# Post‐translational regulation of human D‐3‐phosphoglycerate dehydrogenase in Alzheimer's disease

**Authors:** Elena Zerbini, Daniele Riva, Elisa Maffioli, Gabriella Tedeschi, Silvia Sacchi, Loredano Pollegioni

PMC · DOI: 10.1002/pro.70505 · Protein Science : A Publication of the Protein Society · 2026-02-19

## TL;DR

The study explores how post-translational modifications of an enzyme involved in L-serine production differ in Alzheimer's disease, with sex-specific effects.

## Contribution

The study identifies a unique deacetylation modification in AD males and shows how specific PTMs affect enzyme stability and activity.

## Key findings

- A unique deacetylation at K289 was found exclusively in AD males.
- Phosphomimetic substitutions at S55 and T78 strongly impaired PHGDH activity.
- Acetylation at K289 improved PHGDH protein stability.

## Abstract

Emerging evidence suggests that sex‐specific differences in L‐serine (L‐Ser) metabolism play a key role in Alzheimer's disease (AD). While disruptions in amino acid balance are well known, recent findings point to a dimorphic regulation of the serine biosynthetic pathway. To explore this, we examined post‐translational modifications (PTMs) of D‐3‐phosphoglycerate dehydrogenase (PHGDH)—the rate‐limiting enzyme for de novo L‐Ser synthesis—as a potentialmechanism underlying this difference. PHGDH was immunoprecipitated from hippocampal tissue of healthy and AD‐affected males and females and analyzed by mass spectrometry. Five phosphorylation sites (S55, T60, T78, S383, and S473) were shared across all groups, but a unique deacetylation at K289 appeared exclusively in AD males. Functional assays using recombinant PHGDH variants revealed that changes at solvent‐exposed sites (K289, S383, and S473) reduced solubility, while phosphomimetic substitutions at S55 and T78 within the catalytic cleft strongly impaired activity. Notably, mimicking acetylation at K289 improved protein stability. Overall, these PTMs act both as subtle modulators and as on/off switches, fine‐tuning PHGDH function and potentially contributing to sex‐dependent metabolic vulnerability in AD.

## Linked entities

- **Genes:** PHGDH (phosphoglycerate dehydrogenase) [NCBI Gene 26227]
- **Proteins:** PHGDH (phosphoglycerate dehydrogenase)
- **Chemicals:** L-serine (PubChem CID 5951), L-Ser (PubChem CID 5951)
- **Diseases:** Alzheimer's disease (MONDO:0004975), AD (MONDO:0004975)

## Full-text entities

- **Genes:** Psph (phosphoserine phosphatase) [NCBI Gene 100678] {aka PSP, PSPase}, GAPDH (glyceraldehyde-3-phosphate dehydrogenase) [NCBI Gene 2597] {aka G3PD, GAPD, HEL-S-162eP}, PRKAA2 (protein kinase AMP-activated catalytic subunit alpha 2) [NCBI Gene 5563] {aka AMPK, AMPK2, AMPKa2, PRKAA}, SLC35G1 (solute carrier family 35 member G1) [NCBI Gene 159371] {aka C10orf60, POST, TMEM20}, SRR (serine racemase) [NCBI Gene 63826] {aka ILV1, ISO1}, KAT5 (lysine acetyltransferase 5) [NCBI Gene 10524] {aka ESA1, HTATIP, HTATIP1, NEDFASB, PLIP, TIP}, MAPK14 (mitogen-activated protein kinase 14) [NCBI Gene 1432] {aka CSBP, CSBP1, CSBP2, CSPB1, EXIP, Mxi2}, JUN (Jun proto-oncogene, AP-1 transcription factor subunit) [NCBI Gene 3725] {aka AP-1, AP1, c-Jun, cJUN, p39}, PHGDH (phosphoglycerate dehydrogenase) [NCBI Gene 26227] {aka 3-PGDH, 3PGDH, HEL-S-113, NLS, NLS1, PDG}, APP (amyloid beta precursor protein) [NCBI Gene 351] {aka AAA, ABETA, ABPP, AD1, APPI, CTFgamma}, PSAT1 (phosphoserine aminotransferase 1) [NCBI Gene 29968] {aka EPIP, NLS2, PSA, PSAT, PSATD}, SHMT1 (serine hydroxymethyltransferase 1) [NCBI Gene 6470] {aka CSHMT, SHMT, hcSHMT}, SIRT2 (sirtuin 2) [NCBI Gene 22933] {aka SIR2, SIR2L, SIR2L2}, CBLL2 (Cbl proto-oncogene like 2) [NCBI Gene 158506] {aka CT138, HAKAIL, ZNF645}, Slc38a5 (solute carrier family 38, member 5) [NCBI Gene 209837] {aka E330031E14, JM24, SN2}, RNF5 (ring finger protein 5) [NCBI Gene 6048] {aka RING5, RMA1}, Phgdh (3-phosphoglycerate dehydrogenase) [NCBI Gene 236539] {aka 3-PGDH, 3PGDH, 4930479N23, A10, PGAD, PGD}, PRKCZ (protein kinase C zeta) [NCBI Gene 5590] {aka PKC-ZETA, PKC2}, Psat1 (phosphoserine aminotransferase 1) [NCBI Gene 107272] {aka D8Ertd814e, EPIP, PSA, Psat}
- **Diseases:** dementia (MESH:D003704), Memory deficits (MESH:D008569), motor dysfunction (MESH:D000068079), glioblastoma (MESH:D005909), cognitive impairment (MESH:D003072), embryonic lethality (MESH:D020964), Neurodegenerative Diseases (MESH:D019636), death (MESH:D003643), NMDARs dysfunctions (MESH:D060426), cancer (MESH:D009369), AD (MESH:D000544)
- **Chemicals:** L-glutamine (MESH:D005973), EGTA (MESH:D004533), CO2 (MESH:D002245), Tyr (MESH:D014443), 3-phosphohydroxypyruvate (MESH:C012488), phospholipid (MESH:D010743), TBS (MESH:D013725), IAA (MESH:D007460), Peptide (MESH:D010455), SDS (MESH:D012967), CHX (MESH:D003513), PVDF (MESH:C024865), Tween-20 (MESH:D011136), NAD (MESH:D009243), DTT (MESH:D004229), KCl (MESH:D011189), Lys (MESH:D008239), reactive oxygen species (MESH:D017382), Alexa Fluor 546 (MESH:C481052), SR (MESH:D013324), Gly (MESH:D005998), DMSO (MESH:D004121), DAPI (MESH:C007293), Malate (MESH:C030298), Glucose (MESH:D005947), DeltaF (MESH:D011239), NaCl (MESH:D012965), Met (MESH:D008715), Alexa 546 (-), D (MESH:D003903), Hepes (MESH:D006531), sodium phosphate (MESH:C018279), penicillin (MESH:D010406), glycerol (MESH:D005990), oxygen (MESH:D010100), PS (MESH:D010758), orthophosphate (MESH:D010710), G418 (MESH:C010680), acid (MESH:D000143), 4-(2-hydroxyethyl)- 1-piperazineethanesulfonic acid (MESH:C410687), formic acid (MESH:C030544), nitrogen (MESH:D009584), potassium phosphate (MESH:C013216), amino acid (MESH:D000596), EDTA (MESH:D004492), urea (MESH:D014508), amphotericin B (MESH:D000666), Asp (MESH:D001224), oxaloacetate (MESH:D062907), NP-40 (MESH:C010615), Alexa Fluor 488 (MESH:C000711379), Ala (MESH:D000409), streptomycin (MESH:D013307), Malachite green (MESH:C005095), carbon (MESH:D002244), Triton X-100 (MESH:D017830), L-Ser (MESH:D012694), hydrazine monohydrate (MESH:C029424), TFA (MESH:D014269), ACN (MESH:C032159)
- **Species:** Mus musculus (house mouse, species) [taxon 10090], Homo sapiens (human, species) [taxon 9606]
- **Mutations:** alanine substitution at positions 383, S371, T78A, S371A, K289R, S473A, T78A/D, T78D, S473D/A, S383A, S383, C in 25, B-RAFV600E, S473, Ser/Thr, S383D, S55, Arg/Gln, S371D, T78, S473/D, C in 1, C in 50, T60D
- **Cell lines:** Escherichia coli BL21(DE3) LOBSTR — Mus musculus (Mouse), Hybridoma (CVCL_B7HM), U251 — Homo sapiens (Human), Astrocytoma, Cancer cell line (CVCL_0021), S2 — Drosophila melanogaster (Fruit fly), Spontaneously immortalized cell line (CVCL_Z232)

## Full text

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## Figures

7 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12917857/full.md

## References

55 references — full list in the complete paper: https://tomesphere.com/paper/PMC12917857/full.md

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Source: https://tomesphere.com/paper/PMC12917857