The PCSK1 gene encodes an enzyme with crucial roles in appetite and metabolism. Specific variants in this gene correlate with obesity — read on to learn the details and check your genes.
The PCSK1 gene helps produce proprotein convertase 1/3 (PC1/3), an enzyme abundant in the brain and endocrine system. PC1/3 activates a range of hormones and peptides involved in [R, R]:
- Temperature control
- Nutrient absorption
- Appetite and feeding behavior
- Glucose and fat metabolism
- Energy expenditure
Given the crucial role of PCSK1 in the above processes, variants in this gene correlate with various health conditions, including diabetes, malabsorption, obesity, and thyroid disorders [R].
PCSK1 encodes an enzyme (PC1/3) with complex roles in metabolism. Variants in this gene correlate with obesity, hormonal disorders, and malabsorption.
PCSK1 in Weight Control
PCSK1 was among the first discovered genes with a role in severe hereditary obesity. It’s the third most common contributor to obesity caused by a single gene (monogenic) [R, R].
PCSK1-deficient mice quickly develop obesity due to uncontrolled food intake. Likewise, mutations in this gene cause early-onset obesity in humans, despite severe diarrhea and malabsorption [R, R, R].
Crucial Roles in Appetite
Animal and clinical research has identified overeating as the primary cause of PCSK1-associated obesity [R, R, R].
The PC1/3 enzyme is crucial in the hypothalamus, where it activates an array of peptides involved in food intake and metabolism. It turns POMC into alpha-MSH, a powerful appetite-suppressing hormone [R, R].
By activating the MC4R receptors, a-MSH reduces food intake, stimulates energy expenditure, and improves glucose metabolism [R].
Mice and humans lacking PC1/3 have impaired POMC activation and lower a-MSH levels in the hypothalamus [R, R].

Source: Huvenne et al. (2016), Rare Genetic Forms of Obesity: Clinical Approach and Current Treatments in 2016
The mechanism described and illustrated above belongs to the leptin-melanocortin pathway, the master controller of appetite and energy balance [R].
PC1/3 plays a crucial role in the leptin-melanocortin pathway by turning POMC into alpha-MSH. This pathway suppresses appetite, boosts metabolism, and stimulates energy expenditure.
Other Pathways
PC1/3 activates many other hormones involved in energy balance and metabolism. It enables glucose metabolism by turning proinsulin into active insulin. Not surprisingly, common variants in the PCSK1 gene have been associated with diabetes and impaired insulin levels [R, R, R].
PCSK1-associated obesity most likely results from a combination of [R]:
- Increased appetite
- Reduced energy expenditure
- Impaired glucose metabolism
PCSK1 is one of the most studied genes when it comes to obesity. A huge meta-analysis gathered data from over 330K people and confirmed a significant link between three PCSK1 variants and obesity [R]:
- rs6232: people with the less common “C” allele had 15% higher obesity rates
- rs6234/rs6235: people with the less common “C/G” alleles had 7% higher obesity rates
The second and third SNP are always inherited together, so the authors presented them as a pair.
The SNPs had a higher impact among children, with 53% and 15% higher obesity rates for rs6232 and rs6234/rs6235, respectively. They were significant only in European (Caucasian) descendants, which made the vast majority of total subjects [R].
Another large meta-analysis of 19 trials and over 200K participants came to a similar conclusion. It observed 19% higher odds of obesity for rs6232 and 9% for rs6234/rs6235 [R].
In two studies of 4,174 subjects from China and Taiwan, rs6234/rs6235 were associated with a higher body-mass index (BMI) and waist circumference (WC) but only in men [R, R].
Rs6232 and rs6234/rs6235 are associated with obesity among European descendants, especially children. Rs6234/rs6235 may correlate with obesity in East Asian men.
How It Works
As mentioned, mutations that reduce PCSK1 activity may contribute to increased appetite and impaired metabolism. The above variants have a much milder impact on the gene functioning, but they can still mimic these changes to a lesser extent.
The “C” allele at rs6232 changes one amino acid in the PC1/3 structure, hindering the production of this enzyme and reducing its activity by 30%. It lies right next to a mutation that causes obesity and overeating in mice [R, R].
On the other hand, rs6234 and rs6235 cause changes in the enzyme region responsible for proper folding and recognition of target hormones. Scientists haven’t yet identified the functional consequences of these SNPs, but they likely impair enzyme activity in some way [R, R].
Obesity-associated PCSK1 variants may impair enzyme activity, secretion, or recognition of hormones. Rs6232-C reduces enzyme activity by up to 30%.
SNP Summary and Table
Primary SNP:
PCSK1 rs6232
- ‘C’ = associated with higher obesity rates
- ‘T’ = not associated with obesity
Population Frequency: Only around 6,5% of European descendants carry the “C” allele. It’s a bit more common in South Asian populations (10%) and much less common in East Asian and African populations (0.5%).
Other Important SNPs:
PCSK1 rs6234
- ‘C’ = associated with obesity and higher waist circumference
- ‘G’ = not associated with obesity
PCSK1 rs6235
- ‘G’ = associated with obesity and higher waist circumference
- ‘C’ = not associated with obesity
Population Frequency: These two SNPs are always inherited together, which means they act as a single genetic factor. Around 38,5% of Europeans carry one copy and 7% carry both copies of the minor alleles (C and G, respectively). They are more common in East Asians (57%) and less common in Africans (33%).
Lifestyle
Exercise
Exercise activates POMC neurons in the hypothalamus, especially those with leptin receptors. In other words, it may compensate for poor POMC activation caused by your variants [R].
Resistance training is probably the best strategy to lose weight. It promotes fat burning and boosts BDNF, endorphins, and other beneficial hormones that suppress appetite, improve mental health, and more [R, R, R].
Aerobic exercise (walking, running, swimming, etc.) has also caused significant reductions in belly fat in multiple studies [R, R].
Exercise regularly to overcome your PCSK1 variants, stimulate fat burning, and improve overall health.
Improve Sleep Quality
Circadian Rhythm
In one study, animals in a constant light cycle had lower a-MSH levels, which suggests circadian rhythm problems may worsen the impact of PCSK1 SNPs. On the other hand, moderate light exposure during the day can boost a-MSH and activate MC4 receptors [R, R, R].
Impaired circadian rhythm is associated with leptin resistance and obesity in animals [R].
Research over the past few decades has recognized the importance of circadian biology in obesity, energy balance, and metabolism [R].
A disrupted circadian rhythm may be why shift workers seem to be at an increased risk of obesity [R].
Sleep Duration
In one trial, restful sleep in non-obese individuals (8+ of uninterrupted sleep) normalized leptin levels. On the other hand, sleep deprivation can suppress the leptin-melanocortin pathway [R, R].
Short sleep duration correlated with weight gain in several studies. Scientists think that poor sleep may increase hunger and cravings and disrupt appetite-controlling hormones like ghrelin and leptin [R, R, R, R, R].
Circadian rhythm disturbance and sleep deprivation may worsen the impact of your SNPs and contribute to adverse changes in weight control, appetite, and metabolism.
Avoid BPA-Containing Plastic
Bisphenol-A (BPA) is a well-known endocrine disruptor found in plastic. It can impair the metabolism in fat cells by reducing the expression of PCSK1, among others [R].
A solid body of preclinical and clinical evidence has identified BPA as an environmental toxin associated with obesity and different endocrine disorders [R, R, R]. If you are using plastics, make sure they are BPA-free.
Supplements
Green Coffee Extract
Chlorogenic acid, the active compound in green coffee extract, increased POMC levels in mice. Caffeine from green coffee may also stimulate the leptin-melanocortin pathway [R, R].
In 12 healthy volunteers, chlorogenic acid-enriched coffee increased weight loss by reducing sugar absorption. In another small trial, chlorogenic acid from coffee increased fat burning during sleep [R, R].
Both green coffee extract and a natural supplement with chlorogenic acid reduced body weight and blood lipids in two clinical trials of 121 people with metabolic syndrome [R, R].
Similarly, chlorogenic acid reduced BMI and WC in 30 people with prediabetes (impaired glucose tolerance) [R].
Chlorogenic acid and caffeine from green coffee extract may activate the leptin-melanocortin pathway and slightly improve weight loss.
Green Tea Extract
A combination of EGCG and caffeine, both found in green tea, increased POMC expression in the hypothalamus in mice [R].
In a review of 11 studies, green tea extract or EGCG slightly improved weight loss and maintenance. However, a Cochrane database review of 14 studies regarded the weight changes as nonsignificant in most studies, so the evidence is inconclusive [R, R].
The majority of weight loss trials used special extracts with higher concentrations of active ingredients (catechins and caffeine), compared with regular tea. Hence, it may be necessary to take green tea extract for beneficial effects [R].
Green tea extract rich in EGCG and caffeine may enhance fat burning and weight loss, but the evidence is inconclusive.
Disclaimer
The information on this website has not been evaluated by the Food & Drug Administration or any other
official medical body. This information is presented for educational purposes only, and may not be used
to diagnose or treat any illness or disease.
Also keep in mind that the “Risk Score” presented in this post is based only on a select number of
SNPs, and therefore only represents a small portion of your total risk as an individual. Furthermore,
these analyses are based primarily on associational studies, which do not necessarily imply causation.
Finally, many other (non-genetic) factors can also play a significant role in the development of a
disease or health condition — therefore, carrying any of the risk-associated genotypes discussed in this
post does not necessarily mean you are at increased risk of developing a major health condition.
Always consult your doctor before acting on any information or recommendations discussed in this post —
especially if you are pregnant, nursing, taking medication, or have been officially diagnosed with a
medical condition.