My Bibliography

select

Xiao X, Feng X, Yoo JH, Kovach A, Darwin KH, Li H. The β-Grasp Domain of Proteasomal ATPase Mpa Makes Critical Contacts with the Mycobacterium tuberculosis 20S Core Particle to Facilitate Degradation. mSphere. 2022 Oct 26;7(5):e0027422. doi: 10.1128/msphere.00274-22. Epub 2022 Aug 22. PubMed PMID: 35993699; PubMed Central PMCID: PMC9599533.

select

Darwin KH. The mind of a scientist. EMBO Rep. 2022 Oct 6;23(10):e56047. doi: 10.15252/embr.202256047. Epub 2022 Sep 14. PubMed PMID: 36102812; PubMed Central PMCID: PMC9535740.

select

Yoo JH, Kahne SC, Darwin KH. A conserved loop sequence of the proteasome system depupylase Dop regulates substrate selectivity in Mycobacterium tuberculosis. J Biol Chem. 2022 Oct;298(10):102478. doi: 10.1016/j.jbc.2022.102478. Epub 2022 Sep 10. PubMed PMID: 36100038; PubMed Central PMCID: PMC9556782.

select

Darwin KH. Waste management. EMBO Rep. 2022 Jun 7;23(6):e55283. doi: 10.15252/embr.202255283. Epub 2022 May 4. PubMed PMID: 35507730; PubMed Central PMCID: PMC9171414.

select

Darwin KH. Sci-Con. EMBO Rep. 2022 May 4;23(5):e54958. doi: 10.15252/embr.202254958. Epub 2022 Mar 18. PubMed PMID: 35301788; PubMed Central PMCID: PMC9066055.

select

Darwin KH, Stanley SA. The aldehyde hypothesis: metabolic intermediates as antimicrobial effectors. Open Biol. 2022 Apr;12(4):220010. doi: 10.1098/rsob.220010. Epub 2022 Apr 13. Review. PubMed PMID: 35414258; PubMed Central PMCID: PMC9006002.

select

Darwin KH. Bench science. EMBO Rep. 2022 Feb 3;23(2):e54435. doi: 10.15252/embr.202154435. Epub 2021 Dec 20. PubMed PMID: 34927345; PubMed Central PMCID: PMC8811629.

select

Janssen GV, Zhang S, Merkx R, Schiesswohl C, Chatterjee C, Darwin KH, Geurink PP, van der Heden van Noort GJ, Ovaa H. Development of Tyrphostin Analogues to Study Inhibition of the Mycobacterium tuberculosis Pup Proteasome System*. Chembiochem. 2021 Nov 3;22(21):3082-3089. doi: 10.1002/cbic.202100333. Epub 2021 Sep 12. PubMed PMID: 34387015; PubMed Central PMCID: PMC8596589.

select

Darwin KH. Mycobacterium tuberculosis: the honey badger of pathogens. EMBO Rep. 2021 Sep 6;22(9):e53619. doi: 10.15252/embr.202153619. Epub 2021 Jul 28. PubMed PMID: 34322986; PubMed Central PMCID: PMC8419694.

select

Ji DX, Witt KC, Kotov DI, Margolis SR, Louie A, Chevée V, Chen KJ, Gaidt MM, Dhaliwal HS, Lee AY, Nishimura SL, Zamboni DS, Kramnik I, Portnoy DA, Darwin KH, Vance RE. Role of the transcriptional regulator SP140 in resistance to bacterial infections via repression of type I interferons. Elife. 2021 Jun 21;10. doi: 10.7554/eLife.67290. PubMed PMID: 34151776; PubMed Central PMCID: PMC8248984.

select

Darwin KH. Work life balance?. EMBO Rep. 2021 Jun 4;22(6):e52874. doi: 10.15252/embr.202152874. Epub 2021 Apr 12. PubMed PMID: 33844414; PubMed Central PMCID: PMC8183403.

select

Zhang H, Hsu HC, Kahne SC, Hara R, Zhan W, Jiang X, Burns-Huang K, Ouellette T, Imaeda T, Okamoto R, Kawasaki M, Michino M, Wong TT, Toita A, Yukawa T, Moraca F, Vendome J, Saha P, Sato K, Aso K, Ginn J, Meinke PT, Foley M, Nathan CF, Darwin KH, Li H, Lin G. Macrocyclic Peptides that Selectively Inhibit the Mycobacterium tuberculosis Proteasome. J Med Chem. 2021 May 13;64(9):6262-6272. doi: 10.1021/acs.jmedchem.1c00296. Epub 2021 May 5. PubMed PMID: 33949190; PubMed Central PMCID: PMC8194371.

select

Yin Y, Kovach A, Hsu HC, Darwin KH, Li H. The mycobacterial proteasomal ATPase Mpa forms a gapped ring to engage the 20S proteasome. J Biol Chem. 2021 Jan-Jun;296:100713. doi: 10.1016/j.jbc.2021.100713. Epub 2021 Apr 27. PubMed PMID: 33930464; PubMed Central PMCID: PMC8142254.

select

Kahne SC, Darwin KH. Structural determinants of regulated proteolysis in pathogenic bacteria by ClpP and the proteasome. Curr Opin Struct Biol. 2021 Apr;67:120-126. doi: 10.1016/j.sbi.2020.09.012. Epub 2020 Nov 19. Review. PubMed PMID: 33221704; PubMed Central PMCID: PMC8096641.

select

Darwin KH. After the year of the dumpster fire. EMBO Rep. 2021 Mar 3;22(3):e52556. doi: 10.15252/embr.202152556. Epub 2021 Feb 18. PubMed PMID: 33599025; PubMed Central PMCID: PMC7926249.

select

Darwin KH. Dr. Manners. EMBO Rep. 2021 Jan 7;22(1):e52066. doi: 10.15252/embr.202052066. Epub 2020 Dec 2. PubMed PMID: 33289267; PubMed Central PMCID: PMC7788442.

select

Darwin KH. Bandwagoning. EMBO Rep. 2020 Nov 5;21(11):e51765. doi: 10.15252/embr.202051765. Epub 2020 Oct 15. PubMed PMID: 33063444; PubMed Central PMCID: PMC7645171.

select

Becker SH, Ulrich K, Dhabaria A, Ueberheide B, Beavers W, Skaar EP, Iyer LM, Aravind L, Jakob U, Darwin KH. Mycobacterium tuberculosis Rv0991c Is a Redox-Regulated Molecular Chaperone. mBio. 2020 Aug 25;11(4). doi: 10.1128/mBio.01545-20. PubMed PMID: 32843553; PubMed Central PMCID: PMC7448276.

select

Ji DX, Yamashiro LH, Chen KJ, Mukaida N, Kramnik I, Darwin KH, Vance RE. Type I interferon-driven susceptibility to Mycobacterium tuberculosis is mediated by IL-1Ra. Nat Microbiol. 2019 Dec;4(12):2128-2135. doi: 10.1038/s41564-019-0578-3. Epub 2019 Oct 14. PubMed PMID: 31611644; PubMed Central PMCID: PMC6879852.

select

Ballister ER, Samanovic MI, Darwin KH. Mycobacterium tuberculosis Rv2700 Contributes to Cell Envelope Integrity and Virulence. J Bacteriol. 2019 Oct 1;201(19). doi: 10.1128/JB.00228-19. Print 2019 Oct 1. PubMed PMID: 31285241; PubMed Central PMCID: PMC6755743.

select

Hu K, Jordan AT, Zhang S, Dhabaria A, Kovach A, Rangel MV, Ueberheide B, Li H, Darwin KH. Characterization of Guided Entry of Tail-Anchored Proteins 3 Homologues in Mycobacterium tuberculosis. J Bacteriol. 2019 Jul 15;201(14). doi: 10.1128/JB.00159-19. Print 2019 Jul 15. PubMed PMID: 31036728; PubMed Central PMCID: PMC6597400.

select

Becker SH, Jastrab JB, Dhabaria A, Chaton CT, Rush JS, Korotkov KV, Ueberheide B, Darwin KH. The Mycobacterium tuberculosis Pup-proteasome system regulates nitrate metabolism through an essential protein quality control pathway. Proc Natl Acad Sci U S A. 2019 Feb 19;116(8):3202-3210. doi: 10.1073/pnas.1819468116. Epub 2019 Feb 5. PubMed PMID: 30723150; PubMed Central PMCID: PMC6386731.

select

Becker SH, Li H, Heran Darwin K. Biology and Biochemistry of Bacterial Proteasomes. Subcell Biochem. 2019;93:339-358. doi: 10.1007/978-3-030-28151-9_11. Review. PubMed PMID: 31939157; PubMed Central PMCID: PMC7155931.

select

Samanovic MI, Hsu HC, Jones MB, Jones V, McNeil MR, Becker SH, Jordan AT, Strnad M, Xu C, Jackson M, Li H, Darwin KH. Cytokinin Signaling in Mycobacterium tuberculosis. mBio. 2018 Jun 19;9(3). doi: 10.1128/mBio.00989-18. PubMed PMID: 29921668; PubMed Central PMCID: PMC6016246.

select

Hu K, Jastrab JB, Zhang S, Kovach A, Zhao G, Darwin KH, Li H. Proteasome substrate capture and gate opening by the accessory factor PafE from Mycobacterium tuberculosis. J Biol Chem. 2018 Mar 30;293(13):4713-4723. doi: 10.1074/jbc.RA117.001471. Epub 2018 Feb 5. PubMed PMID: 29414791; PubMed Central PMCID: PMC5880150.

select

Wu Y, Hu K, Li D, Bai L, Yang S, Jastrab JB, Xiao S, Hu Y, Zhang S, Darwin KH, Wang T, Li H. Mycobacterium tuberculosis proteasomal ATPase Mpa has a β-grasp domain that hinders docking with the proteasome core protease. Mol Microbiol. 2017 Jul;105(2):227-241. doi: 10.1111/mmi.13695. Epub 2017 May 3. PubMed PMID: 28419599; PubMed Central PMCID: PMC5575984.

select

Bai L, Jastrab JB, Isasa M, Hu K, Yu H, Gygi SP, Darwin KH, Li H. Structural Analysis of Mycobacterium tuberculosis Homologues of the Eukaryotic Proteasome Assembly Chaperone 2 (PAC2). J Bacteriol. 2017 May 1;199(9). doi: 10.1128/JB.00846-16. Print 2017 May 1. PubMed PMID: 28193903; PubMed Central PMCID: PMC5388811.

select

Jastrab JB, Samanovic MI, Copin R, Shopsin B, Darwin KH. Loss-of-Function Mutations in HspR Rescue the Growth Defect of a Mycobacterium tuberculosis Proteasome Accessory Factor E (pafE) Mutant. J Bacteriol. 2017 Apr 1;199(7). doi: 10.1128/JB.00850-16. Print 2017 Apr 1. PubMed PMID: 28096448; PubMed Central PMCID: PMC5350283.

select

Becker SH, Darwin KH. Bacterial Proteasomes: Mechanistic and Functional Insights. Microbiol Mol Biol Rev. 2017 Mar;81(1). doi: 10.1128/MMBR.00036-16. Print 2017 Mar. Review. PubMed PMID: 27974513; PubMed Central PMCID: PMC5312241.

select

Bai L, Hu K, Wang T, Jastrab JB, Darwin KH, Li H. Structural analysis of the dodecameric proteasome activator PafE in Mycobacterium tuberculosis. Proc Natl Acad Sci U S A. 2016 Apr 5;113(14):E1983-92. doi: 10.1073/pnas.1512094113. Epub 2016 Mar 21. PubMed PMID: 27001842; PubMed Central PMCID: PMC4833279.

select

Nowicka U, Hoffman M, Randles L, Shi X, Khavrutskii L, Stefanisko K, Tarasova NI, Darwin KH, Walters KJ. Mycobacterium tuberculosis copper-regulated protein SocB is an intrinsically disordered protein that folds upon interaction with a synthetic phospholipid bilayer. Proteins. 2016 Feb;84(2):193-200. doi: 10.1002/prot.24970. Epub 2015 Dec 29. PubMed PMID: 26650755; PubMed Central PMCID: PMC4718776.

select

Samanovic MI, Darwin KH. Game of 'Somes: Protein Destruction for Mycobacterium tuberculosis Pathogenesis. Trends Microbiol. 2016 Jan;24(1):26-34. doi: 10.1016/j.tim.2015.10.001. Epub 2015 Oct 29. Review. PubMed PMID: 26526503; PubMed Central PMCID: PMC4698092.

select

Clevers H, Firestein S, Ringrose L, Bernards R, Darwin KH, Vance RE. Radical Sabbaticals. Cell. 2015 Nov 5;163(4):788-9. doi: 10.1016/j.cell.2015.10.058. PubMed PMID: 26544929.

select

Darwin KH. Mycobacterium tuberculosis and Copper: A Newly Appreciated Defense against an Old Foe?. J Biol Chem. 2015 Jul 31;290(31):18962-6. doi: 10.1074/jbc.R115.640193. Epub 2015 Jun 8. Review. PubMed PMID: 26055711; PubMed Central PMCID: PMC4521017.

select

Shi X, Darwin KH. Copper homeostasis in Mycobacterium tuberculosis. Metallomics. 2015 Jun;7(6):929-34. doi: 10.1039/c4mt00305e. Review. PubMed PMID: 25614981; PubMed Central PMCID: PMC4465026.

select

Jastrab JB, Wang T, Murphy JP, Bai L, Hu K, Merkx R, Huang J, Chatterjee C, Ovaa H, Gygi SP, Li H, Darwin KH. An adenosine triphosphate-independent proteasome activator contributes to the virulence of Mycobacterium tuberculosis. Proc Natl Acad Sci U S A. 2015 Apr 7;112(14):E1763-72. doi: 10.1073/pnas.1423319112. Epub 2015 Mar 23. PubMed PMID: 25831519; PubMed Central PMCID: PMC4394314.

select

Samanovic MI, Tu S, Novák O, Iyer LM, McAllister FE, Aravind L, Gygi SP, Hubbard SR, Strnad M, Darwin KH. Proteasomal control of cytokinin synthesis protects Mycobacterium tuberculosis against nitric oxide. Mol Cell. 2015 Mar 19;57(6):984-994. doi: 10.1016/j.molcel.2015.01.024. Epub 2015 Feb 26. PubMed PMID: 25728768; PubMed Central PMCID: PMC4369403.

select

Jastrab JB, Darwin KH. Bacterial Proteasomes. Annu Rev Microbiol. 2015;69:109-27. doi: 10.1146/annurev-micro-091014-104201. Review. PubMed PMID: 26488274; PubMed Central PMCID: PMC4702487.

select

Cavet JS, Perry RD, Brunke S, Darwin KH, Fierke CA, Imlay JA, Murphy MEP, Schryvers AB, Thiele DJ, Weiser JN. Trace Metals in Host–Microbe Interactions: The Microbe Perspective. 2015;. Review. PubMed PMID: 33886200.

select

Bode NJ, Darwin KH. The Pup-Proteasome System of Mycobacteria. Microbiol Spectr. 2014 Oct;2(5). doi: 10.1128/microbiolspec.MGM2-0008-2013. Review. PubMed PMID: 26104367; PubMed Central PMCID: PMC4232953.

select

Shi X, Festa RA, Ioerger TR, Butler-Wu S, Sacchettini JC, Darwin KH, Samanovic MI. The copper-responsive RicR regulon contributes to Mycobacterium tuberculosis virulence. mBio. 2014 Feb 18;5(1). doi: 10.1128/mBio.00876-13. PubMed PMID: 24549843; PubMed Central PMCID: PMC3944814.

select

Samanovic MI, Li H, Darwin KH. The pup-proteasome system of Mycobacterium tuberculosis. Subcell Biochem. 2013;66:267-95. doi: 10.1007/978-94-007-5940-4_10. Review. PubMed PMID: 23479444; PubMed Central PMCID: PMC4212895.

select

Burns KE, McAllister FE, Schwerdtfeger C, Mintseris J, Cerda-Maira F, Noens EE, Wilmanns M, Hubbard SR, Melandri F, Ovaa H, Gygi SP, Darwin KH. Mycobacterium tuberculosis prokaryotic ubiquitin-like protein-deconjugating enzyme is an unusual aspartate amidase. J Biol Chem. 2012 Oct 26;287(44):37522-9. doi: 10.1074/jbc.M112.384784. Epub 2012 Aug 31. PubMed PMID: 22942282; PubMed Central PMCID: PMC3481346.

select

Merkx R, Burns KE, Slobbe P, El Oualid F, El Atmioui D, Darwin KH, Ovaa H. Synthesis and evaluation of a selective fluorogenic Pup derived assay reagent for Dop, a potential drug target in Mycobacterium tuberculosis. Chembiochem. 2012 Sep 24;13(14):2056-60. doi: 10.1002/cbic.201200460. Epub 2012 Aug 24. PubMed PMID: 22927162; PubMed Central PMCID: PMC3474595.

select

Samanovic MI, Ding C, Thiele DJ, Darwin KH. Copper in microbial pathogenesis: meddling with the metal. Cell Host Microbe. 2012 Feb 16;11(2):106-15. doi: 10.1016/j.chom.2012.01.009. Review. PubMed PMID: 22341460; PubMed Central PMCID: PMC3285254.

select

Burns KE, Darwin KH. Pupylation: proteasomal targeting by a protein modifier in bacteria. Methods Mol Biol. 2012;832:151-60. doi: 10.1007/978-1-61779-474-2_10. PubMed PMID: 22350883; PubMed Central PMCID: PMC3619960.

select

Cerda-Maira FA, McAllister F, Bode NJ, Burns KE, Gygi SP, Darwin KH. Reconstitution of the Mycobacterium tuberculosis pupylation pathway in Escherichia coli. EMBO Rep. 2011 Jul 8;12(8):863-70. doi: 10.1038/embor.2011.109. PubMed PMID: 21738222; PubMed Central PMCID: PMC3147258.

select

Festa RA, Jones MB, Butler-Wu S, Sinsimer D, Gerads R, Bishai WR, Peterson SN, Darwin KH. A novel copper-responsive regulon in Mycobacterium tuberculosis. Mol Microbiol. 2011 Jan;79(1):133-48. doi: 10.1111/j.1365-2958.2010.07431.x. Epub 2010 Oct 29. PubMed PMID: 21166899; PubMed Central PMCID: PMC3052634.

select

Wang T, Darwin KH, Li H. Binding-induced folding of prokaryotic ubiquitin-like protein on the Mycobacterium proteasomal ATPase targets substrates for degradation. Nat Struct Mol Biol. 2010 Nov;17(11):1352-7. doi: 10.1038/nsmb.1918. Epub 2010 Oct 17. PubMed PMID: 20953180; PubMed Central PMCID: PMC2988878.

select

Burns KE, Cerda-Maira FA, Wang T, Li H, Bishai WR, Darwin KH. "Depupylation" of prokaryotic ubiquitin-like protein from mycobacterial proteasome substrates. Mol Cell. 2010 Sep 10;39(5):821-7. doi: 10.1016/j.molcel.2010.07.019. Epub 2010 Aug 12. PubMed PMID: 20705495; PubMed Central PMCID: PMC2939144.