Faculty / Research

Markus Seeliger, PhD

Assistant Professor 

 

Postdoctoral Fellow with Professor John Kuriyan,UC Berkeley

Ph.D., Cambridge University

Diploma, Biochemistry, Hannover University, Germany

631-444-3558  markus.seeliger@stonybrook.edu
Molecular Mechanism of Protein Kinase and Ubiquitin Ligase signaling in Cancer and Aging

 

Our research group is interested in the molecular mechanism that underlies the signaling of protein tyrosine kinases and ubiquitin ligases. Protein kinases are well established drug targets in oncology and inflammatory diseases. Kinases can access multiple well defined structural states and we are studying how small molecule inhibitors interact with these structures.

 

The aim for this NIH funded project is to understand the conformational exchange between kinase conformations as well as to understand the inhibitory mechanism of kinase inhibitors. For this we are using X-ray crystallography, nulcear magnetic resonance spectroscopy (NMR), protein engineering and other biophysical methods in collaboration with computational biologists. The ubiquitin system relies on a highly modular system of enzymes to ligate ubiquitin onto substrate proteins which in many cases leads to the degradation of the substrate protein via the proteasome. The potential of the ubiquitin system as a therapeutic target is illustrated by the success of the proteasome inhibitor bortezomib in the treatment of multiple myeloma. We are interested in applying concepts from the field of protein kinase research to the study of ubiquitin conjugating enzymes (E2) and ubiquitin ligases (E3) with the aim of enabling specific therapeutics. Our current aim is to study the change in substrate spectra of ubiquitin ligases upon aging in yeast cells. This is work is generously supported by the Ellison Medical Foundation.

Markus Seeliger developed an interest in protein engineering and biophysical chemistry during his diploma research at the Center for Protein Engineering with Alan Fersht and Laura Itzhaki. He pursued his graduate research with Laura Itzhaki on the folding,dynamics and function of a small cell-cycle adapter protein called Cks1.  Incidentally, Cks1 connects kinase and ubiquitin signaling by targeting the Cdk2 inhibitor p27 to the ubiquitin ligase SCF/Skp2. For his postdoctoral research, Markus decided to join John Kuriyan’s group at Berkeley to study the solution dynamics of Abl kinase. This research led into a Pathway to Independence Award from the NIH and in 2009 Markus decided to join the faculty at Stony Brook University Medical School, which provides an exciting environment for biophysical research through proximity to the excellent facilities at Brook Haven National Lab, medical research at Stony Brook Medical School and computational biology at the Laufer Center and to his collaborators in New York.

Anti-diabetic activity of insulin-degrading enzyme inhibitors mediated by multiple hormones
Maianti J.P., A McFedries, Z.H. Foda, R.E. Kleiner, X.Q. Du, M.A. Leissring, W.J. Tang, M.J. Charron, M.A. Seeliger, A. Saghatelian, D.R. Liu
Nature, 2014. May 21. [Epub ahead of print]
http://www.ncbi.nlm.nih.gov/pubmed/24847884


A novel activating, germline JAK2 mutation, JAK2R564Q, causes familial essential thrombocytosis.
Etheridge S.L., M.E. Cosgrove, V. Sangkhae, L. Corbo, M. Roh, M.A. Seeliger, E.L. Chan, I.S. Hitchcock.
Blood, 2013. Dec 31. [Epub ahead of print]
http://www.ncbi.nlm.nih.gov/pubmed/24381227

Conformation-selective inhibitors reveal differences in the activation and phosphate-binding loops of the tyrosine kinases Abl and Src.
Hari S.B., B.G. Perera, P. Ranjitkar, M.A. Seeliger, and D.J. Maly.
ACS Chem Biol, 2013. 8(12):2734-43.
http://www.ncbi.nlm.nih.gov/pubmed/24106839

p73 - constitutively open for business
Seeliger, M.A., and U.M. Moll
Cell Death Differ, 2013. 20(8):972-3
http://www.ncbi.nlm.nih.gov/pubmed/23832148

Metazoan-like signaling in a unicellular receptor tyrosine kinase.
Schultheiss, K.P., B.P. Craddock, M. Tong, M. Seeliger, and W.T. Miller,
BMC Biochemistry, 2013. 14(1):4
http://www.ncbi.nlm.nih.gov/pubmed/?term=23398683

Divergent allosteric control of the IRE1α endoribonuclease using kinase inhibitors.
Wang, L., B.G. Perera, S.B. Hari, B. Bhhatarai, B.J. Backes, M.A. Seeliger, S.C. Schürer, S.A. Oakes, F.R Papa, and D.J. Maly,
Nat Chem Biol. 2012. 8(12): p. 982-9.
http://www.ncbi.nlm.nih.gov/pubmed/?term=23086298

Chapter Eleven - Analysis of DEAD-Box Proteins in mRNA Export
Monpetit, B., M.A. Seeliger, and K. Weis,
Methods in Enzymology, 2012. 511: p. 239-54
http://www.sciencedirect.com/science/article/pii/B9780123965462000115

Highly specific, bisubstrate-competitive Src inhibitors from DNA-templated macrocycles.
Georghiou, G., R.E. Kleiner, M. Pulkoski-Gross, D.R. Liu, and M.A. Seeliger,
Nat Chem Biol. 2012. 8(4): p. 366-74
http://www.ncbi.nlm.nih.gov/pubmed?term=22344177

How does a drug molecule find its target binding site?
Shan, Y., E.T. Kim, M.P. Eastwood, R.O. Dror, M.A. Seeliger, and D.E. Shaw,
J Am Chem Soc, 2011. 133(24): p. 9181-3.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=21545110

A conserved mechanism of DEAD-box ATPase activation by nucleoporins and InsP6 in mRNA export.
Montpetit, B., N.D. Thomsen, K.J. Helmke, M.A. Seeliger, J.M. Berger, and K. Weis,
Nature, 2011. 472(7342): p. 238-42.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=21441902

Catalytic control in the EGF receptor and its connection to general kinase regulatory
mechanisms.
Jura, N., X. Zhang, N.F. Endres, M.A. Seeliger, T. Schindler, and J. Kuriyan,
Mol Cell, 2011. 42(1): p. 9-22.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=21474065

Discovery of a small-molecule type II inhibitor of wild-type and gatekeeper mutants of BCR-ABL, PDGFRalpha, Kit, and Src kinases: novel type II inhibitor of gatekeeper mutants.
Weisberg, E., H.G. Choi, A. Ray, R. Barrett, J. Zhang, T. Sim, W. Zhou, M. Seeliger, M.
Cameron, M. Azam, J.A. Fletcher, M. Debiec-Rychter, M. Mayeda, D. Moreno, A.L. Kung, P.A.
Janne, R. Khosravi-Far, J.V. Melo, P.W. Manley, S. Adamia, C. Wu, N. Gray, and J.D. Griffin,
Blood, 2010. 115(21): p. 4206-16.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=20299508

A conserved protonation-dependent switch controls drug binding in the Abl kinase.
Shan, Y., M.A. Seeliger, M.P. Eastwood, F. Frank, H. Xu, M.O. Jensen, R.O. Dror, J. Kuriyan, and D.E. Shaw,
Proc Natl Acad Sci U S A, 2009. 106(1): p. 139-44.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19109437

Equally potent inhibition of c-Src and Abl by compounds that recognize inactive kinase conformations.
Seeliger, M.A., P. Ranjitkar, C. Kasap, Y. Shan, D.E. Shaw, N.P. Shah, J. Kuriyan, and D.J. Maly,
Cancer Res, 2009. 69(6): p. 2384-92.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19276351

A MAPK scaffold lends a helping hand.
Seeliger, M.A. and J. Kuriyan,
Cell, 2009. 136(6): p. 994-6.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19303841

Comparative analysis of mutant tyrosine kinase chemical rescue.
Muratore, K.E., M.A. Seeliger, Z. Wang, D. Fomina, J. Neiswinger, J.J. Havranek, D. Baker, J. Kuriyan, and P.A. Cole,
Biochemistry, 2009. 48(15): p. 3378-86.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19260709

N-myristoylated c-Abl tyrosine kinase localizes to the endoplasmic reticulum upon binding to an allosteric inhibitor.
Choi, Y., M.A. Seeliger, S.B. Panjarian, H. Kim, X. Deng, T. Sim, B. Couch, A.J. Koleske, T.E. Smithgall, and N.S. Gray,
J Biol Chem, 2009. 284(42): p. 29005-14.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19679652

Tuning a three-component reaction for trapping kinase substrate complexes.
Statsuk, A.V., D.J. Maly, M.A. Seeliger, M.A. Fabian, W.H. Biggs, 3rd, D.J. Lockhart, P.P.
Zarrinkar, J. Kuriyan, and K.M. Shokat,
J Am Chem Soc, 2008. 130(51): p. 17568-74.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=19053485

Structural basis for the recognition of c-Src by its inactivator Csk.
Levinson, N.M., M.A. Seeliger, P.A. Cole, and J. Kuriyan,
Cell, 2008. 134(1): p. 124-34.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18614016

Activation of tyrosine kinases by mutation of the gatekeeper threonine.
Azam, M., M.A. Seeliger, N.S. Gray, J. Kuriyan, and G.Q. Daley,
Nat Struct Mol Biol, 2008. 15(10): p. 1109-18.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=18794843

c-Src binds to the cancer drug imatinib with an inactive Abl/c-Kit conformation and a distributed thermodynamic penalty.
Seeliger, M.A., B. Nagar, F. Frank, X. Cao, M.N. Henderson, and J. Kuriyan,
Structure, 2007. 15(3): p. 299-311.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=17355866


Structure of the kinase domain of an imatinib-resistant Abl mutant in complex with the Aurora kinase inhibitor VX-680.
Young, M.A., N.P. Shah, L.H. Chao, M. Seeliger, Z.V. Milanov, W.H. Biggs, 3rd, D.K. Treiber,
H.K. Patel, P.P. Zarrinkar, D.J. Lockhart, C.L. Sawyers, and J. Kuriyan,
Cancer Res, 2006. 66(2): p. 1007-14.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16424036

Activation of ubiquitin ligase SCF(Skp2) by Cks1: insights from hydrogen exchange mass
spectrometry.
Yao, Z.P., M. Zhou, S.E. Kelly, M.A. Seeliger, C.V. Robinson, and L.S. Itzhaki,
J Mol Biol, 2006. 363(3): p. 673-86.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16979657

Organization of the SH3-SH2 unit in active and inactive forms of the c-Abl tyrosine kinase.
Nagar, B., O. Hantschel, M. Seeliger, J.M. Davies, W.I. Weis, G. Superti-Furga, and J. Kuriyan,
Mol Cell, 2006. 21(6): p. 787-98.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16543148

Folding and fibril formation of the cell cycle protein Cks1.
Bader, R., M.A. Seeliger, S.E. Kelly, L.L. Ilag, F. Meersman, A. Limones, B.F. Luisi, C.M.
Dobson, and L.S. Itzhaki,
J Biol Chem, 2006. 281(27): p. 18816-24.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16675442

High yield bacterial expression of active c-Abl and c-Src tyrosine kinases.
Seeliger, M.A., M. Young, M.N. Henderson, P. Pellicena, D.S. King, A.M. Falick, and J.
Kuriyan,
Protein Sci, 2005. 14(12): p. 3135-9.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16260764

Role of conformational heterogeneity in domain swapping and adapter function of the Cks
proteins.
Seeliger, M.A., M. Spichty, S.E. Kelly, M. Bycroft, S.M. Freund, M. Karplus, and L.S. Itzhaki,
J Biol Chem, 2005. 280(34): p. 30448-59.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15772084

Mechanism of CDK5/p25 binding by CDK inhibitors.
Mapelli, M., L. Massimiliano, C. Crovace, M.A. Seeliger, L.H. Tsai, L. Meijer, and A. Musacchio,
J Med Chem, 2005. 48(3): p. 671-9.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15689152

Weak cooperativity in the core causes a switch in folding mechanism between two proteins of
the cks family.
Seeliger, M.A., S.E. Breward, and L.S. Itzhaki,
J Mol Biol, 2003. 325(1): p. 189-99.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=12473461

Cooperative organization in a macromolecular complex.
Seeliger, M.A., S.E. Breward, A. Friedler, O. Schon, and L.S. Itzhaki,
Nat Struct Biol, 2003. 10(9): p. 718-24.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=12897769

Three different binding sites of Cks1 are required for p27-ubiquitin ligation.
Sitry, D., M.A. Seeliger, T.K. Ko, D. Ganoth, S.E. Breward, L.S. Itzhaki, M. Pagano, and A. Hershko,
J Biol Chem, 2002. 277(44): p. 42233-40.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=12140288

Folding and association of the human cell cycle regulatory proteins ckshs1 and ckshs2.
Seeliger, M.A., J.W. Schymkowitz, F. Rousseau, H.R. Wilkinson, and L.S. Itzhaki,
Biochemistry, 2002. 41(4): p. 1202-10.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=11802719