Target type: biologicalprocess
The chemical reactions and pathways resulting in the formation of an antibacterial peptide with activity against Gram-negative bacteria. [GOC:add, PMID:11807545]
The biosynthesis of antibacterial peptides active against Gram-negative bacteria is a complex process that involves a series of intricate steps. These peptides, often referred to as antimicrobial peptides (AMPs), play a crucial role in the innate immune defense of various organisms.
**1. Gene Transcription and Translation:** The process begins with the transcription of the AMP gene into mRNA, which is then translated into a precursor peptide. This precursor often contains a signal peptide that directs the nascent peptide to the secretory pathway.
**2. Signal Peptide Cleavage:** The signal peptide is cleaved off during or after translocation across the membrane, yielding the mature AMP. This cleavage event is typically facilitated by specific proteases.
**3. Post-Translational Modifications:** Many AMPs undergo post-translational modifications that are crucial for their activity. These modifications can include:
* **Disulfide bond formation:** Disulfide bridges between cysteine residues can significantly influence the structure and stability of AMPs.
* **Glycosylation:** The addition of sugar moieties can enhance the activity and stability of some AMPs.
* **Proteolytic processing:** Some AMPs are further cleaved by specific proteases into their active forms.
**4. Assembly and Secretion:** Once modified, the AMPs are assembled into their final structure and secreted from the cell. In Gram-negative bacteria, this often involves the periplasmic space and the outer membrane.
**5. Mechanism of Action:** The mode of action of AMPs against Gram-negative bacteria is highly diverse, but generally involves disruption of bacterial membranes, interference with cell wall synthesis, and modulation of intracellular processes.
**6. Targeting Mechanisms:** Gram-negative bacteria have a unique outer membrane, which poses a significant challenge for AMPs. These peptides have evolved different strategies to overcome this barrier:
* **Direct interaction with the outer membrane:** Some AMPs can directly interact with the outer membrane, causing disruption and permeabilization.
* **Specific receptors:** Some AMPs bind to specific receptors on the bacterial surface, triggering an influx of ions or other cellular damage.
* **Porin channels:** Some AMPs can utilize existing porin channels in the outer membrane to gain access to the inner cell wall and cytoplasm.
**7. Resistance Mechanisms:** Gram-negative bacteria have developed various resistance mechanisms to counter the effects of AMPs. These include:
* **Mutation of target sites:** Altering the amino acid sequence of the bacterial cell wall or membrane components can reduce the efficacy of AMPs.
* **Production of efflux pumps:** Bacteria can use efflux pumps to actively expel AMPs from their cytoplasm.
* **Enzymatic inactivation:** Some bacteria produce enzymes that degrade AMPs, rendering them inactive.
The study of AMP biosynthesis and their interactions with Gram-negative bacteria is a rapidly evolving field with significant potential for developing new antibiotics to combat the rising threat of antibiotic resistance.'
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Protein | Definition | Taxonomy |
---|---|---|
Neutrophil elastase | A neutrophil elastase that is encoded in the genome of human. [PRO:CNA, UniProtKB:P08246] | Homo sapiens (human) |
Compound | Definition | Classes | Roles |
---|---|---|---|
3,4-dichloroisocoumarin | 3,4-dichloroisocoumarin : A member of the class of isocoumarins that is isocoumarin substituted by chloro groups at positions 3 and 4. It is a serine protease inhibitor. | isocoumarins; organochlorine compound | geroprotector; serine protease inhibitor |
pimagedine | aminoguanidine : A one-carbon compound whose unique structure renders it capable of acting as a derivative of hydrazine, guanidine or formamide. pimagedine: diamine oxidase & nitric oxide synthase inhibitor; an advanced glycosylation end product inhibitor; used in the treatment of diabetic complications; structure | guanidines; one-carbon compound | EC 1.14.13.39 (nitric oxide synthase) inhibitor; EC 1.4.3.4 (monoamine oxidase) inhibitor |
stallimycin | |||
emodin | emodin : A trihydroxyanthraquinone that is 9,10-anthraquinone which is substituted by hydroxy groups at positions 1, 3, and 8 and by a methyl group at position 6. It is present in the roots and barks of numerous plants (particularly rhubarb and buckthorn), moulds, and lichens. It is an active ingredient of various Chinese herbs. Emodin: Purgative anthraquinone found in several plants, especially RHAMNUS PURSHIANA. It was formerly used as a laxative, but is now used mainly as a tool in toxicity studies. | trihydroxyanthraquinone | antineoplastic agent; laxative; plant metabolite; tyrosine kinase inhibitor |
7-amino-4-chloro-3-methoxy-2-benzopyran-1-one | isocoumarins | ||
phenylmethylsulfonyl fluoride | phenylmethanesulfonyl fluoride : An acyl fluoride with phenylmethanesulfonyl as the acyl group. Phenylmethylsulfonyl Fluoride: An enzyme inhibitor that inactivates IRC-50 arvin, subtilisin, and the fatty acid synthetase complex. | acyl fluoride | serine proteinase inhibitor |
2-methylanthraquinone | 2-methylanthraquinone : An anthraquinone that is 9,10-anthraquinone in which the hydrogen at position 2 is substituted by a methyl group. 2-methylanthraquinone: form Morinda officinalis How. | anthraquinone | |
chrysophanic acid | chrysophanic acid: RN given refers to parent cpd; structure in Merck, 9th ed, #2260 chrysophanol : A trihydroxyanthraquinone that is chrysazin with a methyl substituent at C-3. It has been isolated from Aloe vera and exhibits antiviral and anti-inflammatory activity. | dihydroxyanthraquinone | anti-inflammatory agent; antiviral agent; plant metabolite |
physcione | physcion : A dihydroxyanthraquinone that is 9,10-anthraquinone bearing hydroxy substituents at positions 1 and 8, a methoxy group at position 3, and a methyl group at position 6. It has been widely isolated and characterised from both terrestrial and marine sources. physcione: structure | dihydroxyanthraquinone | anti-inflammatory agent; antibacterial agent; antifungal agent; antineoplastic agent; apoptosis inducer; hepatoprotective agent; metabolite |
bentranil | bentranil : A benzoxazine that is 4H-3,1-benzoxazin-4-one substituted by a phenyl group at position 2. It is a postemergence herbicide used for the control of annual weeds in cereal crops, maize, and rice. | benzoxazine | herbicide |
ng-nitroarginine methyl ester | NG-Nitroarginine Methyl Ester: A non-selective inhibitor of nitric oxide synthase. It has been used experimentally to induce hypertension. | alpha-amino acid ester; L-arginine derivative; methyl ester; N-nitro compound | EC 1.14.13.39 (nitric oxide synthase) inhibitor |
closantel | closantel : A racemate comprising equimolar amounts of (R)- and (S)-clostanel. An anthelmintic, it is used (as the dihydrate of the sodium salt) in veterinary medicine for the treatment of fluke and nematode infections. closantel: structure N-{5-chloro-4-[(4-chlorophenyl)(cyano)methyl]-2-methylphenyl}-2-hydroxy-3,5-diiodobenzamide : An aromatic amide resulting from the formal condensation of the carboxy group of 3,5-diiodosalicylic acid with the amino group of aniline substituted at positions 2, 4, and 5 by methyl, (4-chlorophenyl)(cyano)methyl, and methyl groups respectively. | aromatic amide; monocarboxylic acid amide; monochlorobenzenes; nitrile; organoiodine compound; phenols | |
lovastatin | lovastatin : A fatty acid ester that is mevastatin carrying an additional methyl group on the carbobicyclic skeleton. It is used in as an anticholesteremic drug and has been found in fungal species such as Aspergillus terreus and Pleurotus ostreatus (oyster mushroom). Lovastatin: A fungal metabolite isolated from cultures of Aspergillus terreus. The compound is a potent anticholesteremic agent. It inhibits 3-hydroxy-3-methylglutaryl coenzyme A reductase (HYDROXYMETHYLGLUTARYL COA REDUCTASES), which is the rate-limiting enzyme in cholesterol biosynthesis. It also stimulates the production of low-density lipoprotein receptors in the liver. | delta-lactone; fatty acid ester; hexahydronaphthalenes; polyketide; statin (naturally occurring) | anticholesteremic drug; antineoplastic agent; Aspergillus metabolite; prodrug |
ursolic acid | hydroxy monocarboxylic acid; pentacyclic triterpenoid | geroprotector; plant metabolite | |
epigallocatechin gallate | (-)-epigallocatechin 3-gallate : A gallate ester obtained by the formal condensation of gallic acid with the (3R)-hydroxy group of (-)-epigallocatechin. epigallocatechin gallate: a steroid 5alpha-reductase inhibitor and antimutagen in green tea (Camellia sinensis) | flavans; gallate ester; polyphenol | antineoplastic agent; antioxidant; apoptosis inducer; geroprotector; Hsp90 inhibitor; neuroprotective agent; plant metabolite |
midesteine | midesteine: a cyclic thiolic neutrophil elastase inhibitor | ||
n-benzyloxycarbonylphenylalanyl-valine | |||
sivelestat | sivelestat: inhibitor of neutrophil elastase; structure given in first source | N-acylglycine; pivalate ester | |
l 658758 | L 658758: structure & chemical name given in UD | ||
e 64 | E 64: cysteine protease inhibitor of microbial origin, which inhibits cathepsin B (EC 3.4.22.1) and cathepsin L (EC 3.4.22.-) | dicarboxylic acid monoamide; epoxy monocarboxylic acid; guanidines; L-leucine derivative; zwitterion | antimalarial; antiparasitic agent; protease inhibitor |
4-methyoxybenzoyl-n-glycine | N-acylglycine | ||
l 659286 | L 659286: structure given in first source; RN given from Toxlit 6/89 | ||
foy 251 | 4-(4-guanidinobenzoyloxy)phenylacetic acid: RN given refers to monomethanesulfonate | ||
omega-n-methylarginine | N(omega)-methyl-L-arginine : A L-arginine derivative with a N(omega)-methyl substituent. omega-N-Methylarginine: A competitive inhibitor of nitric oxide synthetase. | amino acid zwitterion; arginine derivative; guanidines; L-arginine derivative; non-proteinogenic L-alpha-amino acid | |
l 738167 | L 738167: structure in first source | ||
1-hydroxy-2-methylanthraquinone | 1-hydroxy-2-methyl-9,10-anthraquinone : A member of the class of hydroxyanthraquinones that is anthracene-9,10-dione substituted by a hydroxy group at position 1 and a methyl group at position 2. It has been isolated from the roots of Rubia yunnanensis. 1-hydroxy-2-methylanthraquinone: from root of Prismatomeris tetrandra | monohydroxyanthraquinone | plant metabolite |
2-phenyl-1,2-benzisothiazol-3-(2h)-one | 2-phenyl-1,2-benzisothiazol-3-(2H)-one: structure given in first source; sulfur analog of ebselen | ||
sb 203580 | imidazoles; monofluorobenzenes; pyridines; sulfoxide | EC 2.7.11.1 (non-specific serine/threonine protein kinase) inhibitor; EC 2.7.11.24 (mitogen-activated protein kinase) inhibitor; geroprotector; Hsp90 inhibitor; neuroprotective agent | |
l 694,458 | DMP 777: structure given in first source | ||
7-amino-3-(2-bromoethoxy)-4-chloroisocoumarin | 7-amino-3-(2-bromoethoxy)-4-chloroisocoumarin: RN & structure given in first source | ||
ono 6818 | ONO 6818: structure in first source | ||
2-(3-nitrophenyl)-3,1-benzoxazin-4-one | benzoxazine | ||
bortezomib | amino acid amide; L-phenylalanine derivative; pyrazines | antineoplastic agent; antiprotozoal drug; protease inhibitor; proteasome inhibitor | |
propolin c | nymphaeol A : A tetrahydroxyflavanone that is (2S)-flavanone substituted by hydroxy group at positions 5, 7, 3' and 4' and a geranyl group at position 6. Isolated from Macaranga tanarius and propolis collected in Okinawa, it exhibits radical scavenging activity. propolin C: a PAK1 inhibitor; from Taiwanese propolis; structure in first source | 4'-hydroxyflavanones; tetrahydroxyflavanone | metabolite; radical scavenger |
N-(3-dibenzofuranyl)-4-morpholinecarboxamide | dibenzofurans | ||
(4-Methyl-2-oxochromen-7-yl) furan-2-carboxylate | coumarins | anticoronaviral agent | |
2-furancarboxylic acid (2-acetyl-1-benzothiophen-3-yl) ester | carboxylic ester | ||
(4-Methoxyphenyl)-(2-methylsulfanyl-6,7-dihydro-[1,4]dioxino[2,3-f]benzimidazol-3-yl)methanone | benzodioxine | anticoronaviral agent | |
6-fluoro-2-phenyl-1,2-benzothiazol-3-one | benzothiazoles | ||
6-fluoro-2-(2-methylphenyl)-1,2-benzothiazol-3-one | benzothiazoles | ||
n(6)-(1-iminoethyl)lysine | N(6)-acetimidoyl-L-lysine : An L-lysine derivative that is L-lysine in which one of the hydrogens attached to N(6) is substituted by an acetimidoyl group | L-lysine derivative; non-proteinogenic L-alpha-amino acid | |
3-chloro-1-(4-methoxyphenyl)-4-(3-methyl-1-piperidinyl)pyrrole-2,5-dione | maleimides | ||
telaprevir | cyclopentapyrrole; cyclopropanes; oligopeptide; pyrazines | antiviral drug; hepatitis C protease inhibitor; peptidomimetic | |
2-bromo-6-[1,4-dioxa-8-azaspiro[4.5]decan-8-yl(oxo)methyl]-11-pyrido[2,1-b]quinazolinone | pyridopyrimidine | ||
N,N-dimethyl-3-(3-oxo-1,2-benzothiazol-2-yl)benzenesulfonamide | sulfonamide | ||
quercetin | 7-hydroxyflavonol; pentahydroxyflavone | antibacterial agent; antineoplastic agent; antioxidant; Aurora kinase inhibitor; chelator; EC 1.10.99.2 [ribosyldihydronicotinamide dehydrogenase (quinone)] inhibitor; geroprotector; phytoestrogen; plant metabolite; protein kinase inhibitor; radical scavenger | |
apigenin | Chamomile: Common name for several daisy-like plants (MATRICARIA; TRIPLEUROSPERMUM; ANTHEMIS; CHAMAEMELUM) native to Europe and Western Asia, now naturalized in the United States and Australia. | trihydroxyflavone | antineoplastic agent; metabolite |
luteolin | 3'-hydroxyflavonoid; tetrahydroxyflavone | angiogenesis inhibitor; anti-inflammatory agent; antineoplastic agent; apoptosis inducer; c-Jun N-terminal kinase inhibitor; EC 2.3.1.85 (fatty acid synthase) inhibitor; immunomodulator; nephroprotective agent; plant metabolite; radical scavenger; vascular endothelial growth factor receptor antagonist | |
clavulanic acid | clavulanate : The conjugate base of clavulanic acid. clavulanic acid : Antibiotic isolated from Streptomyces clavuligerus. It acts as a suicide inhibitor of bacterial beta-lactamase enzymes. Clavulanic Acid: A beta-lactam antibiotic produced by the actinobacterium Streptomyces clavuligerus. It is a suicide inhibitor of bacterial beta-lactamase enzymes. Administered alone, it has only weak antibacterial activity against most organisms, but given in combination with other beta-lactam antibiotics it prevents antibiotic inactivation by microbial lactamase. | oxapenam | antibacterial drug; anxiolytic drug; bacterial metabolite; EC 3.5.2.6 (beta-lactamase) inhibitor |
amentoflavone | biflavonoid; hydroxyflavone; ring assembly | angiogenesis inhibitor; antiviral agent; cathepsin B inhibitor; P450 inhibitor; plant metabolite | |
robustaflavone | robustaflavone : A biflavonoid that is obtained by oxidative coupling of two molecules of apigenin resulting in a bond between positions C-3 of the hydroxyphenyl ring and C-6 of the chromene ring. Isolated from Thuja orientalis and Rhus succedanea it exhibits antioxidant, cytotoxic and anti-hepatitis B activity. robustaflavone: bis-apigenin coupled at 6 and 3' positions; a potential non-nucleoside anti-hepatitis B agent; | biflavonoid; hydroxyflavone; ring assembly | anti-HBV agent; antineoplastic agent; antioxidant; metabolite |
camostat mesylate | methanesulfonate salt | anti-inflammatory agent; anticoronaviral agent; antifibrinolytic drug; antihypertensive agent; antineoplastic agent; antiviral agent; serine protease inhibitor | |
benzyloxycarbonyl-phe-ala-fluormethylketone | cathepsin B inhibitor : A cysteine protease inhibitor which inhibits cathepsin B (EC 3.4.22.1). | ||
sb 258719 | |||
sb 271046 | SB 271046: 5-HT(6) receptor antagonist; structure in first source | ||
N-(4-ethylphenyl)-3-(1-pyrrolyl)propanamide | anilide | ||
5-Chloro-3-pyridinyl 2-furoate | carboxylic ester | anticoronaviral agent | |
rwj 68354 | |||
sb 223245 | |||
zd 8321 | ZD 8321: inhibits human leukocyte elastase; structure in first source | ||
n-(3-amino-1-(cyclobutylmethyl)-2,3-dioxopropyl)-3-(2-((((1,1-dimethylethyl)amino)carbonyl)amino)-3,3-dimethyl-1-oxobutyl)-6,6-dimethyl-3-azabicyclo(3.1.0)hexan-2-carboxamide | boceprevir : A synthetic tripeptide consisting of N-(tert-butylcarbamoyl)-3-methyl-L-valyl, a cyclopropyl-fused prolyl and 3-amino-4-cyclobutyl-2-oxobutanamide residues joined in sequence. Used for treatment of chronic hepatitis C virus genotype 1 infection. | tripeptide; ureas | antiviral drug; hepatitis C protease inhibitor; peptidomimetic |
mdl 101146 | MDL 101146: orally active inhibitor of neutrophil elastase; structure in first source | ||
2-(4-methoxyphenyl)-1,2-benzothiazol-3-one | benzothiazoles | ||
2-(4-chlorophenyl)-1,2-benzothiazol-3-one | benzothiazoles | ||
PF-00835231 | PF-00835231 : A primary alcohol resulting from the cleavage of the phosphate group of the prodrug PF-07304814. It is an inhibitor of SARS-CoV-1 and -2 main protease (3CLpro) and exhibits potent in vitro antiviral activity. | aromatic ether; indolecarboxamide; L-leucine derivative; primary alcohol; pyrrolidin-2-ones; secondary carboxamide | anticoronaviral agent; drug metabolite; EC 3.4.22.69 (SARS coronavirus main proteinase) inhibitor |
2-(3-chlorophenyl)-1,2-benzothiazol-3-one | benzothiazoles | ||
archazolid a | archazolid A: inhibits vacuolar-type ATPase; isolated from Archangium gephyra; structure in first source | ||
archazolid b | archazolid B: structure in first source | macrolide | |
5-fluoro-2-phenyl-1,2-benzothiazol-3-one | benzothiazoles | ||
2-(2-fluorophenyl)-1,2-benzothiazol-3-one | benzothiazoles | ||
lyngbyastatin 7 | lyngbyastatin 7: potent elastase inhibitor from Floridian marine cyanobacteria, Lyngbya spp.; structure in first source | ||
mk-7009 | vaniprevir : An azamacrocyclic compound that is a hepatitis C virus (HCV) NS3/4A protease inhibitor which is approved for the treatment of hepatitis C virus infections in Japan. vaniprevir: inhibits hepatitis C virus NS3/4a protease | azamacrocycle; carbamate ester; cyclopropanes; N-sulfonylcarboxamide; pyrrolidinecarboxamide | antiviral drug; hepatitis C protease inhibitor |
delanzomib | C-terminal boronic acid peptide; phenylpyridine; secondary alcohol; threonine derivative | antineoplastic agent; apoptosis inducer; proteasome inhibitor | |
bi 201335 | faldaprevir: inhibits hepatitis C virus NS3 protease | ||
6-(3,5-difluoroanilino)-9-(2,2-difluoroethyl)-2-purinecarbonitrile | 6-aminopurines | ||
e-6-o-p-coumaroyl scandoside methyl ester | E-6-O-p-coumaroyl scandoside methyl ester: structure in first source | ||
2-(3-oxo-1,2-benzothiazol-2-yl)-N-phenylacetamide | benzothiazoles | ||
n-((5-(methanesulfonyl)pyridin-2-yl)methyl)-6-methyl-5-(1-methyl-1h-pyrazol-5-yl)-2-oxo-1-(3-(trifluoromethyl)phenyl)-1,2-dihydropyridine-3-carboxamide | N-((5-(methanesulfonyl)pyridin-2-yl)methyl)-6-methyl-5-(1-methyl-1H-pyrazol-5-yl)-2-oxo-1-(3-(trifluoromethyl)phenyl)-1,2-dihydropyridine-3-carboxamide: structure in first source | ||
4-hydroxy-6-methyl-2-pyrone | 4-hydroxy-6-methyl-2-pyrone: structure in first source | 2-pyranones | |
elasnin | elasnin: elastase inhibitor isolated from Streptomyces noboritoensis | ||
rpx7009 | RPX7009: a beta-lactamase inhibitor; structure in first source | ||
sulfated pentagalloylglucoside | sulfated pentagalloylglucoside: structure in first source | ||
N-[4-(6-chloro-5-nitro-1H-benzimidazol-2-yl)phenyl]acetamide | benzimidazoles |