Karbstein, Katrin

Faculty Member

Positions

2017 - Associate Professor, Integrative Structural and Computational Biology (ISCB) , Scripps Research
2017 - Associate Professor (Joint Appointment), Molecular Medicine , Scripps Research
2013 - 2017 Associate Professor (Joint Appointment), Cell and Molecular Biology (CMB) , Scripps Research
2012 - 2017 Associate Professor, Cancer Biology , Scripps Research
2010 - 2012 Assistant Professor, Cancer Biology , Scripps Research

Dr. Karbstein studies the function of essential proteins involved in the assembly of the 40S ribosomal subunit using a variety of biochemical, genetic, kinetic and biophysical techniques.

Contact

kkarbst@scripps.edu

Websites

Katrin Karbstein, Ph.D.

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academic article
- Parker, M. D., Collins, J. C., Korona, B., Ghalei, H., Karbstein, K. A kinase-dependent checkpoint prevents escape of immature ribosomes into the translating pool PLoS Biology 2019 17 DOI:10.1371/journal.pbio.3000329; 10.1371/journal.pbio.3000329.r001; 10.1371/journal.pbio.3000329.r002; 10.1371/journal.pbio.3000329.r003; 10.1371/journal.pbio.3000329.r004; 10.1371/journal.pbio.3000329.r005; 10.1371/journal.pbio.3000329.r006 PMID:31834877 PMCID:PMC6934326
- Yin, Z., Liu, X., Ariosa, A., Huang, H., Jin, M., Karbstein, K., Klionsky, D. J. Psp2, a novel regulator of autophagy that promotes autophagy-related protein translation Cell Research 2019 29:994-1008 DOI:10.1038/s41422-019-0246-4 PMID:31666677 PMCID:PMC6951345
- Karbstein, K. Mitochondria teach ribosome assembly Science 2019 365:1077-1078 DOI:10.1162/science.aay7771 PMID:31515371
- Khoshnevis, S., Liu, X., Dattolo, M. D., Karbstein, K. Rrp5 establishes a checkpoint for 60S assembly during 40S maturation RNA 2019 25:1164-1176 DOI:10.1261/rna.071225.119 PMID:31217256
- Ferretti, M. B., Karbstein, K. Does functional specialization of ribosomes really exist? RNA 2019 25:521-538 DOI:10.1261/rna.069823.118 PMID:30733326 PMCID:PMC6467006
- Karbstein, K. Responsible peer review ACS Chemical Biology 2018 13:3217-3218 DOI:10.1021/acschembio.8b01035
- Collins, J. C., Ghalei, H., Doherty, J. R., Huang, H., Culver, R. N., Karbstein, K. Ribosome biogenesis factor Ltv1 chaperones the assembly of the small subunit head Journal of Cell Biology 2018 217:4141-4154 DOI:10.1083/jcb.201804163 PMID:30348748 PMCID:PMC6279377
- Ferretti, M. B., Barre, J. L., Karbstein, K. Translational reprogramming provides a blueprint for cellular adaptation Cell Chemical Biology 2018 25:1372-1379 DOI:10.1016/j.chembiol.2018.08.003 PMID:30174311 PMCID:PMC6239892
- Ferretti, M. B., Ghalei, H., Ward, E. A., Potts, E. L., Karbstein, K. Rps26 directs mRNA-specific translation by recognition of Kozak sequence elements Nature Structural & Molecular Biology 2017 24:700-707 DOI:10.1038/nsmb.3442 PMID:28759050
- Johnson, M. C., Ghalei, H., Doxtader, K. A., Karbstein, K., Stroupe, M. E. Structural heterogeneity in pre-40S ribosomes Structure 2017 25:329-340 DOI:10.1016/j.str.2016.12.011 PMID:28111018 PMCID:PMC5314460
- Ghalei, H., Trepreau, J., Collins, J. C., Bhaskaran, H., Strunk, B. S., Karbstein, K. The ATPase Fap7 tests the ability to carry our translocation-like conformational changes and releases Dim1 during 40S ribosome maturation Molecular Cell 2017 67:990-1000 DOI:10.1016/j.molcel.2017.08.007 PMID:28890337
- Khoshnevis, S., Askenasy, I., Johnson, M. C., Dattolo, M. D., Young-Erdos, C. L., Stroupe, M. E., Karbstein, K. The DEAD-box protein Rok1 orchestrates 40S and 60S ribosome assembly by promoting the release of Rrp5 from pre-40S ribosomes to allow for 60S maturation PLoS Biology 2016 14 DOI:10.1371/journal.pbio.1002480 PMID:27280440 PMCID:PMC4900678
- Karbstein, K. What will the future hold: RNP quality control and degradation RNA-a Publication of the RNA Society 2015 21:657-658 DOI:10.1261/rna.050658.115 PMID:25780179 PMCID:PMC4371321
- Ghalei, H., Schaub, F. X., Doherty, J. R., Noguchi, Y., Roush, W. R., Cleveland, J. L., Stroupe, M. E., Karbstein, K. Hrr25/CK1 delta-directed release of Ltv1 from pre-40S ribosomes is necessary for ribosome assembly and cell growth Journal of Cell Biology 2015 208:745-759 DOI:10.1083/jcb.201409056 PMID:25778921 PMCID:PMC4362465
- Tyagi, R., Shahani, N., Gorgen, L., Ferretti, M., Pryor, W., Chen, P. Y., Swarnkar, S., Worley, P. F., Karbstein, K., Snyder, S. H., Subramaniam, S. Rheb inhibits protein synthesis by activating the PERK-eIF2 alpha signaling cascade Cell Reports 2015 10:684-693 DOI:10.1016/j.celrep.2015.01.014 PMID:25660019 PMCID:PMC4524804
- de la Cruz, J., Karbstein, K., Woolford Jr., J. L. Functions of ribosomal proteins in assembly of eukaryotic ribosomes in vivo Annual Review of Biochemistry 2015 84:93-129 DOI:10.1146/annurev-biochem-060614-033917 PMID:25706898 PMCID:PMC4772166
- Young, C. L., Khoshnevis, S., Karbstein, K. Cofactor-dependent specificity of a DEAD-box protein Proceedings of the National Academy of Sciences of the United States of America 2013 110:E2668-E2676 DOI:10.1073/pnas.1302577110 PMID:23630256 PMCID:PMC3718167
- Karbstein, K. Quality control mechanisms during ribosome maturation Trends in Cell Biology 2013 23:242-250 DOI:10.1016/j.tcb.2013.01.004 PMID:23375955 PMCID:PMC3640646
- Strunk, B. S., Novak, M. N., Young, C. L., Karbstein, K. A translation-like cycle is a quality control checkpoint for maturing 40s ribosome subunits Cell 2012 150:111-121 DOI:10.1016/j.cell.2012.04.044 PMID:22770215 PMCID:PMC3615461
- Young, C., Karbstein, K. Analysis of cofactor effects on RNA helicases Methods in Enzymology 2012 511:213-237 DOI:10.1016/b978-0-12-396546-2.00010-3 PMID:22713322
- Karbstein, K. Inside the 40s ribosome assembly machinery Current Opinion in Chemical Biology 2011 15:657-663 DOI:10.1016/j.cbpa.2011.07.023 PMID:21862385 PMCID:PMC3329787
- Horn, D. M., Mason, S. L., Karbstein, K. Rcl1 protein, a novel nuclease for 18 S ribosomal RNA production Journal of Biological Chemistry 2011 286:34082-34087 DOI:10.1074/jbc.M111.268649 PMID:21849504 PMCID:PMC3190816
- Strunk, B. S., Loucks, C. R., Su, M., Vashisth, H., Cheng, S. S., Schilling, J., Brooks, C. L., Karbstein, K., Skiniotis, G. Ribosome assembly factors prevent premature translation initiation by 40S assembly intermediates Science 2011 333:1449-1453 DOI:10.1126/science.1208245 PMID:21835981 PMCID:PMC3402165
- Young, C. L., Karbstein, K. The roles of S1 RNA-binding domains in Rrp5's interactions with pre-rRNA RNA-a Publication of the RNA Society 2011 17:512-521 DOI:10.1261/rna.2458811 PMID:21233221 PMCID:PMC3039150
- Woolls, H. A., Lamanna, A. C., Karbstein, K. Roles of Dim2 in ribosome assembly Journal of Biological Chemistry 2011 286:2578-2586 DOI:10.1074/jbc.M110.191494 PMID:21075849 PMCID:PMC3024753
- Campbell, M. G., Karbstein, K. Protein-protein interactions within late pre-40S ribosomes PLoS One 2011 6:e16194 DOI:10.1371/journal.pone.0016194 PMID:21283762 PMCID:PMC3024409
- Lamanna, A. C., Karbstein, K. An RNA conformational switch regulates pre-18S rRNA cleavage Journal of Molecular Biology 2011 405:3-17 DOI:10.1016/j.jmb.2010.09.064 PMID:20934433 PMCID:PMC3006654
- Karbstein, K. Chaperoning ribosome assembly Journal of Cell Biology 2010 189:11-12 DOI:10.1083/jcb.201002102 PMID:20368615 PMCID:PMC2854375
- Strunk, B. S., Karbstein, K. Powering through ribosome assembly RNA-a Publication of the RNA Society 2009 15:2083-2104 DOI:10.1261/rna.1792109 PMID:19850913 PMCID:PMC2779681
- Lamanna, A. C., Karbstein, K. Nob1 binds the single-stranded cleavage site d at the 3 '-end of 18s rRNA with its pin domain Proceedings of the National Academy of Sciences of the United States of America 2009 106:14259-14264 DOI:10.1073/pnas.0905403106 PMID:19706509 PMCID:PMC2732849
- Todd, G., Karbstein, K. RNA takes center stage Biopolymers 2007 87:275-278 DOI:10.1002/bip.20824 PMID:17688253
- Karbstein, K. Role of GTPases in ribosome assembly Biopolymers 2007 87:1-11 DOI:10.1002/bip.20762 PMID:17514744
- Coppola, B. P., Holl, M. M. B., Karbstein, K. Closing the gap between interdisciplinary research and disciplinary teaching ACS Chemical Biology 2007 2:518-520 DOI:10.1021/cb7001544 PMID:17708666
- Karbstein, K., Lee, J., Herschlag, D. Probing the role of a secondary structure element at the 5'- and 3'-splice sites in group I intron self-splicing: the tetrahymena L-16 ScaI ribozyme reveals a new role of the G.U pair in self-splicing Biochemistry 2007 46:4861-4875 DOI:10.1021/bi062169g PMID:17385892 PMCID:PMC2597287
- Karbstein, K., Doudna, J. A. GTP-dependent formation of a ribonucleoprotein subcomplex required for ribosome biogenesis Journal of Molecular Biology 2006 356:432-443 DOI:10.1016/j.jmb.2005.11.052 PMID:16376378
- Karbstein, K., Jonas, S., Doudna, J. A. An essential GTpase promotes assembly of preribosomal RNA processing complexes Molecular Cell 2005 20:633-643 DOI:10.1016/j.molcel.2005.09.017 PMID:16307926
- Karbstein, K., Tang, K. H., Herschlag, D. A base triple in the tetrahymena group i core affects the reaction equilibrium via a threshold effect RNA-a Publication of the RNA Society 2004 10:1730-1739 DOI:10.1261/rna.7118104 PMID:15496521 PMCID:PMC1370661
- Karbstein, K., Doudna, J. A. RNA: Primed for packing? Chemistry & Biology 2004 11:149-151 DOI:10.1016/j.chembiol.2004.02.007 PMID:15123272
- Karbstein, K., Herschlag, D. Extraordinarily slow binding of guanosine to the Tetrahymena group I ribozyme: Implications for RNA preorganization and function Proceedings of the National Academy of Sciences of the United States of America 2003 100:2300-2305 DOI:10.1073/pnas.252749799 PMID:12591943 PMCID:PMC151335
- Karbstein, K., Carroll, K. S., Herschlag, D. Probing the Tetrahymena group I ribozyme reaction in both directions Biochemistry 2002 41:11171-11183 DOI:10.1021/bi0202631 PMID:12220182
- Wang, S. L., Karbstein, K., Peracchi, A., Beigelman, L., Herschlag, D. Identification of the hammerhead ribozyme metal ion binding site responsible for rescue of the deleterious effect of a cleavage site phosphorothioate Biochemistry 1999 38:14363-14378 DOI:10.1021/bi9913202 PMID:10572011