Cited by 272

The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.

Molecular basis for redox control by the human cystine/glutamate antiporter system xc−

Parker, Joanne L., Deme, Justin C., Kolokouris, Dimitrios, Kuteyi, Gabriel, Biggin, Philip C., Lea, Susan M., Newstead, Simon·2021·Nature Communications

Published version of a preprint

Abstract

Cysteine plays an essential role in cellular redox homoeostasis as a key constituent of the tripeptide glutathione (GSH). A rate limiting step in cellular GSH synthesis is the availability of cysteine. However, circulating cysteine exists in the blood as the oxidised di-peptide cystine, requiring specialised transport systems for its import into the cell. System xc − is a dedicated cystine transporter, importing cystine in exchange for intracellular glutamate. To counteract elevated levels of reactive oxygen species in cancerous cells system xc − is frequently upregulated, making it an attractive target for anticancer therapies. However, the molecular basis for ligand recognition remains elusive, hampering efforts to specifically target this transport system. Here we present the cryo-EM structure of system xc − in both the apo and glutamate bound states. Structural comparisons reveal an allosteric mechanism for ligand discrimination, supported by molecular dynamics and cell-based assays, establishing a mechanism for cystine transport in human cells.

Overview

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Integrity signals

Registry

Crossref · 10.1038/s41467-021-27414-1

Cites

2 of 2 references verified0 citation errors · 0 not checkable

Statistics

Verification

Claims the paper makes

The claims and statistics of this paper haven’t been checked yet.

Run the check — free, no account needed. It reads the open-access text and checks the sources it cites.

A few free checks a day · papers already verified open instantly · results are public

Claims other papers make about this one

Each is checked against this paper’s own text: does it say what the citing paper says it does?

  • Synthesis of GSH is primarily regulated by system XC-, comprised of SLC3A2 (4F2hc), which acts as a chaperone for membrane localisation and stability of SLC7A11.

    “The synthesis of GSH is primarily regulated by system XC -, comprised of the single-pass transmembrane protein SLC3A2 (4F2hc), which is thought to act as a chaperone for the membrane localisation and stability of the glutamate/cysteine antiporter SLC7A11 [119].”

    From Global identification of neuronal and astrocytic integral membrane proteins that require Retromer for their endosomal recycling (2026) · cites this paper as [119]

    The Introduction (page not provided) identifies system xc− as the SLC7A11–SLC3A2 heterodimer and says SLC3A2 is necessary for trafficking it to the plasma membrane. It also links cystine uptake through system xc− to increased GSH synthesis under redox stress, but does not say system xc− primarily regulates GSH synthesis or that SLC3A2 stabilizes SLC7A11. (LLM, conf=0.88)

    Experimental — accuracy not yet measured
  • System XC - plays a key role in maintaining redox homeostasis inside cells via the uptake of cystine in exchange for glutamate, a key step in the synthesis of GSH required for reactive oxygen species (ROS)-detoxifying enzymes.

    “System XC -plays a key role in maintaining redox homeostasis inside cells via the uptake of cystine in exchange for glutamate, a key step in the synthesis of GSH required for reactive oxygen species (ROS)-detoxifying enzymes [119].”

Self-check

Percentages, sums and reported differences re-computed from the paper’s own numbers.

The self-check needs the paper’s full text.

Citations

Cites

Flagged first, then by citations

Research works printed but not linked: 78

  1. Martinez-Reyes, I. & Chandel, N. S. Cancer metabolism: looking forward. Nat. Rev. Cancer. https://doi.org/10.1038/s41568-021-00378-6 (2021). · DOI
  2. Perricone, C., De Carolis, C. & Perricone, R. Glutathione: a key player in autoimmunity. Autoimmun. Rev. 8, 697–701 (2009). · DOI
  3. Moloney, J. N. & Cotter, T. G. ROS signalling in the biology of cancer. Semin Cell Dev. Biol. 80, 50–64 (2018). · DOI
  4. Stockwell, B. R. et al. Ferroptosis: a regulated cell death nexus linking metabolism, redox biology, and disease. Cell 171, 273–285 (2017). · DOI · Paper page
  5. Neumann, J., Bruch, M., Gebauer, S. & Brandsch, M. Transport of the phosphonodipeptide alafosfalin by the H+/peptide cotransporters PEPT1 and PEPT2 in intestinal and renal epithelial cells. Eur. J. Biochem. 271, 2012–2017 (2004). · DOI
  6. Meister, A. Metabolism and function of glutathione: an overview. Biochem. Soc. Trans. 10, 78–79 (1982). · DOI
  7. Lu, S. C. Regulation of glutathione synthesis. Mol. Asp. Med. 30, 42–59 (2009). · DOI
  8. Bannai, S. Exchange of cystine and glutamate across plasma membrane of human fibroblasts. J. Biol. Chem. 261, 2256–2263 (1986). · DOI
  9. Ottestad-Hansen, S. et al. The cystine-glutamate exchanger (xCT, Slc7a11) is expressed in significant concentrations in a subpopulation of astrocytes in the mouse brain. Glia 66, 951–970 (2018). · DOI
  10. Bassi, M. T. et al. Identification and characterisation of human xCT that co-expresses, with 4F2 heavy chain, the amino acid transport activity system xc. Pflug. Arch. 442, 286–296 (2001). · DOI
  11. Lin, W. et al. SLC7A11/xCT in cancer: biological functions and therapeutic implications. Am. J. Cancer Res. 10, 3106–3126 (2020).
  12. Polewski, M. D. et al. Increased expression of system xc- in glioblastoma confers an altered metabolic state and temozolomide resistance. Mol. Cancer Res. 14, 1229–1242 (2016). · DOI
  13. Arensman, M. D. et al. Cystine-glutamate antiporter xCT deficiency suppresses tumor growth while preserving antitumor immunity. Proc. Natl Acad. Sci. USA 116, 9533–9542 (2019). · DOI
  14. Liu, J., Xia, X. & Huang, P. xCT: a critical molecule that links cancer metabolism to redox signaling. Mol. Ther. 28, 2358–2366 (2020). · DOI
  15. Fairweather, S. J., Shah, N. & Brer, S. Heteromeric solute carriers: function, structure, pathology and pharmacology. Adv. Exp. Med. Biol. 21, 13–127 (2021). · DOI
  16. Fotiadis, D., Kanai, Y. & Palacin, M. The SLC3 and SLC7 families of amino acid transporters. Mol. Asp. Med. 34, 139–158 (2013). · DOI
  17. Matsuo, H. et al. Identification of a novel Na+-independent acidic amino acid transporter with structural similarity to the member of a heterodimeric amino acid transporter family associated with unknown heavy chains. J. Biol. Chem. 277, 21017–21026 (2002). · DOI
  18. Feral, C. C. et al. CD98hc (SLC3A2) mediates integrin signaling. Proc. Natl Acad. Sci. USA 102, 355–360 (2005). · DOI · Paper page
  19. Cantor, J. et al. CD98hc facilitates B cell proliferation and adaptive humoral immunity. Nat. Immunol. 10, 412–419 (2009). · DOI
  20. Errasti-Murugarren, E. et al. L amino acid transporter structure and molecular bases for the asymmetry of substrate interaction. Nat. Commun. 10, 1807 (2019). · DOI
  21. Kandasamy, P., Gyimesi, G., Kanai, Y. & Hediger, M. A. Amino acid transporters revisited: new views in health and disease. Trends Biochem. Sci. 43, 752–789 (2018). · DOI · Paper page
  22. Closs, E. I., Boissel, J. P., Habermeier, A. & Rotmann, A. Structure and function of cationic amino acid transporters (CATs). J. Membr. Biol. 213, 67–77 (2006). · DOI
  23. Verrey, F. et al. CATs and HATs: the SLC7 family of amino acid transporters. Pflug. Arch. 447, 532–542 (2004). · DOI
  24. Wu, D. et al. Structural basis for amino acid exchange by a human heteromeric amino acid transporter. Proc. Natl Acad. Sci. USA 117, 21281–21287 (2020). · DOI
  25. Yan, R. et al. Cryo-EM structure of the human heteromeric amino acid transporter b(0,+)AT-rBAT. Sci. Adv. 6, eaay6379 (2020). · DOI
  26. Yan, R., Zhou, J., Li, Y., Lei, J. & Zhou, Q. Structural insight into the substrate recognition and transport mechanism of the human LAT2-4F2hc complex. Cell Disco. 6, 82 (2020). · DOI
  27. Yan, R., Zhao, X., Lei, J. & Zhou, Q. Structure of the human LAT1-4F2hc heteromeric amino acid transporter complex. Nature 568, 127–130 (2019). · DOI · Paper page
  28. Jeckelmann, J. M. & Fotiadis, D. Sub-nanometer cryo-EM density map of the human heterodimeric amino acid transporter 4F2hc-LAT2. Int. J. Mol. Sci. 21, https://doi.org/10.3390/ijms21197094 (2020). · DOI
  29. Oda, K. et al. Consensus mutagenesis approach improves the thermal stability of system xc (-) transporter, xCT, and enables cryo-EM analyses. Protein Sci. 29, 2398–2407 (2020). · DOI
  30. Jack, D. L., Paulsen, I. T. & Saier, M. H. The amino acid/polyamine/organocation (APC) superfamily of transporters specific for amino acids, polyamines and organocations. Microbiology 146, 1797–1814 (2000). · DOI
  31. Shi, Y. Common folds and transport mechanisms of secondary active transporters. Annu. Rev. Biophys. 42, 51–72 (2013). · DOI
  32. Jungnickel, K. E. J., Parker, J. L. & Newstead, S. Structural basis for amino acid transport by the CAT family of SLC7 transporters. Nat. Commun. 9, 550 (2018). · DOI
  33. Fang, Y. et al. Structure of a prokaryotic virtual proton pump at 3.2 A resolution. Nature 460, 1040–1043 (2009). · DOI
  34. Forrest, L. R. Structural symmetry in membrane proteins. Annu. Rev. Biophys. 44, 311–337 (2015). · DOI
  35. Fort, J. et al. The structure of human 4F2hc ectodomain provides a model for homodimerization and electrostatic interaction with plasma membrane. J. Biol. Chem. 282, 31444–31452 (2007). · DOI
  36. Shimamura, T. et al. Molecular basis of alternating access membrane transport by the sodium-hydantoin transporter Mhp1. Science 328, 470–473 (2010). · DOI
  37. Forrest, L. R. & Rudnick, G. The rocking bundle: a mechanism for ion-coupled solute flux by symmetrical transporters. Physiology 24, 377–386 (2009). · DOI
  38. Gasol, E., Jimenez-Vidal, M., Chillaron, J., Zorzano, A. & Palacin, M. Membrane topology of system xc- light subunit reveals a re-entrant loop with substrate-restricted accessibility. J. Biol. Chem. 279, 31228–31236 (2004). · DOI
  39. Ilgu, H. et al. Insights into the molecular basis for substrate binding and specificity of the wild-type L-arginine/agmatine antiporter AdiC. Proc. Natl Acad. Sci. USA 113, 10358–10363 (2016). · DOI
  40. Bannai, S. & Kitamura, E. Role of proton dissociation in the transport of cystine and glutamate in human diploid fibroblasts in culture. J. Biol. Chem. 256, 5770–5772 (1981). · DOI
  41. Singh, S. K., Piscitelli, C. L., Yamashita, A. & Gouaux, E. A competitive inhibitor traps LeuT in an open-to-out conformation. Science 322, 1655–1661 (2008). · DOI
  42. Tavoulari, S. et al. Two Na+ sites control conformational change in a neurotransmitter transporter homolog. J. Biol. Chem. 291, 1456–1471 (2016). · DOI
  43. Shaffer, P. L., Goehring, A., Shankaranarayanan, A. & Gouaux, E. Structure and mechanism of a Na+-independent amino acid transporter. Science 325, 1010–1014 (2009). · DOI
  44. Patel, S. A., Warren, B. A., Rhoderick, J. F. & Bridges, R. J. Differentiation of substrate and non-substrate inhibitors of transport system xc(-): an obligate exchanger of L-glutamate and L-cystine. Neuropharmacology 46, 273–284 (2004). · DOI
  45. Fernandez, E. et al. rBAT-b(0,+)AT heterodimer is the main apical reabsorption system for cystine in the kidney. Am. J. Physiol. Ren. Physiol. 283, F540–F548 (2002). · DOI
  46. Mizoguchi, K. et al. Human cystinuria-related transporter: localization and functional characterization. Kidney Int. 59, 1821–1833 (2001). · DOI
  47. Gao, X. et al. Mechanism of substrate recognition and transport by an amino acid antiporter. Nature 463, 828–832 (2010). · DOI
  48. Ishimoto, T. et al. CD44 variant regulates redox status in cancer cells by stabilizing the xCT subunit of system xc(-) and thereby promotes tumor growth. Cancer Cell 19, 387–400 (2011). · DOI · Paper page
  49. Sontheimer, H. & Bridges, R. J. Sulfasalazine for brain cancer fits. Expert Opin. Investig. Drugs 21, 575–578 (2012). · DOI
  50. Keating, G. M. & Santoro, A. Sorafenib: a review of its use in advanced hepatocellular carcinoma. Drugs 69, 223–240 (2009). · DOI
  51. Aricescu, A. R., Lu, W. & Jones, E. Y. A time- and cost-efficient system for high-level protein production in mammalian cells. Acta Crystallogr. Sect. D Biol. Crystallogr. 62, 1243–1250 (2006). · DOI
  52. Caesar, J. et al. SIMPLE 3.0. Stream single-particle cryo-EM analysis in real time. J. Struct. Biol. X 4, 100040 (2020).
  53. Punjani, A., Rubinstein, J. L., Fleet, D. J. & Brubaker, M. A. cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination. Nat. Methods 14, 290–296 (2017). · DOI · Paper page
  54. Zivanov, J. et al. New tools for automated high-resolution cryo-EM structure determination in RELION-3. Elife 7, https://doi.org/10.7554/eLife.42166 (2018). · DOI
  55. Tan, Y. Z. et al. Addressing preferred specimen orientation in single-particle cryo-EM through tilting. Nat. Methods 14, 793–796 (2017). · DOI
  56. Brown, A. et al. Tools for macromolecular model building and refinement into electron cryo-microscopy reconstructions. Acta Crystallogr. Sect. D Biol. Crystallogr. 71, 136–153 (2015). · DOI
  57. Afonine, P. V. et al. Real-space refinement in PHENIX for cryo-EM and crystallography. Acta Crystallogr. D Struct. Biol. 74, 531–544 (2018). · DOI
  58. Prisant, M. G., Williams, C. J., Chen, V. B., Richardson, J. S. & Richardson, D. C. New tools in MolProbity validation: CaBLAM for CryoEM backbone, UnDowser to rethink “waters,” and NGL Viewer to recapture online 3D graphics. Protein Sci. 29, 315–329 (2020). · DOI
  59. Pettersen, E. F. et al. UCSF ChimeraX: Structure visualization for researchers, educators, and developers. Protein Sci. 30, 70–82 (2021). · DOI
  60. Jo, S., Kim, T., Iyer, V. G. & Im, W. CHARMM-GUI: a web-based graphical user interface for CHARMM. J. Comput. Chem. 29, 1859–1865 (2008). · DOI · Paper page
  61. Friesner, R. A. et al. Extra precision glide: docking and scoring incorporating a model of hydrophobic enclosure for protein-ligand complexes. J. Med. Chem. 49, 6177–6196 (2006). · DOI
  62. Lindorff-Larsen, K. et al. Improved side-chain torsion potentials for the Amber ff99SB protein force field. Proteins 78, 1950–1958 (2010). · DOI
  63. Jämbeck, J. P. M. & Lyubartsev, A. P. An extension and further validation of an all-atomistic force field for biological membranes. J. Chem. Theory Comput. 8, 2938–2948 (2012). · DOI
  64. Wang, J., Wolf, R. M., Caldwell, J. W., Kollman, P. A. & Case, D. A. Development and testing of a general amber force field’. J. Comput. Chem. 25, 1157–1174 (2004) . · DOI
  65. Jorgensen, W. L., Chandrasekhar, J., Madura, J. D., Impey, R. W. & Klein, M. L. Comparison of simple potential functions for simulating liquid water. J. Chem. Phys. 79, 926–935 (1983). · DOI
  66. Abraham, M. J. et al. GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers. SoftwareX 1-2, 19–25 (2015). · DOI · Paper page
  67. Essmann, U. et al. A smooth particle mesh Ewald method. J. Chem. Phys. 103, 8577–8593 (1995). · DOI
  68. Hess, B., Bekker, H., Berendsen, H. J. C. & Fraaije, J. G. E. M. LINCS: a linear constraint solver for molecular simulations. J. Comput. Chem. 18, 1463–1472 (1997). · DOI
  69. Bussi, G., Donadio, D. & Parrinello, M. Canonical sampling through velocity rescaling. J. Chem. Phys. 126, https://doi.org/10.1063/1.2408420 (2007). · DOI
  70. Berendsen, H. J., Postma, J. P. M., van Gunsteren, W. F., DiNola, A. & Haak, J. R. Molecular dynamics with coupling to an external bath. J. Chem. Phys. 81, 3684–3690 (1984). · DOI
  71. Parrinello, M. & Rahman, A. Polymorphic transitions in single crystals: a new molecular dynamics method. J. Appl. Phys. 52, 7182–7190 (1981). · DOI
  72. Greene, D., Qi, R., Nguyen, R., Qiu, T. & Luo, R. Heterogeneous dielectric implicit membrane model for the calculation of MMPBSA binding free energies. J. Chem. Inf. Model 59, 3041–3056 (2019). · DOI
  73. Duan, L., Liu, X. & Zhang, J. Z. Interaction entropy: a new paradigm for highly efficient and reliable computation of protein-ligand binding free energy. J. Am. Chem. Soc. 138, 5722–5728 (2016). · DOI
  74. Aldeghi, M., Bodkin, M. J., Knapp, S. & Biggin, P. C. Statistical analysis on the performance of molecular mechanics Poisson-Boltzmann surface area versus absolute binding free energy calculations: bromodomains as a case study. J. Chem. Inf. Model 57, 2203–2221 (2017). · DOI
  75. Miller, B. R. 3rd et al. MMPBSA.py: an efficient program for end-state free energy calculations. J. Chem. Theory Comput 8, 3314–3321 (2012). · DOI
  76. Valdes-Tresanco, M. S., Valdes-Tresanco, M. E., Valiente, P. A. & Moreno, E. gmx_MMPBSA: a new tool to perform end-state free energy calculations with GROMACS. J. Chem. Theory Comput. https://doi.org/10.1021/acs.jctc.1c00645 (2021). · DOI
  77. Liu, X., Peng, L., Zhou, Y., Zhang, Y. & Zhang, J. Z. H. Computational alanine scanning with interaction entropy for protein-ligand binding free energies. J. Chem. Theory Comput 14, 1772–1780 (2018). · DOI
  78. Lagarias, P. et al. Insights to the binding of a selective adenosine A3 receptor antagonist using molecular dynamic simulations, MM-PBSA and MM-GBSA free energy calculations, and mutagenesis. J. Chem. Inf. Model 59, 5183–5197 (2019). · DOI

Cited by

Sorted by citations

Metadata

Authors
Parker, J. L., Deme, J. C., Kolokouris, D., Kuteyi, G., Biggin, P. C., Lea, S. M., & Newstead, S.
Venue
Nature Communications
Published
2021-12-08
Volume
12
Issue
1
ISSN
2041-1723
Cited by
272
References
2
Language
en
Funders
  • RCUK | Medical Research Council (MR/S021043/1, MR/M011984/1)
  • RCUK | Engineering and Physical Sciences Research Council (EP/T022205/1, EP/R029407/1)
  • Wellcome Trust (209194, 100298, 215519, 219531)

About these checks

Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.

Statistics and arithmetic are recomputed, not judged.

Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.

What counts as a claim ›How we measure confidence ›How we check this ›

Are you an author, or do you see a problem with this page? Request a review