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

oxaloacetate

CO₂

xanthine

4'-phosphopantetheine

(2S)-2-isopropylmalate

3-methyl-2-oxobutanoate

citrate

S-methyl-5'-thioadenosine

S-adenosyl 3-(methylsulfanyl)propylamine

phosphoenolpyruvate

coproporphyrinogen III

acetoacetate

preuroporphyrinogen

porphobilinogen

5-aminolevulinate

(S)-4-amino-5-oxopentanoate

hydrogen peroxide

7-carboxy-7-deazaguanine

carbon monoxide

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

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

carbamoyl phosphate

thiamine phosphate

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

β-D-ribosylnicotinate

β-nicotinate D-ribonucleotide

propanoyl phosphate

(3R)-3-hydroxy-2-oxo-4 phosphooxybutanoate

2-dehydropantoate

(R)-pantothenate

DNA without lesion

glycolate

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

3-deoxy-α-D-manno-2-octulosonate

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

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

orotidine 5'-phosphate

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

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

4-methyl-2-oxopentanoate

(S)-3-methyl-2-oxopentanoate

dihydromethanophenazine

CoB-CoM heterodisulfide

methanophenazine

coenzyme B

H₂

adenosine 5'-phosphoselenate

adenosine 5'-phosphosulfate

3'-phosphoadenylyl-sulfate

quinolinate

glycerone phosphate

(S)-dihydroorotate

3-oxopropanoate

hydrogenobyrinate a,c-diamide

hydrogenobyrinate

(4,5-dihydro-5-oxofuran-2-yl)-acetate

(2-carboxy-2,5-dihydro-5-oxofuran-2-yl)-acetate

CDP-glycerol

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

nicotinate adenine dinucleotide

2-iminoacetate

(S)-5-amino-3-oxohexanoate

(indol-3 yl)acetyl-CoA

(indol-3-yl)pyruvate

butanoyl phosphate

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

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

(4-hydroxyphenyl)acetate

carboxyphosphate

acetyl phosphate

2-phosphoglycolate

phloretate

phloroglucinol

phloretin

1,6-anhydro-N-acetyl-β-muramate

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

5-phospho-β-D-ribosylamine

O-acetyl-L-serine

5-(methylsulfanyl)-ribulose 1-phosphate

S-methyl-5-thio-α-D-ribose 1-phosphate

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

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

formamide

α-ribazole 5'-phosphate

α-ribazole

quercitrin

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

prenyl diphosphate

4-prenylphlorisobutyrophenone

isopentenyl diphosphate

α-D-glucosamine 1-phosphate

N¹-(5-phospho-β-D-ribosyl)glycinamide

5-hydroxytryptophol glucuronide

5-hydroxytryptophol

cotinine-glucuronide

cotinine

L-thyroxine acyl β-D-glucuronide

N-acetyl-serotonin glucuronide

L-thyroxine phenolic β-D-glucuronide

nicotine-glucuronide

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

γ-L-glutamyl 5-phosphate

(3R,5S)-3-hydroxy-1-pyrroline-5-carboxylate

N-Formyl-L-kynurenine

imidazole acetol-phosphate

D-erythro-imidazole-glycerol-phosphate

methylsalicylate

salicyl alcohol

2-oxovalerate

3-ethylmalate

(2S)-2-isopropyl-3-oxosuccinate

(2R,3S)-3-isopropylmalate

(S)-2-aceto-2-hydroxybutanoate

(R)-2,3-dihydroxy-3-methylpentanoate

(S)-2-acetolactate

L-histidinol phosphate

N-succinyl-2-amino-6-ketopimelate

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

(2R,3S)-3-methylmalate

citraconate

2-isopropylmaleate

1,2,3,5-tetrahydroxybenzene

pyrogallol

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

(2Z,4E)-2-hydroxyhexa-2,4-dienedioate

3-hydroxypropanoate

(2S,3S)-2,3-dihydroxy-2,3-dihydrobenzoate

isochorismate

urea

oxalosuccinate

3-dehydroquinate

5-enolpyruvoyl-shikimate 3-phosphate

shikimate 3-phosphate

N-acetylglutamyl-phosphate

L-canavanine

canavaninosuccinate

L-arginino-succinate

O-ureido-L-homoserine

N-acetyl-L-glutamate 5-semialdehyde

5,6-dimethylbenzimidazole

anthranilate

N-(5-phosphoribosyl)-anthranilate

(R)-4'-phosphopantothenate

N-carbamoylputrescine

(S)-2-amino-6-oxohexanoate

N⁵-carboxyaminoimidazole ribonucleotide

3-amino-1-hydroxyacetone 1-phosphate

thiamine diphosphate

2-amino-3-carboxymuconate-6-semialdehyde

N-acetyl-D-muramate 6-phosphate

4-phosphooxy-L-threonine

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

3-dehydroshikimate

shikimate

N-succinyl-L,L-2,6-diaminopimelate

histidinal

histidinol

hydrogen selenide

glutathione disulfide

glutathioselenol

selenodiglutathione

1-piperideine 6-carboxylate

1,2-dihydro-β-NADP

ammonia

bisorganyltrisulfane

H₂O

L-cysteinylglycine

D-alanyl-D-alanine

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

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

hypoglycin B

carbamate

L-kynurenine

L-α-amino-ε-keto-pimelate

L-citrulline

glycine

L-serine

L-alanine

L-glutamate

L-aspartate

L-asparagine

L-leucine

L-glutamine

L-valine

L-isoleucine

L-proline

L-histidine

L-threonine

L-tryptophan

L-lysine

L-arginine

L-tyrosine

L-cysteine

L-methionine

S-adenosyl-L-methionine

L-homocysteine

S-adenosyl-L-homocysteine

O-succinyl-L-homoserine

L-homoserine

L-aspartate 4-semialdehyde

L-glutamate-5-semialdehyde

O-phospho-L-homoserine

hypoglycin A

L-ornithine

meso-diaminopimelate

L-aspartyl-4-phosphate

O-acetyl-L-homoserine

trans-4-hydroxy-L-proline

N-acetyl-L-glutamate

N-carbamoyl-L-aspartate

S-methyl-L-methionine

L,L-diaminopimelate

L-cystathionine

D-alanine

D-glutamate

β-alanine

3,5,3'-triiodo-L-thyronine

2,3-dihydroxybenzoate

salicylate

protocatechuate

acetate

(R)-pantoate

orotate

mycophenolate

5-chloro-5-deoxy-D-ribonate

(S)-1-pyrroline-5-carboxylate

butanoate

palmitate

laurate

stearate

(R)-lactate

pyruvate

formate

2-oxoglutarate

2-oxobutanoate

5-chloro-4-hydroxy-2-oxopentanoate

glyoxylate

3-oxoadipate

cis-aconitate

3-carboxy-cis,cis-muconate

D-threo-isocitrate

(3E)-2-oxohex-3-enedioate

chorismate

succinate

fumarate

(S)-malate

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

5-amino-4-imidazolecarboxyamide

phosphoribulosylformimino-AICAR-phosphate

1-(5-phospho-β-D-ribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide

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

phlorisovalerophenone

trans-3-hydroxycotinine-glucuronide

trans-3'-hydroxycotinine

glucosyl-(heptosyl)₃-glucosyluronate-Kdo₂-lipid A-phosphate

glucosyl-(heptosyl)₃-Kdo₂-lipid A-phosphate

all-trans-retinyl palmitate

all-trans-retinol

oleanolate 3 β-D-glucuronoside

oleanolate

trans,octacis-decaprenyl phosphate

(2E,6E)-farnesyl diphosphate

geranyl diphosphate

(S)-nicotine

4-prenylphlorisovalerophenone

deoxycohumulone

deoxyhumulone

3-octaprenyl-4-hydroxybenzoate

di-trans,octa-cis-undecaprenyl phosphate

di-trans,octa-cis-undecaprenyl diphosphate

geranylgeranyl diphosphate

1-(β-D ribofuranosyl)nicotinamide

decaprenyl-diphospho-N-acetylmuramoyl-pentapeptide

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

ADP-α-D-glucose

GDP-α-D-mannose

GDP-α-D-mannuronate

CDP-α-D-glucose

dTDP-4-dehydro-β-L-rhamnose

dTDP-β-L-rhamnose

dTDP-α-D-glucose

UDP-N-acetyl-α-D-muramoyl-L-alanine

UDP-N-acetyl-α-D-muramate

UDP-α-D-galactofuranose

UDP-α-D-galactose

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

UDP-β-L-threo-pentapyranos-4-ulose

UDP-4-amino-4-deoxy-β-L-arabinopyranose

UDP-α-D-glucose

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

UDP-α-D-glucuronate

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

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

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

p-nitrophenyl-α-L-rhamnopyranoside

D-erythrose 4-phosphate

D-sedoheptulose 7-phosphate

5-phospho-α-D-ribose 1-diphosphate

4-phospho-D-erythronate

1-(o-carboxyphenylamino)-1'-deoxyribulose 5'-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-fructofuranose 6-phosphate

β-D-fructose 1,6-bisphosphate

D-fructose 6-phosphate

α-D-ribose-1-phosphate

5-fluoro-5-deoxy-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

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

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

decaprenyl-pyrophosphoryl-(N-acetylglucosamine)-N-acetylmuramyl-(pentapeptide)

a peptidoglycan dimer (E. faecium, tetrapeptide)

a peptidoglycan dimer (S. aureus)

a peptidoglycan dimer (E. faeciums)

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

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-glutamyl-L-lysyl-D-alanine

ditrans,octacis-undecaprenyldiphospho-N-acetyl-(N-acetyl-β-D-glucosaminyl)muramoyl-L-alanyl-γ-D-glutamyl-L-lysyl-D-alanyl-D-alanine

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-(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

β-L-rhamnopyranose

β-D-fructofuranose

α-D-galactopyranose

β-D-galactopyranose

β-D-glucopyranose

α-D-glucopyranose

D-glyceraldehyde

keto-D-fructose

D-xylulose

N-acetyl-β-D-glucosamine

maltotetraose

maltopentaose

maltotriose

maltohexaose

maltoheptaose

catechol

myo-inositol

1D-myo-inositol 3-monophosphate

1D-myo-inositol 1-monophosphate

ethanol

methanol

methylglyoxal

acetaldehyde

formaldehyde

menadione

caldariellaquinone

diacetyl

6-hydroxy-2-cyclohexen-one-carboxylate

salicyl-6-hydroxy-2-cyclohexene-on-oyl

urate

quercetin

quercetin-3-glucoside

rutin

hesperidin

hesperitin-7-O-β-D-glucoside

prunin

naringin

menadiol

caldariellaquinol

3-demethylubiquinol-8

demethylmenaquinol-8

menaquinol-8

ubiquinol-8

N-acetyl-serotonin

3,5,3'-triiodo-L-thyronine phenolic β-D-glucuronide

triiodothyroacetate ether glucuronide

3,3',5-triiodothyroacetate

tetraiodothyroacetate ether glucuronide

tetraiodothyroacetate

tetraiodothyroacetate ester glucuronide

3,5,3'-triiodo-L-thyronine acyl β-D-glucuronide

triiodothyroacetate ester glucuronide

L-thyroxine

4-nitrophenol

4-methylphenol

indole

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

adenine

guanine

AMP

IMP

GMP

XMP

GTP

ITP

XTP

ATP

ADP

GDP

IDP

dADP

dIDP

dGDP

dATP

dGTP

dITP

dIMP

hypoxanthine

xanthosine

inosine

adenosine

guanosine

2'-deoxyadenosine

2'-deoxyguanosine

2'-deoxyinosine

7,8-dihydrolumazine

tetrahydromethanopterin

5-methyl-tetrahydrosarcinapterin

tetrahydrosarcinapterin

6-carboxy-5,6,7,8-tetrahydropterin

molybdopterin adenine dinucleotide

molybdopterin

7,8-dihydropterin

7,8-dihydroneopterin 3'-triphosphate

cyclic pyranopterin phosphate

5,10-methylene-tetrahydromethanopterin

tetrahydropteroyl tri-L-glutamate

5-methyltetrahydropteroyl tri-L-glutamate

guanylyl molybdenum cofactor

MoO₂-molybdopterin cofactor

reduced riboflavin

FMNH₂

riboflavin

FMN

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

thymine

uracil

preQ₁

isoguanine

UTP

dUTP

CTP

dCTP

UDP

dTMP

dUMP

dCDP

CDP

dUDP

dTTP

dTDP

CMP

UMP

cytidine

uridine

thymidine

2'-deoxycytidine

2'-deoxyuridine

cob(I)alamin

adenosylcobalamin

cobyrinate

precorrin-8x

precorrin-3A

precorrin-2

cobalt-precorrin-5A

cobalt-precorrin-4

precorrin-4

precorrin-3B

precorrin-6A

precorrin-6B

cobalt-precorrin-3

coenzyme A

coenzyme M

5-chloro-5-deoxyribose 1-phosphate

5'-chloro-5'-deoxyadenosine

5'-deoxyadenosine

adenylo-succinate

1-(5-phospho-β-D-ribosyl)-AMP

1-(5-phospho-β-D-ribosyl)-ATP

8-oxo-GTP

8-oxo-dGTP

2-methylsulfanyl-N⁶-dimethylallyladenosine³⁷ in tRNA

2-sulfanyl-N⁶-dimethylallyladenosine³⁷ in tRNA

β-nicotinamide D-ribonucleotide

5-hydroxy-CTP

2-hydroxy-dATP

cyclic di-3',5'-guanylate

NAD⁺

NADP⁺

NADH

NADPH

5'-deoxy-5'-fluoroadenosine

glycine betaine

(S)-NADHX

(R)-NADHX

nicotinate

pyridoxine 5'-phosphate

pyridoxal 5'-phosphate

(indol-3-yl)acetate

methyl (indol-3-yl)acetate

phenylacetate

mycophenolic acid phenolic glucuronide

mycophenolic acid O-acyl-glucuronide

3'-dephospho-CoA

acetyl-CoA

succinyl-CoA

(S)-3-aminobutanoyl-CoA

2-methylacetoacetyl-CoA

phenylacetyl-CoA

3-hydroxypropanoyl-CoA

acryloyl-CoA

(S)-3-hydroxy-isobutanoyl-CoA

acetoacetyl-CoA

3-oxopentanoyl-CoA

palmitoyl-CoA

stearoyl-CoA

lauroyl-CoA

propanoyl-CoA

butanoyl-CoA

(S)-malyl-CoA

S-(hydroxymethyl)glutathione

glutathione

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

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

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

5-(2-hydroxyethyl)-4-methylthiazole

thiocyanate

methanethiol

S-sulfanylglutathione

betaine aldehyde

agmatine

spermidine

putrescine

dehydrospermidine

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

2-aminoprop-2-enoate

2-iminopropanoate

superoxide

hydroxyl radical

hydrogencarbonate

sulfite

thiosulfate

selenate

molybdate

selenite

OH^-

hydrogensulfite

sulfate

chloride

phosphate

diphosphate

triphosphate

Fe³⁺

Fe²⁺

Mg²⁺

Mo²⁺

Co²⁺

ammonium

K⁺

H⁺

2-chloroacetate

preQ₀

hydrogen cyanide

(indole-3-yl)acetonitrile

2-octaprenylphenol

(S)-3-hydroxy-isobutanoate

(S)-methylmalonate-semialdehyde

(R)-citramalate

(2R)-2,3-dihydroxy-3-methylbutanoate

ω-saturated C55 dolichol phosphate

3-phospho-D-glyceroyl-phosphate

3-phospho-D-glycerate

2-phospho-D-glycerate

sn-glycerol 3-phosphate

sn-glycerol 1-phosphate

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

2-iminosuccinate

2-iminobutanoate

oxygen

hydrogen sulfide

protoporphyrinogen IX

coproporphyrinogen I

uroporphyrinogen-I

uroporphyrinogen-III

protoporphyrin IX

Mg-protoporphyrin

protoheme

cob(II)yrinate a,c-diamide

cob(II)yrinate c-monoamide

adenosylcobalamin 5'-phosphate

adenosylcobinamide-GDP

N₂

ethylphosphate

DNA with lesion