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
- Huang, H., Karbstein, K. Assembly factors chaperone ribosomal RNA folding by isolating helical junctions that are prone to misfolding Proceedings of the National Academy of Sciences of the United States of America 2021 118 DOI:10.1073/pnas.2101164118 PMID:34135123 PMCID:PMC8237570
- Rai, J., Parker, M. D., Huang, H., Choy, S., Ghalei, H., Johnson, M. C., Karbstein, K., Stroupe, M. E. An open interface in the pre-80S ribosome coordinated by ribosome assembly factors Tsr1 and Dim1 enables temporal regulation of Fap7 RNA 2020 27:221-233 DOI:10.1261/rna.077610.120 PMID:33219089 PMCID:PMC7812869
- Huang, H., Ghalei, H., Karbstein, K. Quality control of 40S ribosome head assembly ensures scanning competence Journal of Cell Biology 2020 219 DOI:10.1083/jcb.202004161 PMID:33007085 PMCID:PMC7534925
- 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