenedioate

fumarate

succinate

(S)-malate

nicotinamide

5-formamido-1-(5-phospho-D-ribosyl)-imidazole-4-carboxamide

5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxamide

5-amino-4-imidazolecarboxyamide

pyrazinamide

phlorisovalerophenone

α-Kdo-(2→6)-lipid IV_A

all-trans-retinal

β-carotene

15,15'-dihydroxy-β-carotene

β-carotene 15,15' epoxide

trans,octacis-decaprenyl phosphate

(2E,6E)-farnesyl diphosphate

geranyl diphosphate

4-prenylphlorisovalerophenone

deoxycohumulone

deoxyhumulone

1-(β-D ribofuranosyl)nicotinamide

1-O-acetyl-α-maltose

decaprenyl-diphospho-N-acetylmuramoyl-pentapeptide

dTDP-4-dehydro-6-deoxy-α-D-glucopyranose

GDP-4-dehydro-α-D-rhamnose

GDP-α-D-mannose

GDP-β-L-fucose

2-phospho-4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol

4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol

CDP-α-D-glucose

dTDP-α-D-glucose

dTDP-4-dehydro-β-L-rhamnose

dTDP-β-L-rhamnose

UDP-3-O-[(3R)-3-hydroxymyristoyl]-N-acetyl-α-D-glucosamine

UDP-α-D-galactofuranose

UDP-α-D-galactose

UDP-N-acetyl-α-D-glucosamine-enolpyruvate

UDP-N-acetyl-α-D-muramate

UDP-α-D-glucuronate

UDP-α-D-glucose

UDP-2-N,3-O-bis[(3R)-3-hydroxytetradecanoyl]-α-D-glucosamine

UDP-3-O-(3-hydroxymyristoyl)-α-D-glucosamine

UDP-N-acetyl-α-D-muramoyl-L-alanyl-D-glutamate

UDP-N-acetyl-α-D-muramoyl-L-alanine

UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysine

UDP-N-acetyl-α-D-glucosamine

UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimelate

UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine

UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysyl-D-alanyl-D-alanine

UDP-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-L-lysyl-D-alanine

CMP-3-deoxy-β-D-manno-octulosonate

5-phospho-α-D-ribose 1-diphosphate

D-sedoheptulose 7-phosphate

D-erythrose 4-phosphate

α-D-galactose 1-phosphate

α-D-glucopyranose 1-phosphate

N-acetyl-α-D-glucosamine 1-phosphate

β-D-fructofuranose 1-phosphate

β-D-glucopyranose 1-phosphate

β-D-fructose 1,6-bisphosphate

β-D-fructofuranose 6-phosphate

D-fructose 6-phosphate

β-D-glucose 6-phosphate

α-D-glucose 6-phosphate

5-fluoro-5-deoxy-D-ribose 1-phosphate

α-D-ribose-1-phosphate

2-deoxy-α-D-ribose 1-phosphate

1-deoxy-D-xylulose 5-phosphate

D-xylulose 5-phosphate

D-arabinofuranose 5-phosphate

aldehydo-D-arabinose 5-phosphate

aldehydo-D-ribose 5-phosphate

α-D-ribose 5-phosphate

β-D-ribose 5-phosphate

D-ribulose 5-phosphate

D-glyceraldehyde 3-phosphate

undecaprenyldiphospho-N-acetylmuramoyl-L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine

undecaprenyl-diphospho-N-acetylmuramoyl-L-alanyl-γ-D-glutamyl-L-lysyl- D-alanyl-D-alanine

a peptidoglycan dimer (E. faecium, tetrapeptide)

a peptidoglycan dimer (S. aureus)

a peptidoglycan dimer (E. faeciums)

undecaprenyl-diphospho-N-acetylmuramoyl-L-alanyl-γ-D-glutamyl-L-lysyl- D-alanine

GlcNAc-1,6-anhMurNAc-L-Ala-γ-D-Glu-DAP-D-Ala

ditrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-γ-D-isoglutaminyl-N-(β-D-asparaginyl)-L-lysyl-D-alanine

ditrans,octacis-undecaprenyldiphospho-[(N-acetyl-β-D-glucosaminyl)-(1,4)-]-N-acetyl-α-D-muramoyl-L-alanyl-γ-D-glutamyl-meso-2,6-diaminopimeloyl-D-alanyl-D-alanine

ditrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-γ-D-isoglutaminyl-L-lysyl-(glycyl)₅-D-alanyl-D-alanine

ditrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetylglucosaminyl)muramoyl-L-alanyl-γ-D-isoglutaminyl-N-(β-D-asparaginyl)-L-lysyl-D-alanyl-D-alanine

a peptidoglycan dimer with pentapeptide stem (meso-diaminopimelate containing)

a peptidoglycan dimer with pentapeptide stems (meso-diaminopimelate containing)

β-D-fructofuranose

D-glyceraldehyde

α-D-galactopyranose

β-D-galactopyranose

β-D-glucopyranose

α-D-glucopyranose

α-D-ribofuranose

N-acetylmuramate

N-acetyl-α-D-muramoyl-L-alanine(1-)

N-acetyl-β-D-mannosamine

N-acetyl-β-D-glucosamine

N-acetyl-β-neuraminate

sucrose

maltopentaose

maltohexaose

maltotriose

maltotetraose

maltoheptaose

stachyose

raffinose

4,5-dichlorobenzene-1,2-diol

4,6-dichloro-3-methylcatechol

3,6-dichloro-4-methylcatechol

5-chloro-3-methylcatechol

3,4-dichloro-6-methylcatechol

ethanol

di-trans,octa-cis-undecaprenyl phosphate

di-trans,octa-cis-undecaprenyl diphosphate

all-trans-octaprenyl diphosphate

geranylgeranyl diphosphate

1-oleoyl-2-palmitoyl-phosphatidylglycerol

phosphatidylglycerophosphate (1-octadecenoyl(9Z), 2-palmitoyl)

1-palmitoyl-2-myristoyl phosphatidate

1,2-dimyristoyl-sn-glycerol 3-phosphate

1-[18-hydroxyoeoyl]-2-[18-hydroxy-lioleoyl]-sn-glycerol 3-phosphate

dioleoyl phosphatidate

1-cis-vaccenoyl-sn-glycerol-3-phosphate

1-palmitoyl-sn-glycerol 3-phosphate

1-myristoyl-sn-glycerol 3-phosphate

1-(18-hydroxyoleoyl)-sn-glycrol 3-phosphate

1-oleoyl-sn-glycerol 3-phosphate

adenine

guanine

IMP

AMP

XMP

GMP

GTP

ATP

GDP

ADP

dGDP

dADP

dATP

dGTP

hypoxanthine

xanthosine

guanosine

inosine

adenosine

2'-deoxyinosine

2'-deoxyguanosine

2'-deoxyadenosine

tetrahydromethanopterin

[1-(2-amino-7-methyl-4-oxo-7,8-dihydro-3H-pteridin-6-yl)]ethyl diphosphate

2-amino-6-[1-hydroxyethyl]-7-methyl-7,8-dihydropterin

(7,8-dihydropterin-6-yl)methyl diphosphate

6-(hydroxymethyl)-7,8-dihydropterin

7,8-dihydropteroate

5,10-methylene-tetrahydromethanopterin

7,8-dihydrofolate monoglutamate

riboflavin

6,7-dimethyl-8-(1-D-ribityl)lumazine

uracil

preQ₁

isoguanine

uridine 2'3'-cyclic monophosphate

cytidine 2',3'-cyclic monophosphate

CTP

UTP

dUMP

dUTP

CDP

dCDP

UDP

dUDP

dTMP

dTTP

cytidine-3'-monophosphate

uridine 3'-monophosphate

dCMP

dCTP

dTDP

UMP

CMP

uridine

cytidine

2'-deoxyuridine

2'-deoxycytidine

thymidine

precorrin-2

precorrin-1

coenzyme A

(R)-lipoate

adenosine 2',3'-cyclic monophosphate

guanosine 2',3'-cyclic monophosphate

adenylo-succinate

ppGpp

pppGpp

5'-deoxyadenosine

guanosine 3'-monophosphate

adenosine 3'-monophosphate

5-chloro-5-deoxyribose 1-phosphate

5'-chloro-5'-deoxyadenosine

8-oxo-GTP

8-oxo-dGTP

cyclic-AMP

2-methylsulfanyl-N⁶-dimethylallyladenosine³⁷ in tRNA

2-sulfanyl-N⁶-dimethylallyladenosine³⁷ in tRNA

β-nicotinamide D-ribonucleotide

5-hydroxy-CMP

5-hydroxy-CTP

2-hydroxy-dATP

cyclic di-3',5'-guanylate

NADP⁺

NAD⁺

NADPH

NADH

5'-deoxy-5'-fluoroadenosine

urate

menadiol

caldariellaquinol

3-demethylubiquinol-8

demethylmenaquinol-8

menaquinol-8

ubiquinol-8

(1R,2S)-4,6-dichloro-3-methylcyclohexa-3,5-diene-1,2-diol

2,4-dichlorotoluene

2,5-dichlorotoluene

(1R,2S)-3,6-dichloro-4-methylcyclohexa-3,5-diene-1,2-diol

3,4-dichlorotoluene

(1R,2S)-3,4-dichloro-6-methylcyclohexa-3,5-diene-1,2-diol

indole

(1S,2R)-1-C-(indol-3-yl)glycerol 3-phosphate

acetaldehyde

menadione

caldariellaquinone

(S)-NADHX

(R)-NADHX

nicotinate

thiamine

pyridoxamine 5'-phosphate

pyridoxamine

pyridoxine 5'-phosphate

pyridoxine

pyridoxal 5'-phosphate

pyridoxal

acetyl-CoA

isobutanoyl-CoA

succinyl-CoA

α-linolenoyl-CoA

linoleoyl-CoA

3'-dephospho-CoA

oleoyl-CoA

ω-carboxy-(9Z)-octadec-9-enoyl-CoA

16-hydroxypalmitoyl-CoA

palmitoleoyl-CoA

palmitoyl-CoA

stearoyl-CoA

myristoyl-CoA

cis-vaccenoyl-CoA

18-hydroxyoleoyl-CoA

18-hydroxystearoyl-CoA

pristanoyl-CoA

octanoyl-CoA

lauroyl-CoA

7-hydroxylauroyl-CoA

decanoyl-CoA

propanoyl-CoA

(Z)-15-tetracosenoyl-CoA

18-hydroxylinoleoyl-CoA

phytenoyl-CoA

(S)-methylmalonyl-CoA

(+)-2-chloromuconolactone

(+)-5-chloromuconolactone

2-(2-chloro-4-methyl-5-oxofuran-2-yl)acetate

2-chloro-4-methyl-cis-dienelactone

2,5-dichloro-3-methyl-muconolactone

3,6-dichloro-3a-methyl-dihydro-3H-furo[3,2-b]furan-2,5-dione

3,5-dichloro-2-methyl-muconolactone

5-chloro-3-methyl-cis-dienelactone

2,5-dichloro-4-methyl-muconolactone

trans-dienelactone

cis-dienelactone

5-chloro-trans-dienelactone

3-chloro-2-methyl-dienelactone

2-chloro-5-methyl-dienelactone

2-chloro-3-methyl-dienelactone

2-methyl-cis-dienelactone

2-methyl-trans-dienelactone

5-chloro-2-methyl-dienelactone

glutathione

3-sulfopyruvate

L-cysteate

2-(2-carboxy-4-methylthiazol-5-yl)ethyl phosphate

2-[(2R,5Z)-2-carboxy-4-methylthiazol-5(2H)-ylidene]ethyl phosphate

4-methyl-5-(2-phosphooxyethyl)thiazole

agmatine

(2Z)-2-aminobut-2-enoate

2-aminoprop-2-enoate

2-iminopropanoate

superoxide

hydroxyl radical

hydrogencarbonate

OH^-

chloride

phosphonate

phosphate

diphosphate

Fe³⁺

Mg²⁺

Fe²⁺

Zn²⁺

H⁺

ammonium

2-chloroacetate

2-chloro-cis,cis-muconate

2,3-dichloro-5-methyl-muconate

2-chloro-2-(2-chloro-4-methyl-5-oxofuran-2-yl)acetate

3,5-dichloro-2-methyl-muconate

2-(2,4-dichloro-5-oxofuran-2-yl)propanoate

2,5-dichloro-3-methyl-muconate

2,3-dichloro-cis,cis-muconate

2-chloro-2-(2-chloro-5-oxofuran-2-yl)acetate

3-chloro-cis,cis-muconate

5-chloromaleylacetate

3-chloro-2-methyl-maleylacetate

2-chloro-5-methyl-maleylacetate

2-chloro-3-methyl-maleylacetate

5-chloro-2-methyl-maleylacetate

preQ₀

α-D-glucosamine 6-phosphate

ω-saturated C55 dolichol phosphate

3-phospho-D-glyceroyl-phosphate

3-phospho-D-glycerate

2-phospho-D-glycerate

sn-glycerol 1-phosphate

sn-glycerol 3-phosphate

β-D-mannosyl-(C55 ω-saturated dolichyl phosphate)

2-iminobutanoate

2-iminosuccinate

oxygen

hydrogen sulfide

protoporphyrinogen IX

Mg-protoporphyrin

protoporphyrin IX

uroporphyrinogen-III

protoheme

ethylphosphate

DNA with lesion