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

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

ammonia

enol-phenylpyruvate

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

1,2-dihydro-β-NADP

N-carbamoyl-2-oxoglycine

oxamate

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

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

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

urea

(R)-4'-phosphopantothenate

(S)-ureidoglycolate

N-acetyl-L-glutamate 5-semialdehyde

N-acetylglutamyl-phosphate

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

2-dehydropantoate

(R)-pantothenate

oxalosuccinate

5,6-dimethylbenzimidazole

α-ribazole 5'-phosphate

(24E)-3α,7α-dihydroxy-5β-cholest-24-enoyl-CoA

(24R,25R)-3α,7α,24-trihydroxy-5β-cholestanoyl CoA

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

O-acetyl-L-serine

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

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

dimethylamine

carbonic acid

coenzyme F₃₉₀-A

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

urea-1-carboxylate

N⁵-carboxyaminoimidazole ribonucleotide

N¹-(5-phospho-β-D-ribosyl)glycinamide

isochorismate

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

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

thiamine phosphate

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

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

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

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

nicotinate adenine dinucleotide

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

histidinal

imidazole acetol-phosphate

D-erythro-imidazole-glycerol-phosphate

N-acetyl-D-galactosamine 6-phosphate

D-galactosamine-6-phosphate

S-ribosyl-L-homocysteine

autoinducer 2

2-keto-D-gluconate

2,5-didehydro-D-gluconate

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

5-amino-6-(5-phospho-D-ribosylamino)uracil

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

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

hydrogenobyrinate a,c-diamide

thiamine diphosphate

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

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

acetyl phosphate

selenophosphate

(S)-dihydroorotate

orotidine 5'-phosphate

isopentenyl diphosphate

4-prenylphlorisobutyrophenone

prenyl diphosphate

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

(indol-3-yl)pyruvate

(indol-3 yl)acetyl-CoA

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

(R)-3-(phenyl)lactoyl-CoA

3-phosphooxypyruvate

propanoyl phosphate

L-histidinol phosphate

histidinol

prephenate

H₂

coproporphyrinogen III

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

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

4-methyl-2-oxopentanoate

3-ethylmalate

2-oxovalerate

DNA without lesion

3-dehydroshikimate

3-dehydroquinate

shikimate

shikimate 3-phosphate

glycolate

4-amino-4-deoxychorismate

L-canavanine

L-arginino-succinate

O-ureido-L-homoserine

canavaninosuccinate

hydrogenobyrinate

α-D-glucosamine 1-phosphate

5-phospho-β-D-ribosylamine

hydrogen peroxide

β-nicotinate D-ribonucleotide

quinolinate

N-carbamoylputrescine

oxaloacetate

citrate

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

1,4-dihydroxy-2-naphthoyl-CoA

xanthine

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

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

γ-L-glutamyl 5-phosphate

carbamoyl phosphate

carboxyphosphate

glycerone phosphate

(S)-2-aceto-2-hydroxybutanoate

(S)-2-acetolactate

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

(S)-3-methyl-2-oxopentanoate

3-methyl-2-oxobutanoate

phosphoenolpyruvate

4'-phosphopantetheine

(2S)-2-isopropylmalate

2-isopropylmaleate

(2R,3S)-3-isopropylmalate

CO₂

5-enolpyruvoyl-shikimate 3-phosphate

H₂O

adenosylcobalamin

cob(I)alamin

cobalt-factor III

cobalt-precorrin-3

cobalt-precorrin-7

cobalt-precorrin-8

cobalt-precorrin-6B

cobalt-sirohydrochlorin

cobalt-precorrin-2

cobalt-precorrin-4

cobalt-precorrin-5A

cobalt-precorrin-5B

cobalt-precorrin-6A

cob(I)yrinate a,c-diamide

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

cob(I)inamide

adenosylcobinamide

cob(II)yrinate c-monoamide

cob(II)yrinate a,c-diamide

cobyrinate

Mg-protoporphyrin

protoheme

uroporphyrinogen-III

protoporphyrin IX

protoporphyrinogen IX

oxygen

hydrogen sulfide

2-iminopropanoate

2-iminosuccinate

2-iminobutanoate

2-chloroacetate

sn-glycerol 3-phosphate

sn-glycerol 1-phosphate

3-phospho-D-glyceroyl-phosphate

2-phospho-D-glycerate

3-phospho-D-glycerate

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

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

α-D-glucosamine 6-phosphate

N-acetyl-D-mannosamine 6-phosphate

(R)-3-(phenyl)lactate

(S)-ureidoglycine

CMP-N-acetyl-β-neuraminate

(R)-methylmalonate-semialdehyde

(S)-methylmalonate-semialdehyde

3-(all-trans-octaprenyl)benzene-1,2-diol

(S)-3-hydroxy-isobutanoate

2-octaprenylphenol

2-methoxy-6-(all-trans-octaprenyl)phenol

preQ₀

N-acetyl-β-neuraminate

5-chloro-5-deoxy-D-ribonate

5-chloro-4-hydroxy-2-oxopentanoate

K⁺

H⁺

ammonium

Zn²⁺

Mo²⁺

Co²⁺

Mg²⁺

Fe²⁺

molybdate

nitrate

selenide

hydrogencarbonate

phosphate

triphosphate

diphosphate

chloride

(2E,6E)-farnesyl diphosphate

2-aminoprop-2-enoate

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

agmatine

glutathione

methanethiol

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

5-(2-hydroxyethyl)-4-methylthiazole

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

L-cysteate

3-sulfopyruvate

(R)-S-lactoylglutathione

(24R,25R)-3α,7α,12α,24-tetrahydroxy-5β-cholestanoyl CoA

(24E)-3α,7α,12α-trihydroxy-5β-cholest-24-enoyl-CoA

succinyl-CoA

phenylacetyl-CoA

isobutanoyl-CoA

3'-dephospho-CoA

acetyl-CoA

malonyl-CoA

(E)-cinnamoyl-CoA

propanoyl-CoA

glycocholate

cholate

phenylacetate

thiamine

nicotinate

riboflavin

tetrahydropteroyl tri-L-glutamate

5-methyltetrahydropteroyl tri-L-glutamate

7,8-dihydrofolate monoglutamate

5,10-methylene-tetrahydromethanopterin

tetrahydromethanopterin

pyridoxamine 5'-phosphate

pyridoxine 5'-phosphate

pyridoxal 5'-phosphate

FAD

FMNH₂

FMN

(R)-NADHX

(S)-NADHX

NADH

NADPH

NAD⁺

NADP⁺

ubiquinol-8

3-demethylubiquinol-8

2'-deoxyadenosine

2'-deoxyinosine

cyclic-GMP

hypoxanthine

pppGpp

ppGpp

1-(5-phospho-β-D-ribosyl)-ATP

1-(5-phospho-β-D-ribosyl)-AMP

cyclic-AMP

2'-deoxyguanosine

dIDP

dITP

IDP

ITP

5'-deoxyadenosine

IMP

adenylo-succinate

dATP

dADP

dGTP

dGDP

XMP

GMP

AMP

GTP

GDP

ADP

ATP

xanthosine

guanosine

adenosine

inosine

cytidine

uridine

2'-deoxycytidine

2'-deoxyuridine

cyclic di-3',5'-guanylate

dTTP

dUTP

dCTP

UTP

CTP

dCMP

dUMP

dTMP

CMP

UMP

dTDP

dUDP

dCDP

CDP

UDP

preQ₁

uracil

guanine

adenine

UDP-α-D-glucose

dTDP-α-D-glucose

UDP-α-D-galactofuranose

UDP-α-D-galactose

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

UDP-N-acetyl-α-D-muramoyl-L-alanine

UDP-N-acetyl-α-D-muramate

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

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

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

UDP-N-acetyl-α-D-glucosamine

dTDP-β-L-rhamnose

dTDP-4-dehydro-β-L-rhamnose

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

coenzyme A

oxidized coenzyme F₄₂₀-2

(S)-1-pyrroline-5-carboxylate

precorrin-1

precorrin-2

precorrin-3B

precorrin-4

precorrin-8x

sirohydrochlorin

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

reduced riboflavin

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

7,8-dihydroneopterin 3'-triphosphate

7,8-dihydropteroate

(6R)-6-pyruvoyl-5,6,7,8-tetrahydropterin

orotate

4-hydroxybenzoate

urate

protocatechuate

6-methoxy-3-methyl-2-all-trans-octaprenyl-1,4-benzoquinol

6-methoxy-3-methyl-2-all-trans-decaprenyl-1,4-benzoquinol

2-methoxy-6-all trans-octaprenyl-1,4-benzoquinol

all trans-decaprenyl-2-methoxy-6-1,4-benzoquinol

trans-cinnamate

4-aminobenzoate

diacetyl

methylglyoxal

butan-1-al

acetaldehyde

(S)-lactaldehyde

aldehydo-D-ribose

α-D-ribofuranose

β-D-ribofuranose

α-L-rhamnopyranose

β-L-rhamnopyranose

β-D-galactopyranose

α-D-galactopyranose

butan-1-ol

N-acetyl-α-D-glucosamine 1-phosphate

N-acetyl-α-D-mannosamine

keto-L-rhamnulose

decaprenyl-diphospho-N-acetylmuramoyl-pentapeptide

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

a peptidoglycan dimer (mycobacteria)

a peptidoglycan dimer (S. aureus)

a peptidoglycan dimer (E. faeciums)

a peptidoglycan dimer (E. faecium, tetrapeptide)

undecaprenyl-diphospho-N-acetylmuramoyl-L-alanyl-γ-D-glutamyl-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-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-N-(β-D-asparaginyl)-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

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

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

α-D-glucopyranose 1-phosphate

D-glyceraldehyde 3-phosphate

5-phospho-α-D-ribose 1-diphosphate

D-sedoheptulose 7-phosphate

D-erythrose 4-phosphate

β-D-fructose 1,6-bisphosphate

D-fructose 6-phosphate

β-D-fructofuranose 6-phosphate

D-xylulose 5-phosphate

1-deoxy-D-xylulose 5-phosphate

D-ribulose 5-phosphate

aldehydo-D-ribose 5-phosphate

α-D-ribose-1-phosphate

L-rhamnulose 1-phosphate

β-D-glucopyranose 1-phosphate

geranyl diphosphate

mono-trans,octa-cis-decaprenyl diphosphate

trans,octacis-decaprenyl phosphate

di-trans,octa-cis-undecaprenyl phosphate

all-trans-octaprenyl diphosphate

geranylgeranyl diphosphate

di-trans,octa-cis-undecaprenyl diphosphate

3-octaprenyl-4-hydroxybenzoate

phlorisovalerophenone

deoxyhumulone

deoxycohumulone

4-prenylphlorisovalerophenone

6-aminopenicillanate

isopenicillin N

penicillin G

allantoate

(S)-(+)-allantoin

5-amino-4-imidazolecarboxyamide

phosphoribulosylformimino-AICAR-phosphate

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

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

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

chorismate

succinate

fumarate

L-aspartate

(S)-malate

3-carboxy-cis,cis-muconate

cis-aconitate

D-threo-isocitrate

3-oxoadipate

3-phenyl-2-oxopropanoate

pyruvate

2-oxoglutarate

2-oxobutanoate

acetate

formate

propanoate

(R)-lactate

sophorosyloxydocosanoate

13-sophorosyloxydocosanoate 6',6''-diacetate

13-[O(2')-β-D-glucopyranosyl-β-D-glucopyranosyloxy]docosanoate O(6'')-acetate

(R)-pantoate

L-α-amino-ε-keto-pimelate

L-2-aminoadipate

carbamate

L-serine

L-cysteine

L-tyrosine

L-asparagine

L-threonine

L-glutamine

glycine

L-lysine

L-histidine

L-arginine

L-glutamate

L-leucine

L-valine

L-isoleucine

L-proline

L-phenylalanine

L-alanine

L-methionine

β-alanine

D-glutamate

D-alanine

L-cystathionine

L,L-diaminopimelate

L-ornithine

L-aspartyl-4-phosphate

N-carbamoyl-L-aspartate

N⁶,N⁶-dimethyl-L-arginine

N-formyl-L-methionine

N-acetyl-L-ornithine

3-phospho-L-serine

N-acetyl-L-glutamate

trans-4-hydroxy-L-proline

O-acetyl-L-homoserine

L-citrulline

L-homoserine

O-succinyl-L-homoserine

L-canaline

O-phospho-L-homoserine

S-adenosyl-L-homocysteine

L-homocysteine

S-adenosyl-L-methionine

L-glutamate-5-semialdehyde

L-aspartate 4-semialdehyde

meso-diaminopimelate

D-alanyl-D-alanine

γ-L-glutamyl-L-cysteine

DNA with lesion