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S-adenosyl-L-methionine binding

Definition

Target type: molecularfunction

Binding to S-adenosyl-L-methionine. [GO_REF:0000067, GOC:BHF, GOC:hal, GOC:TermGenie, PMID:22985361]

S-adenosyl-L-methionine (SAM) binding is a critical molecular function in numerous cellular processes, playing a vital role in various metabolic and regulatory pathways. SAM acts as a methyl donor in a wide range of enzymatic reactions, including DNA methylation, RNA methylation, protein methylation, and the biosynthesis of numerous essential molecules.

The SAM-binding domain typically exhibits a characteristic fold with a conserved motif that facilitates the interaction with SAM. The binding process often involves the recognition of the sulfonium group of SAM, which is stabilized by electrostatic interactions with positively charged residues within the binding pocket.

The binding of SAM to its target protein can trigger conformational changes, leading to activation or inhibition of the enzyme's catalytic activity. In some cases, SAM binding can also serve as a regulatory mechanism, controlling the accessibility of the active site for other substrates.

Beyond its role in methyl transfer reactions, SAM binding can also influence the function of proteins through other mechanisms. For instance, in some cases, SAM binding can stabilize protein structure or promote protein-protein interactions.

The precise molecular details of SAM binding can vary depending on the specific protein involved, but the fundamental principles of recognition and binding are conserved across a broad range of enzymes and regulatory proteins.'
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Proteins (8)

ProteinDefinitionTaxonomy
Glycine N-methyltransferaseA glycine N-methyltransferase that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q14749]Homo sapiens (human)
Histone-lysine N-methyltransferase SUV39H2A histone-lysine N-methyltransferase SUV39H2 that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q9H5I1]Homo sapiens (human)
Protein arginine N-methyltransferase 1A protein arginine N-methyltransferase 1 that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q99873]Homo sapiens (human)
Histone-lysine N-methyltransferase KMT5CA histone-lysine N-methyltransferase KMT5C that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q86Y97]Homo sapiens (human)
N6-adenosine-methyltransferase catalytic subunitAn N6-adenosine-methyltransferase catalytic subunit that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q86U44]Homo sapiens (human)
Histone-lysine N-methyltransferase KMT5BA histone-lysine N-methyltransferase KMT5B that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q4FZB7]Homo sapiens (human)
Thiopurine S-methyltransferaseA thiopurine S-methyltransferase that is encoded in the genome of human. [PRO:DNx, UniProtKB:P51580]Homo sapiens (human)
Cystathionine beta-synthaseA cystathionine beta-synthase that is encoded in the genome of human. [PRO:DNx, UniProtKB:P35520]Homo sapiens (human)

Compounds (46)

CompoundDefinitionClassesRoles
4-hydroxybenzoic acid4-hydroxybenzoic acid : A monohydroxybenzoic acid that is benzoic acid carrying a hydroxy substituent at C-4 of the benzene ring.monohydroxybenzoic acidalgal metabolite;
plant metabolite
aminooxyacetic acid(aminooxy)acetic acid : A member of the class of hydroxylamines that is acetic acid substituted at postion 2 by an aminooxy group. It is a compound which inhibits aminobutyrate aminotransferase activity in vivo, resulting in increased levels of gamma-aminobutyric acid in tissues.

Aminooxyacetic Acid: A compound that inhibits aminobutyrate aminotransferase activity in vivo, thereby raising the level of gamma-aminobutyric acid in tissues.
amino acid;
hydroxylamines;
monocarboxylic acid
anticonvulsant;
EC 2.6.1.19 (4-aminobutyrate--2-oxoglutarate transaminase) inhibitor;
EC 4.2.1.22 (cystathionine beta-synthase) inhibitor;
nootropic agent
3-chlorobenzoic acidmonochlorobenzoic aciddrug metabolite
4-aminobenzoic acid4-aminobenzoic acid : An aminobenzoic acid in which the amino group is para to the carboxy group.

4-Aminobenzoic Acid: An aminobenzoic acid isomer that combines with pteridine and GLUTAMIC ACID to form FOLIC ACID. The fact that 4-aminobenzoic acid absorbs light throughout the UVB range has also resulted in its use as an ingredient in SUNSCREENS.

4-ammoniobenzoate : A zwitterion obtained by transfer of a proton from the carboxy to the amino group of 4-aminobenzoic acid.
aminobenzoic acid;
aromatic amino-acid zwitterion
allergen;
Escherichia coli metabolite;
plant metabolite
aurintricarboxylic acidaurintricarboxylic acid : A member of the class of quinomethanes that is 3-methylidene-6-oxocyclohexa-1,4-diene-1-carboxylic acid in which the methylidene hydrogens are replaced by 4-carboxy-3-hydroxyphenyl groups. The trisodium salt is the biological stain 'chrome violet CG' while the triammonium salt is 'aluminon'.

Aurintricarboxylic Acid: A dye which inhibits protein biosynthesis at the initial stages. The ammonium salt (aluminon) is a reagent for the colorimetric estimation of aluminum in water, foods, and tissues.
monohydroxybenzoic acid;
quinomethanes;
tricarboxylic acid
fluorochrome;
histological dye;
insulin-like growth factor receptor 1 antagonist
fluorescitefluorescein (acid form) : A xanthene dye that is highly fluorescent and commonly used as a fluorescent tracer.benzoic acids;
cyclic ketone;
hydroxy monocarboxylic acid;
organic heterotricyclic compound;
phenols;
xanthene dye
fluorescent dye;
radioopaque medium
hypericin
pentamidinepentamidine : A diether consisting of pentane-1,5-diol in which both hydroxyl hydrogens have been replaced by 4-amidinophenyl groups. A trypanocidal drug that is used for treatment of cutaneous leishmaniasis and Chagas disease.

Pentamidine: Antiprotozoal agent effective in trypanosomiasis, leishmaniasis, and some fungal infections; used in treatment of PNEUMOCYSTIS pneumonia in HIV-infected patients. It may cause diabetes mellitus, central nervous system damage, and other toxic effects.
aromatic ether;
carboxamidine;
diether
anti-inflammatory agent;
antifungal agent;
calmodulin antagonist;
chemokine receptor 5 antagonist;
EC 2.3.1.48 (histone acetyltransferase) inhibitor;
NMDA receptor antagonist;
S100 calcium-binding protein B inhibitor;
trypanocidal drug;
xenobiotic
saccharinsaccharin : A 1,2-benzisothiazole having a keto-group at the 3-position and two oxo substituents at the 1-position. It is used as an artificial sweetening agent.

Saccharin: Flavoring agent and non-nutritive sweetener.
1,2-benzisothiazole;
N-sulfonylcarboxamide
environmental contaminant;
sweetening agent;
xenobiotic
suraminsuramin : A member of the class of phenylureas that is urea in which each of the amino groups has been substituted by a 3-({2-methyl-5-[(4,6,8-trisulfo-1-naphthyl)carbamoyl]phenyl}carbamoyl)phenyl group. An activator of both the rabbit skeletal muscle RyR1 and sheep cardiac RyR2 isoform ryanodine receptor channels, it has been used for the treatment of human African trypanosomiasis for over 100 years.

Suramin: A polyanionic compound with an unknown mechanism of action. It is used parenterally in the treatment of African trypanosomiasis and it has been used clinically with diethylcarbamazine to kill the adult Onchocerca. (From AMA Drug Evaluations Annual, 1992, p1643) It has also been shown to have potent antineoplastic properties.
naphthalenesulfonic acid;
phenylureas;
secondary carboxamide
angiogenesis inhibitor;
antinematodal drug;
antineoplastic agent;
apoptosis inhibitor;
EC 2.7.11.13 (protein kinase C) inhibitor;
GABA antagonist;
GABA-gated chloride channel antagonist;
purinergic receptor P2 antagonist;
ryanodine receptor agonist;
trypanocidal drug
4-nitrobenzoic acid4-nitrobenzoic acid : A nitrobenzoic acid having the nitro group at the 4-position.

4-nitrobenzoic acid: RN given refers to parent cpd
nitrobenzoic acid
alizarindihydroxyanthraquinonechromophore;
dye;
plant metabolite
4-chlorobenzoic acid4-chlorobenzoic acid : A monochlorobenzoic acid carrying a chloro substituent at position 4.

4-chlorobenzoic acid: RN given refers to parent cpd
monochlorobenzoic acidbacterial xenobiotic metabolite
7-amino-4-hydroxy-2-naphthalenesulfonic acid7-amino-4-hydroxy-2-naphthalenesulfonic acid : An aminonaphthalenesulfonic acid that is 2-naphthalenesulfonic acid substituted by an amino group at position 7 and a hydroxy group at position 4 respectively.

7-amino-4-hydroxy-2-naphthalenesulfonic acid: structure given in first source
aminonaphthalenesulfonic acid;
naphthols
metabolite
1-naphthol-8-amino-3,6-disulfonic acid1-naphthol-8-amino-3,6-disulfonic acid: dye and found in industrial waste
veratric acid3,4-dimethoxybenzoic acid : A member of the class of benzoic acids that is benzoic acid substituted by methoxy groups at positions 2 and 3.

veratric acid: RN given refers to parent cpd; structure
benzoic acidsallergen;
plant metabolite
4-tert-butylbenzoic acid4-tert-butylbenzoic acid: RN given refers to parent cpdalkylbenzene
3-toluic acid3-toluic acid: RN given refers to parent cpd; structuremethylbenzoic acidhuman xenobiotic metabolite
3,5-dinitrobenzoic acid3,5-dinitrobenzoic acid : A member of the class of benzoic acids that is benzoic acid in which the hydrogens at positions 3 and 5 are replaced by nitro groups.benzoic acids;
C-nitro compound
4-toluic acid4-toluic acid: RN given refers to parent cpd; structure

p-toluic acid : A methylbenzoic acid in which the methyl substituent is located at position 4.
methylbenzoic acid
4-anisic acid4-methoxybenzoic acid : A methoxybenzoic acid substituted with a methoxy group at position C-4.

4-methoxybenzoic acid: structure in first source
methoxybenzoic acidplant metabolite
vanillic acidvanillic acid : A monohydroxybenzoic acid that is 4-hydroxybenzoic acid substituted by a methoxy group at position 3.

Vanillic Acid: A flavoring agent. It is the intermediate product in the two-step bioconversion of ferulic acid to vanillin. (J Biotechnol 1996;50(2-3):107-13).
methoxybenzoic acid;
monohydroxybenzoic acid
plant metabolite
3-nitrobenzoic acid3-nitrobenzoic acid: RN given refers to parent cpd
carzenidesulfonamide
methyl redmethyl red : An azo dye consisting of benzoic acid substituted at position 2 by a 4-[(dimethylamino)phenyl]diazenyl group.

methyl red: RN given refers to parent cpd; structure
3,5-dimethylbenzoic acid3,5-dimethylbenzoic acid : A dimethylbenzoic acid in which the two methyl groups are located at positions 3 and 5.dimethylbenzoic acid
3-methoxybenzoic acidmethoxybenzoic acidflavouring agent;
human urinary metabolite
isovanillic acid3-hydroxy-4-methoxybenzoic acid : A methoxybenzoic acid that is 4-methoxybenzoic acid bearing a hydroxy substituent at position 3.methoxybenzoic acid;
monohydroxybenzoic acid
antibacterial agent;
plant metabolite
s-adenosylmethionineacylcarnitine: structure in first source

S-adenosyl-L-methioninate : A sulfonium betaine that is a conjugate base of S-adenosyl-L-methionine obtained by the deprotonation of the carboxy group.
sulfonium betainehuman metabolite
hexamidinehexamidine : A polyether that is the bis(4-guanidinophenyl) ether of hexane-1,6-diol.aromatic ether;
guanidines;
polyether
antimicrobial agent;
antiseptic drug
sinefunginadenosines;
non-proteinogenic alpha-amino acid
antifungal agent;
antimicrobial agent
fluorone blackfluorone Black: structure
3,4-dimethoxy-5-hydroxybenzoic acid3,4-dimethoxy-5-hydroxybenzoic acid: thiopurine methyltransferase inhibitortrihydroxybenzoic acid
3,5-dihydroxy-4-methoxybenzoic acid3,5-dihydroxy-4-methoxybenzoic acid: catechol methyltransferase inhibitor; N1 same as NMtrihydroxybenzoic acid
c.i. direct red 23C.I. Direct Red 23: azo dye; structure in first source
furamidinefuramidine: RN given refers to parent cpd; WR 199385 refers to di-HCl; pafuramidine is a prodrug of this
s-adenosylhomocysteineS-adenosyl-L-homocysteine : An organic sulfide that is the S-adenosyl derivative of L-homocysteine.

S-Adenosylhomocysteine: 5'-S-(3-Amino-3-carboxypropyl)-5'-thioadenosine. Formed from S-adenosylmethionine after transmethylation reactions.
adenosines;
amino acid zwitterion;
homocysteine derivative;
homocysteines;
organic sulfide
cofactor;
EC 2.1.1.72 [site-specific DNA-methyltransferase (adenine-specific)] inhibitor;
EC 2.1.1.79 (cyclopropane-fatty-acyl-phospholipid synthase) inhibitor;
epitope;
fundamental metabolite
agathisflavoneagathisflavone : A biflavonoid that is obtained by oxidative coupling of two molecules of apigenin resulting in a bond between positions C-6 and C-8 of the two chromene rings.

agathisflavone: bis-apigenin coupled at 6 and 8 positions; isolated from the plant Canarium manii; has hepatoprotective activity against carbon tetrachloride-induced hepatotoxicity
biaryl;
biflavonoid;
hydroxyflavone
antineoplastic agent;
antiviral agent;
hepatoprotective agent;
metabolite
cupressuflavonecupressuflavone : A biflavonoid that is obtained by oxidative coupling of two molecules of apigenin resulting in a bond between positions C-8 of the two chromene rings respectively. Isolated from Cupressus sempervirens and Juniperus occidentalis, it exhibits free radical scavenging and antielastase activities.

cupressuflavone: from Cupressus macrocarpa; structure in first source
biflavonoid;
hydroxyflavone;
ring assembly
EC 3.4.21.37 (leukocyte elastase) inhibitor;
metabolite;
radical scavenger
myricetin7-hydroxyflavonol;
hexahydroxyflavone
antineoplastic agent;
antioxidant;
cyclooxygenase 1 inhibitor;
food component;
geroprotector;
hypoglycemic agent;
plant metabolite
podocarpusflavone apodocarpusflavone A: isolated from Podocarpus imbricatusflavonoid oligomer
stilbamidinestilbamidine: RN given refers to parent cpd
mbx 1090
rubrolide arubrolide A: from Synoicum prunum; structure in first source
gsk343GSK343 : A member of the class of indazoles that is 1-isopropyl-1H-indazole-4-carboxamide in which the nitrogen of the carboxamide group is substituted by a (6-methyl-2-oxo-4-propyl-1,2-dihydropyridin-3-yl)methyl group and in which the indazole ring is substituted at position 6 by a 2-(4-methylpiperazin-1-yl)pyridin-4-yl group. A highly potent and selective EZH2 inhibitor (IC50 = 4 nM).

GSK343: an EZH2 methyltransferase inhibitor
aminopyridine;
indazoles;
N-alkylpiperazine;
N-arylpiperazine;
pyridone;
secondary carboxamide
antineoplastic agent;
apoptosis inducer;
EC 2.1.1.43 (enhancer of zeste homolog 2) inhibitor
6,7-dimethoxy-2-(pyrrolidin-1-yl)-n-(5-(pyrrolidin-1-yl)pentyl)quinazolin-4-amine6,7-dimethoxy-2-(pyrrolidin-1-yl)-N-(5-(pyrrolidin-1-yl)pentyl)quinazolin-4-amine: a SETD8 inhibitor; structure in first source