GID E3 ligase supramolecular chelate aasembly configures multipronged ubiquitin targeting of an oligomeric metabolic enzyme
Sherpa D, Chrustowicz J, Qiao S, Langlois CR, Hehl LA, Gottemukkala KV, Hansen FM, Karayel O, von Gronau S, Prabu JR, Mann M, Alpi AF, Schulman BA.
Mol Cell 2021 Apr22; 81: 1-15 doi: 10.1016/j.molcell.2021.03.025


Integrative proteomics reveals principles of dynamic phospho-signaling networks in human erythropoiesis
Karayel O, Peng X, Bludau I, Bhoopalan SV, Yao Y, Colaco ARF, Delgado AS, Schulman BA, Alpi AF, Weiss MJ, Mann M. 
Mol Syst Biol 2020 Dec; 16(12) doi:10.15252/msb.20209813

FBX011-mediatedproteolysis of BAHD1 relieves PRC2 dependent transcriptional repression in erythropoesis
Xu P, Scott DC, Xu B, Yao Y, Feng R, Cheng L, Mayberry K, Bi W, Palmer LE, King MT, Wang H, Li Y, Fan Y, Alpi AF, Li C, Peng J, Papizan J, Pruett-Miller SM, Spallek R, Bassermann F, Cheng Y, Schulman BA, Weiss MJ.
Blood 2020 Nov 6. (online ahead of print) doi: 10.1182/blood.2020007809

Interconversion between Anticipatory and Active GID E3 Ubiquitin Ligase Conformations via Metabolically Driven Substrate Receptor Assembly
Qiao S, Langlois CR, Chrustowicz J, Sherpa D, Karayel O, Hansen FM, Beier V, von Gronau S, Bollschweiler D, Schäfer T, Alpi AF, Mann M, Prabu JR, Schulman BA.
Mol Cell 2020, 77(1):150-163. doi:10.1016/j.molcel.2019.10.009.


ARIH2 is a Vif-dependent regulator of CUL5-mediated APOBEC3G degradation in HIV infection. 
Hüttenhain R, Xu J, Burton LA, Gordon D, Hultquist JF, Johnson JR, Satkamp L, Hiatt J, Rhee DY, Baek K, Crosby DC, Frankel AD, Marson A, Harper WJ, Alpi AF, Schulman BA, Gross JD, Krogan NJ.
Cell Host and Microbe. 2019, 26(1):86-99. doi:10.1016/j.chom.2019.05.008.


Coupled monoubiquitylation of the co-E3 ligase DCNL1 by Ariadne-RBR E3 ubiquitin ligases promotes cullin-RING ligase complex remodeling.
Kelsall IR, Kristariyanto YA, Knebel A, Wood NT, Kulathu Y, Alpi AF.
J Biol Chem. 2019, 294(8):2651-2664. doi: 10.1074/jbc.RA118.005861. Epub 2018 Dec 26.


ZOMES: the intriguing interplay of PCI complexes and the ubiquitin in protein homeostasis.
Alpi AF, Echalier A.
Cell Death Dis. Aug 24;8(8), 2017  e3021. DOI: 10.1038/cddis.2017.413. 

Blocking an N-terminal acetylation-dependent protein interaction inhibits an E3 ligase.
Scott DC, Hammill JT, Min J, Rhee DY, Connelly M, Sviderskiy VO, Bhasin D, Chen Y, Ong SS, Chai SC, Goktug AN, Huang G, Monda JK, Low J, Kim HS, Paulo JA, Cannon JR, Shelat AA, Chen T, Kelsall IR, Alpi AF, Pagala V, Wang X, Peng J, Singh B, Harper JW, Schulman BA, Guy RK. (2017)
Nat Chem Biol. 2017 Jun 5. DOI: 10.1038/nchembio.2386.


Two Distinct Types of E3 Ligases Work in Unison to Regulate Substrate Ubiquitylation.
Scott DC, Rhee DY, Duda DM, Kelsall IR, Olszewski JL, Paulo JA, de Jong A, Ovaa H, Alpi AF, Harper JW, Schulman BA. (2016)
Cell, 2016 Aug 25;166(5):1198-1214.e24. doi: 10.1016/j.cell.2016.07.027.

Loss of ubiquitin E2 Ube2w rescues hypersensitivity of Rnf4 mutant cells to DNA damage.
Maure JF, Moser SC, Jaffray EG, Alpi AF, Hay RT. (2016)
Sci Rep., 2016 May 17;6:26178

Mechanism and disease association of E2-conjugating enzymes: lessons from UBE2T and UBE2L3.
Alpi AF, Chaugule V, Walden H. (2016)
Biochem J. 2016 Oct 15;473(20):3401-3419. Review.


The Fanconi Anemia DNA Repair Pathway Is Regulated by an Interaction between Ubiquitin and the E2-like Fold Domain of FANCL.
Miles JA, Frost MG, Carroll E, Rowe ML, Howard MJ, Sidhu A, Chaugule VK, Alpi AF, Walden H. (2015) (Co-corresponding authorship)
J Biol Chem. 2015 Aug 21;290(34):20995-1006. doi: 10.1074/jbc.M115.675835.

AluY-mediated germline deletion, duplication and somatic stem cell reversion in UBE2T defines a new subtype of Fanconi anemia.
Virts EL, Jankowska A, Mackay C, Glaas MF, Wiek C, Kelich SL, Lottmann N, Kennedy FM, Marchal C, Lehnert E, Scharf RE, Dufour C, Lanciotti M, Farruggia P, Santoro A, Savasan S, Scheckenbach K, Schipper J, Wagenmann M, Lewis T, Leffak M, Farlow JL, Foroud TM, Honisch E, Niederacher D, Chakraborty SC, Vance GH, Pruss D, Timms KM, Lanchbury JS, Alpi AF, Hanenberg H (2015) (Co-corresponding authorship)
Hum Mol Genet. 2015 Sep 15;24(18):5093-108. doi: 10.1093/hmg/ddv227.


E3 ubiquitin ligase HOIP attenuates apoptotic cell death induced by cisplatin.
MacKay C, Carroll E, Ibrahim AFM, Garg A, Inman GJ, Hay RT, Alpi AF (2014)
Cancer Res. 2014 Apr 15;74(8):2246-2257. doi: 10.1158/0008-5472.CAN-13-2131.


TRIAD1 and HHARI bind to and are activated by distinct neddylated Cullin-RING ligase complexes.
Kelsall IR, Duda DM, Olszewski JL, Hofmann K, Knebel A, Langevin F, Wood N, Wightman M, Schulman BA, Alpi AF (2013)
EMBO J. 2013 Oct 30;32(21):2848-60. doi: 10.1038/emboj.2013.209.

Structure of HHARI, a RING-IBR-RING ubiquitin ligase: autoinhibition of an Ariadne-family E3 and insights into ligation mechanism.
Duda DM, Olszewski JL, Schuermann JP, Kurinov I, Miller DJ, Nourse A, Alpi AF, Schulman BA (2013)
Structure. 2013 Jun 4;21(6):1030-41. doi: 10.1016/j.str.2013.04.019.

C. elegans ring finger protein RNF-113 is involved in interstrand DNA crosslink repair and interacts with a RAD51C homolog.
Lee H, Alpi AF, Park MS, Rose A, Koo HS (2013)
PLoS One. 2013;8(3):e60071. doi: 10.1371/journal.pone.0060071.


RNF8 and RNF168 but not HERC2 are required for DNA damage-induced ubiquitylation in chicken DT40 cells.
Oestergaard VH, Pentzold C, Pedersen RT, Iosif S, Alpi A, Bekker-Jensen S, Mailand N, Lisby M. (2012)
DNA Repair (Amst). 2012 Nov 1;11(11):892-905. doi: 10.1016/j.dnarep.2012.08.005.

The Fanconi anaemia components UBE2T and FANCM are functionally linked to nucleotide excision repair.
Kelsall IR, Langenick J, MacKay C, Patel KJ, Alpi AF (2012)
PLoS One. 2012;7(5):e36970. doi: 10.1371/journal.pone.0036970. Epub 2012 May 15.


The Caenorhabditis elegans homolog of Gen1/Yen1 resolvases links DNA damage signaling to DNA double-strand break repair.
Bailly, A.P., Freeman, A., Hall, J., Déclais, A.C., Alpi, A.F., Lilley, D.M., Ahmed, S. and Gartner, A. (2010)
PLoS Genet, 2010, 6(7)


The Walker B motif in avian FANCM is required to limit sister chromatid exchanges but is dispensable for DNA crosslink repair.
Rosado IV, Niedzwiedz W, Alpi AF, Patel KJ (2009)
Nucleic Acids Res. 2009 Jul;37(13):4360-70. doi: 10.1093/nar/gkp365.

Functional Dissection of C. elegans CLK2/TEL2 cell cycle defects during embryogenesis and germ line development.
Moser, S., von Elsner, S., Buessing, I., Alpi, A.F., Schnabel, R. and Gartner A. (2009)
PLOS Genetics, 2009 Apr; 5(4)

Monoubiquitylation in the Fanconi anemia DNA damage response pathway.
Alpi AF, Patel KJ. (2009)
DNA Repair (Amst). 2009 Apr 5;8(4):430-5. doi: 10.1016/j.dnarep.2009.01.019. Epub 2009 Mar 4. Review.


Mechanistic insight into site-restricted monoubiquitination of FANCD2 by Ube2t, FANCL, and FANCI.
Alpi AF, Pace PE, Babu MM, Patel KJ. (2008)
Mol Cell. 2008 Dec 26;32(6):767-77. doi: 10.1016/j.molcel.2008.12.003.


UBE2T, the Fanconi anemia core complex, and FANCD2 are recruited independently to chromatin: a basis for the regulation of FANCD2 monoubiquitination.
Alpi A, Langevin F, Mosedale G, Machida YJ, Dutta A, Patel KJ. (2007)
Mol Cell Biol. 2007 Dec;27(24):8421-30.


The vertebrate Hef ortholog is a component of the Fanconi anemia tumor-suppressor pathway.
Mosedale G, Niedzwiedz W, Alpi A, Perrina F, Pereira-Leal JB, Johnson M, Langevin F, Pace P, Patel KJ. (2005)
Nat Struct Mol Biol. 2005 Sep;12(9):763-71. Epub 2005 Aug 21.


Multiple genetic pathways involving the Caenorhabditis elegans Bloom's syndrome genes him-6, rad-51, and top-3 are needed to maintain genome stability in the germ line.
Wicky C, Alpi A, Passannante M, Rose A, Gartner A, Müller F. (2004)
Mol Cell Biol. 2004 Jun;24(11):5016-27.


Cell cycle: check for asynchrony.
Schumacher B, Alpi A, Garter A. (2003)
Curr Biol. 2003 Jul 15;13(14):R560-2. Review.

Genetic and cytological characterization of the recombination protein RAD-51 in Caenorhabditis elegans.
Alpi A, Pasierbek P, Gartner A, Loidl J. (2003)
Chromosoma. 2003 Jul;112(1):6-16. Epub 2003 Apr 8.


C. elegans RAD-5/CLK-2 defines a new DNA damage checkpoint protein.
Ahmed S, Alpi A, Hengartner MO, Gartner A. (2001)
Curr Biol. 2001 Dec 11;11(24):1934-44.

A novel 14-kilodalton protein interacts with the mitogen-activated protein kinase scaffold mp1 on a late endosomal/lysosomal compartment.
Wunderlich W, Fialka I, Teis D, Alpi A, Pfeifer A, Parton RG, Lottspeich F, Huber LA. (2001)
J Cell Biol. 2001 Feb 19;152(4):765-76.

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