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

quinolinate

glycerone phosphate

β-nicotinate D-ribonucleotide

CO₂

xanthine

oxaloacetate

dihydroxyacetone

hydrogenobyrinate a,c-diamide

hydrogenobyrinate

(R)-1-amino-2-propanol O-2-phosphate

D-gluconate 6-phosphate

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

(S)-4-amino-5-oxopentanoate

preuroporphyrinogen

porphobilinogen

5-aminolevulinate

histidinol

histidinal

L-histidinol phosphate

imidazole acetol-phosphate

D-erythro-imidazole-glycerol-phosphate

glycolate

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

2-dehydro-3-deoxy-D-gluconate

coproporphyrinogen III

isopentenyl diphosphate

(S)-2-aceto-2-hydroxybutanoate

(S)-2-acetolactate

thiamine phosphate

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

2-iminoacetate

3-dehydro-2-deoxy-D-gluconate

2-deoxygluconate

O-acetyl-L-serine

selenophosphate

anthranilate

N-(5-phosphoribosyl)-anthranilate

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

phosphoenolpyruvate

2-dehydropantoate

3-methyl-2-oxobutanoate

(R)-pantothenate

prenyl diphosphate

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

(2S)-2-isopropylmalate

5-oxo-L-proline

adenosine 5'-phosphoselenate

adenosine 5'-phosphosulfate

carbamoyl phosphate

O-ureido-L-homoserine

7-carboxy-7-deazaguanine

N-acetyl-L-glutamate 5-semialdehyde

succinate semialdehyde

4-aminobutanoate

3-oxopropanoate

N-succinyl-2-amino-6-ketopimelate

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

N-carbamoylputrescine

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

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

formate

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

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

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

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

propanoyl phosphate

acetyl phosphate

4'-phosphopantetheine

thiamine diphosphate

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

N¹-(5-phospho-β-D-ribosyl)glycinamide

5-phospho-β-D-ribosylamine

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

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

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

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

N⁵-carboxyaminoimidazole ribonucleotide

nicotinate adenine dinucleotide

4-methyl-2-oxopentanoate

(S)-3-methyl-2-oxopentanoate

orotidine 5'-phosphate

(S)-dihydroorotate

4-amino-4-deoxychorismate

3-ureidopropanoate

3-phosphonopyruvate

urea

norspermidine

carboxynorspermidine

S-methyl-5'-thioadenosine

S-adenosyl 3-(methylsulfanyl)propylamine

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

canavaninosuccinate

L-arginino-succinate

L-canavanine

N-acetylglutamyl-phosphate

3-dehydroshikimate

3-dehydroquinate

shikimate

prephenate

5-enolpyruvoyl-shikimate 3-phosphate

shikimate 3-phosphate

salicyl alcohol

autoinducer 2

S-ribosyl-L-homocysteine

hydrogen peroxide

H₂

3-hydroxypropanal

1,3-propanediol

5-dehydro-D-gluconate

N-acetyl-D-muramate 6-phosphate

O-D-alanyl-poly(ribitol phosphate)

poly(ribitol phosphate)

DNA without lesion

α-D-glucopyranosyl-diphosphoundecaprenol

D-galactosamine-6-phosphate

N-acetyl-D-galactosamine 6-phosphate

carbonic acid

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

2-oxovalerate

3-ethylmalate

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

(2R,3S)-3-isopropylmalate

2-isopropylmaleate

α-D-glucosamine 1-phosphate

butanoyl phosphate

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

α-ribazole

α-ribazole 5'-phosphate

5,6-dimethylbenzimidazole

3-deoxy-D-glycero-2,5-hexodiulosonate

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

γ-L-glutamyl 5-phosphate

carboxyphosphate

(R)-4'-phosphopantothenate

5-(methylsulfanyl)-α-D-ribose

3-phosphooxypyruvate

4-phosphooxy-L-threonine

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

3-amino-1-hydroxyacetone 1-phosphate

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

(2R,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran

(2R,4S)-2-methyl-2,4-dihydroxydihydrofuran-3-one

1,6-anhydro-N-acetyl-β-muramate

dialurate

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

hydrogen selenide

glutathione disulfide

(S)-ureidoglycolate

glutathioselenol

selenodiglutathione

1,2-dihydro-β-NADP

(2S,4S)-2-methyl-2,4-dihydroxydihydrofuran-3-one

enol-phenylpyruvate

ammonia

(2S,4S)-2-methyl-2,3,3,4-tetrahydroxytetrahydrofuran

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

γ-L-glutamyl-L-cysteine

D-alanyl-D-alanine

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

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

carbamate

L-α-amino-ε-keto-pimelate

L-citrulline

L-cysteine

L-methionine

L-aspartate

L-tryptophan

L-alanine

L-glutamate

L-phenylalanine

L-glutamine

L-threonine

L-histidine

L-asparagine

glycine

L-serine

L-tyrosine

L-valine

L-leucine

L-isoleucine

L-arginine

L-lysine

L-proline

S-adenosyl-L-homocysteine

S-adenosyl-L-methionine

O-succinyl-L-homoserine

L-homoserine

O-phospho-L-homoserine

L-homocysteine

L-aspartate 4-semialdehyde

L-ornithine

L-canaline

L-glutamate-5-semialdehyde

meso-diaminopimelate

L-aspartyl-4-phosphate

L-selenomethionine

seleno-L-homocysteine

O-acetyl-L-homoserine

trans-4-hydroxy-L-proline

N-carbamoylglycine

N-acetyl-L-ornithine

N-acetyl-L-methionine

N-acetyl-L-glutamate

N-carbamoyl-L-aspartate

L-threonine 3-O-phosphate

3-phospho-L-serine

L,L-diaminopimelate

L-cystathionine

D-alanine

D-glutamate

β-alanine

(R)-3-amino-2-methylpropanoate

4-aminobenzoate

acetate

(R)-pantoate

orotate

D-gluconate

allantoate

5-chloro-5-deoxy-D-ribonate

(S)-1-pyrroline-5-carboxylate

4-deoxy-L-threo-hex-4-enopyranuronate

butanoate

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

(R)-lactate

2-oxoglutarate

pyruvate

glyoxylate

2-oxobutanoate

5-chloro-4-hydroxy-2-oxopentanoate

3-phenyl-2-oxopropanoate

(2R)-homocitrate

cis-homoaconitate

3-(carbamoylamino)-2-methylpropanoate

chorismate

(4S)-4-hydroxy-2-oxoglutarate

fumarate

succinate

(S)-malate

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

phosphoribulosylformimino-AICAR-phosphate

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

5-amino-4-imidazolecarboxyamide

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

(S)-(+)-allantoin

(5E)-3-amino-4-sulfanyl-5-(sulfanylmethylidene)pyrrolidin-2-one

4-amino-2-(methanethioyl)-5-oxo-3-sulfanylpyrrolidine-2-carboxylate

trans,octacis-decaprenyl phosphate

(2E,6E)-farnesyl diphosphate

3-octaprenyl-4-hydroxybenzoate

di-trans,octa-cis-undecaprenyl phosphate

di-trans,octa-cis-undecaprenyl diphosphate

geranylgeranyl diphosphate

1,2-dibutyrin

tributyrin

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

L-idonate

5-dehydro-4-deoxy-D-glucuronate

decaprenyl-diphospho-N-acetylmuramoyl-pentapeptide

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

ADP-α-D-glucose

GDP-4-dehydro-α-D-rhamnose

GDP-α-D-mannose

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-4-dehydro-β-L-rhamnose

dTDP-β-L-rhamnose

dTDP-α-D-glucose

UDP-α-D-glucuronate

UDP-α-D-glucose

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

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

UDP-α-D-galactose

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

UDP-N-acetyl-α-D-muramate

UDP-N-acetyl-α-D-muramoyl-L-alanine

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-L-lysyl-D-alanyl-D-alanine

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-alanine

arbutin-6-phosphate

methyl β-D-glucoside 6-phosphate

salicin 6-phosphate

5-phospho-α-D-ribose 1-diphosphate

D-sedoheptulose 7-phosphate

D-erythrose 4-phosphate

4-phospho-D-erythronate

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

L-fuculose 1-phosphate

α-D-glucopyranose 1-phosphate

α-D-galactose 1-phosphate

N-acetyl-α-D-glucosamine 1-phosphate

β-D-fructofuranose 1-phosphate

β-D-glucopyranose 1-phosphate

α-D-galactose 6-phosphate

β-D-galactose 6-phosphate

β-D-fructofuranose 6-phosphate

β-D-fructose 1,6-bisphosphate

D-tagatofuranose 6-phosphate

D-tagatofuranose 1,6-bisphosphate

D-fructose 6-phosphate

keto-L-tagatose 6-phosphate

β-D-glucose 6-phosphate

α-D-glucose 6-phosphate

α-D-ribose-1-phosphate

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

D-ribulose 1-phosphate

2-deoxy-α-D-ribose 1-phosphate

D-xylulose 5-phosphate

L-xylulose 5-phosphate

1-deoxy-D-xylulose 5-phosphate

aldehydo-D-ribose 5-phosphate

α-D-ribose 5-phosphate

β-D-ribose 5-phosphate

L-ribulose 5-phosphate

D-ribulose 5-phosphate

D-glyceraldehyde 3-phosphate

N-monoacetylchitobiose 6'-phosphate

N,N'-diacetylchitobiose 6'-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)

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

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

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

α-L-fucopyranose

β-L-fucopyranose

β-D-fructofuranose

β-D-galactopyranose

α-D-galactopyranose

D-glyceraldehyde

α-D-ribofuranose

glycolaldehyde

keto-D-fructose

L-fuculose

D-xylulose

D-ribulose

N-acetylmuramate

N-acetyl-α-D-muramoyl-L-alanine(1-)

N-acetyl-β-D-mannosamine

N-acetyl-β-D-glucosamine

N-acetyl-β-neuraminate

glycerol

sucrose

maltotetraose

maltopentaose

maltotriose

maltohexaose

maltoheptaose

hydroquinone

methanol

methylglyoxal

(S)-lactaldehyde

acetaldehyde

diacetyl

urate

4-methylphenol

indole

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

adenine

guanine

AMP

GMP

IMP

XMP

ATP

GTP

ITP

XTP

ADP

GDP

IDP

dADP

dIDP

dGDP

dATP

dITP

dGTP

dIMP

hypoxanthine

adenosine

guanosine

xanthosine

inosine

2'-deoxyinosine

2'-deoxyguanosine

2'-deoxyadenosine

7,8-dihydrolumazine

tetrahydromethanopterin

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

7,8-dihydropterin

[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-dihydroneopterin 3'-triphosphate

5,10-methylene-tetrahydromethanopterin

tetrahydropteroyl tri-L-glutamate

5-methyltetrahydropteroyl tri-L-glutamate

guanylyl molybdenum cofactor

MoO₂-molybdopterin cofactor

FMNH₂

reduced riboflavin

riboflavin

FMN

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

thymine

uracil

preQ₁

UDP

dCDP

dCMP

CDP

cytidine-3'-monophosphate

cytidine 2',3'-cyclic monophosphate

uridine 3'-monophosphate

uridine 2'3'-cyclic monophosphate

CTP

UTP

dCTP

dUTP

dUDP

dTTP

dTDP

5,6-dihydrothymine

5,6-dihydrouracil

dUMP

dTMP

CMP

UMP

uridine

cytidine

thymidine

2'-deoxyuridine

2'-deoxycytidine

hydantoin

adenosylcobalamin

cobyrinate

precorrin-8x

precorrin-7

precorrin-6B

precorrin-3A

precorrin-2

cobalt-precorrin-5A

cobalt-precorrin-4

precorrin-4

precorrin-3B

precorrin-6A

precorrin-1

coenzyme A

5-chloro-5-deoxyribose 1-phosphate

5'-chloro-5'-deoxyadenosine

1-(5-phospho-β-D-ribosyl)-ATP

1-(5-phospho-β-D-ribosyl)-AMP

pppGpp

5'-deoxyadenosine

adenylo-succinate

guanosine 3'-monophosphate

guanosine 2',3'-cyclic monophosphate

adenosine 3'-monophosphate

adenosine 2',3'-cyclic monophosphate

ppGpp

2-methylsulfanyl-N⁶-dimethylallyladenosine³⁷ in tRNA

2-sulfanyl-N⁶-dimethylallyladenosine³⁷ in tRNA

5-hydroxy-CMP

5-hydroxy-CTP

cyclic di-3',5'-guanylate

NADP⁺

NAD⁺

NADPH

NADH

(S)-NADPHX

(R)-NADPHX

two adjacent thymidines in DNA

(5R)-5,6-dihydro-5-(thymidin-7-yl)thymidine (in DNA)

5'-deoxy-5'-fluoroadenosine

glycine betaine

(S)-NADHX

(R)-NADHX

nicotinate

thiamine

pyridoxal 5'-phosphate

pyridoxamine 5'-phosphate

pyridoxine 5'-phosphate

cob(I)alamin

malonyl-CoA

acetyl-CoA

succinyl-CoA

3'-dephospho-CoA

CoA-disulfide

2-methylacetoacetyl-CoA

oleoyl-CoA

3-oxopentanoyl-CoA

acetoacetyl-CoA

palmitoleoyl-CoA

myristoyl-CoA

cis-vaccenoyl-CoA

propanoyl-CoA

butanoyl-CoA

18-hydroxylinoleoyl-CoA

(S)-3-hydroxybutanoyl-CoA

(3R)-3-hydroxybutanoyl-CoA

crotonyl-CoA

glutathione

(R)-S-lactoylglutathione

(2R)-phospho-3-sulfolactate

taurine

3-sulfopyruvate

L-cysteate

(2R)-3-sulfolactate

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

5-(2-hydroxyethyl)-4-methylthiazole

methanethiol

agmatine

putrescine

spermidine

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

2-aminoprop-2-enoate

2-iminopropanoate

molybdate

sulfate

hydrogencarbonate

selenide

selenate

sulfite

selenite

chloride

phosphonate

phosphate

diphosphate

triphosphate

Fe³⁺

Mo²⁺

Co²⁺

Ni²⁺

Ca²⁺

Mg²⁺

Fe²⁺

K⁺

ammonium

H⁺

2-chloroacetate

preQ₀

2-octaprenylphenol

N-acetyl-D-mannosamine 6-phosphate

α-D-glucosamine 6-phosphate

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

3-phospho-D-glyceroyl-phosphate

2-phospho-D-glycerate

3-phospho-D-glycerate

sn-glycerol 3-phosphate

2-iminosuccinate

2-iminobutanoate

hydrogen sulfide

oxygen

uroporphyrinogen-III

protoporphyrinogen IX

Mg-protoporphyrin

protoporphyrin IX

uroporphyrinogen-I

protoheme

cob(II)yrinate a,c-diamide

cob(II)yrinate c-monoamide

adenosylcobyrate

adenosyl-cob(III)yrinate a,c-diamide

adenosylcobinamide

cob(I)inamide

cob(I)yrinate a,c-diamide

adenosylcobalamin 5'-phosphate

adenosylcobinamide-GDP

adenosyl-cobinamide phosphate

N₂

phosphonoacetaldehyde

(2-aminoethyl)phosphonate

DNA with lesion