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Jermaine L. Jenkins, Ph.D.

Jermaine L. Jenkins, Ph.D.

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About Me

Faculty Appointments

Assistant Professor - Department of Biochemistry and Biophysics (SMD)

Research

Publications

Journal Articles

Knotty is nice: metabolite binding and RNA-mediated gene regulation by the preQ riboswitch family.

Kiliushik D, Goenner C, Law M, Schroeder GM, Srivastava Y, Jenkins JL, Wedekind JE

The Journal of biological chemistry.. 2024 October 30 :107951. Epub 10/30/2024.

Two riboswitch classes that share a common ligand-binding fold show major differences in the ability to accommodate mutations.

Srivastava Y, Akinyemi O, Rohe TC, Pritchett EM, Baker CD, Sharma A, Jenkins JL, Mathews DH, Wedekind JE

Nucleic acids research.. 2024 October 16 Epub 10/16/2024.

Recurrent Neurodevelopmentally Associated Variants of the Pre-mRNA Splicing Factor U2AF2 Alter RNA Binding Affinities and Interactions.

Maji D, Jenkins JL, Boutz PL, Kielkopf CL

Biochemistry.. 2024 October 10 Epub 10/10/2024.

Full-Length NAD-I Riboswitches Bind a Single Cofactor but Cannot Discriminate against Adenosine Triphosphate.

Srivastava Y, Blau ME, Jenkins JL, Wedekind JE

Biochemistry.. 2023 December 562 (23):3396-3410. Epub 11/10/2023.

Structure and function analysis of a type III preQ-I riboswitch from Escherichia coli reveals direct metabolite sensing by the Shine-Dalgarno sequence.

Schroeder GM, Kiliushik D, Jenkins JL, Wedekind JE

The Journal of biological chemistry.. 2023 October 299 (10):105208. Epub 09/01/2023.

A riboswitch separated from its ribosome-binding site still regulates translation.

Schroeder GM, Akinyemi O, Malik J, Focht CM, Pritchett EM, Baker CD, McSally JP, Jenkins JL, Mathews DH, Wedekind JE

Nucleic acids research.. 2023 March 2151 (5):2464-2484. Epub 1900 01 01.

A UHM-ULM interface with unusual structural features contributes to U2AF2 and SF3B1 association for pre-mRNA splicing.

Galardi JW, Bela VN, Jeffery N, He X, Glasser E, Loerch S, Jenkins JL, Pulvino MJ, Boutz PL, Kielkopf CL

The Journal of biological chemistry.. 2022 August 298 (8):102224. Epub 07/01/2022.

Pre-mRNA splicing factor U2AF2 recognizes distinct conformations of nucleotide variants at the center of the pre-mRNA splice site signal.

Glasser E, Maji D, Biancon G, Puthenpeedikakkal AMK, Cavender CE, Tebaldi T, Jenkins JL, Mathews DH, Halene S, Kielkopf CL

Nucleic acids research.. 2022 May 2050 (9):5299-5312. Epub 1900 01 01.

A small RNA that cooperatively senses two stacked metabolites in one pocket for gene control.

Schroeder GM, Cavender CE, Blau ME, Jenkins JL, Mathews DH, Wedekind JE

Nature communications.. 2022 January 1113 (1):199. Epub 01/11/2022.

A synthetic small molecule stalls pre-mRNA splicing by promoting an early-stage U2AF2-RNA complex.

Chatrikhi R, Feeney CF, Pulvino MJ, Alachouzos G, MacRae AJ, Falls Z, Rai S, Brennessel WW, Jenkins JL, Walter MJ, Graubert TA, Samudrala R, Jurica MS, Frontier AJ, Kielkopf CL

Cell chemical biology.. 2021 August 1928 (8):1145-1157.e6. Epub 03/08/2021.

Affinity and Structural Analysis of the U1A RNA Recognition Motif with Engineered Methionines to Improve Experimental Phasing.

Srivastava Y, Bonn-Breach R, Chavali SS, Lippa GM, Jenkins JL, Wedekind JE

Crystals.. 2021 March 11 (3)Epub 03/10/2021.

Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing.

Maji D, Glasser E, Henderson S, Galardi J, Pulvino MJ, Jenkins JL, Kielkopf CL

The Journal of biological chemistry.. 2020 December 11295 (50):17148-17157. Epub 10/05/2020.

Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing.

Maji D, Glasser E, Henderson S, Galardi J, Pulvino MJ, Jenkins JL, Kielkopf CL

The Journal of biological chemistry.. 2020 December 11295 (50):17148-17157. Epub 1900 01 01.

Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors.

Chavali SS, Mali SM, Jenkins JL, Fasan R, Wedekind JE

The Journal of biological chemistry.. 2020 December 4295 (49):16470-16486. Epub 10/13/2020.

Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors.

Chavali SS, Mali SM, Jenkins JL, Fasan R, Wedekind JE

The Journal of biological chemistry.. 2020 December 4295 (49):16470-16486. Epub 1900 01 01.

An Allosteric Binding Site on Sortilin Regulates the Trafficking of VLDL, PCSK9, and LDLR in Hepatocytes.

Sparks RP, Arango AS, Jenkins JL, Guida WC, Tajkhorshid E, Sparks CE, Sparks JD, Fratti RA

Biochemistry.. 2020 November 1759 (45):4321-4335. Epub 11/05/2020.

Analysis of a preQ1-I riboswitch in effector-free and bound states reveals a metabolite-programmed nucleobase-stacking spine that controls gene regulation.

Schroeder GM, Dutta D, Cavender CE, Jenkins JL, Pritchett EM, Baker CD, Ashton JM, Mathews DH, Wedekind JE

Nucleic acids research.. 2020 August 2048 (14):8146-8164. Epub 1900 01 01.

A small-molecule competitive inhibitor of phosphatidic acid binding by the AAA+ protein NSF/Sec18 blocks the SNARE-priming stage of vacuole fusion.

Sparks RP, Arango AS, Starr ML, Aboff ZL, Hurst LR, Rivera-Kohr DA, Zhang C, Harden KA, Jenkins JL, Guida WC, Tajkhorshid E, Fratti RA

The Journal of biological chemistry.. 2019 November 15294 (46):17168-17185. Epub 09/12/2019.

Cus2 enforces the first ATP-dependent step of splicing by binding to yeast SF3b1 through a UHM-ULM interaction.

Talkish J, Igel H, Hunter O, Horner SW, Jeffery NN, Leach JR, Jenkins JL, Kielkopf CL, Ares M

RNA.. 2019 August 25 (8):1020-1037. Epub 05/20/2019.

Platelet-derived ?2M regulates monocyte inflammatory responses.

Hilt ZT, Pariser DN, Ture SK, Mohan A, Quijada P, Asante A, Cameron SJ, Sterling JA, Merkel AR, Johanson AL, Jenkins JL, Small EM, McGrath KE, Palis J, Elliott MR, Morrell CN

JCI insight.. 2019 March 74 (5)Epub 03/07/2019.

Phosphatidic acid induces conformational changes in Sec18 protomers that prevent SNARE priming.

Starr ML, Sparks RP, Arango AS, Hurst LR, Zhao Z, Lihan M, Jenkins JL, Tajkhorshid E, Fratti RA

The Journal of biological chemistry.. 2019 March 1294 (9):3100-3116. Epub 01/07/2019.

The pre-mRNA splicing and transcription factor Tat-SF1 is a functional partner of the spliceosome SF3b1 subunit via a U2AF homology motif interface.

Loerch S, Leach JR, Horner SW, Maji D, Jenkins JL, Pulvino M, Kielkopf CL

The Journal of biological chemistry.. 2019 February 22294 (8):2892-2902. Epub 12/19/2018.

Use of Surface Plasmon Resonance (SPR) to Determine Binding Affinities and Kinetic Parameters Between Components Important in Fusion Machinery.

Sparks RP, Jenkins JL, Fratti R

Methods in molecular biology.. 2019 1860 :199-210. Epub 1900 01 01.

Cancer-Associated Mutations Mapped on High-Resolution Structures of the U2AF2 RNA Recognition Motifs.

Glasser E, Agrawal A, Jenkins JL, Kielkopf CL

Biochemistry.. 2017 September 1256 (36):4757-4761. Epub 09/01/2017.

Metalloriboswitches: RNA-based inorganic ion sensors that regulate genes.

Wedekind JE, Dutta D, Belashov IA, Jenkins JL

The Journal of biological chemistry.. 2017 June 9292 (23):9441-9450. Epub 04/28/2017.

Splicing Factor Mutations in Myelodysplasias: Insights from Spliceosome Structures.

Jenkins JL, Kielkopf CL

Trends in genetics : TIG.. 2017 May 33 (5):336-348. Epub 03/31/2017.

Human CaaX protease ZMPSTE24 expressed in yeast: Structure and inhibition by HIV protease inhibitors.

Clark KM, Jenkins JL, Fedoriw N, Dumont ME

Protein science : a publication of the Protein Society.. 2017 February 26 (2):242-257. Epub 11/11/2016.

Phosphatidylinositol (3,4,5)-trisphosphate binds to sortilin and competes with neurotensin: Implications for very low density lipoprotein binding.

Sparks RP, Jenkins JL, Miner GE, Wang Y, Guida WC, Sparks CE, Fratti RA, Sparks JD

Biochemical and biophysical research communications.. 2016 October 21479 (3):551-556. Epub 09/22/2016.

Sortilin facilitates VLDL-B100 secretion by insulin sensitive McArdle RH7777 cells.

Sparks RP, Guida WC, Sowden MP, Jenkins JL, Starr ML, Fratti RA, Sparks CE, Sparks JD

Biochemical and biophysical research communications.. 2016 September 16478 (2):546-52. Epub 08/02/2016.

Interaction of human biliverdin reductase with Akt/protein kinase B and phosphatidylinositol-dependent kinase 1 regulates glycogen synthase kinase 3 activity: a novel mechanism of Akt activation.

Miralem T, Lerner-Marmarosh N, Gibbs PE, Jenkins JL, Heimiller C, Maines MD

FASEB journal : official publication of the Federation of American Societies for Experimental Biology.. 2016 August 30 (8):2926-44. Epub 05/10/2016.

An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal.

Agrawal AA, Salsi E, Chatrikhi R, Henderson S, Jenkins JL, Green MR, Ermolenko DN, Kielkopf CL

Nature communications.. 2016 March 87 :10950. Epub 03/08/2016.

The Quick and the Dead: A Guide to Fast Phasing of Small Ribozyme and Riboswitch Crystal Structures.

Jenkins JL, Wedekind JE

Methods in molecular biology.. 2016 1490 :265-80. Epub 1900 01 01.

Structure-guided U2AF65 variant improves recognition and splicing of a defective pre-mRNA.

Agrawal AA, McLaughlin KJ, Jenkins JL, Kielkopf CL

Proceedings of the National Academy of Sciences of the United States of America.. 2014 December 9111 (49):17420-5. Epub 11/24/2014.

ITC analysis of ligand binding to preQ? riboswitches.

Liberman JA, Bogue JT, Jenkins JL, Salim M, Wedekind JE

Methods in enzymology.. 2014 549 :435-50. Epub 1900 01 01.

U2AF65 adapts to diverse pre-mRNA splice sites through conformational selection of specific and promiscuous RNA recognition motifs.

Jenkins JL, Agrawal AA, Gupta A, Green MR, Kielkopf CL

Nucleic acids research.. 2013 April 141 (6):3859-73. Epub 02/01/2013.

A transition-state interaction shifts nucleobase ionization toward neutrality to facilitate small ribozyme catalysis.

Liberman JA, Guo M, Jenkins JL, Krucinska J, Chen Y, Carey PR, Wedekind JE

Journal of the American Chemical Society.. 2012 October 17134 (41):16933-6. Epub 10/03/2012.

A Broad range of conformations contribute to the solution ensemble of the essential splicing factor U2AF(65).

Jenkins JL, Laird KM, Kielkopf CL

Biochemistry.. 2012 July 351 (26):5223-5. Epub 06/19/2012.

Three RNA recognition motifs participate in RNA recognition and structural organization by the pro-apoptotic factor TIA-1.

Bauer WJ, Heath J, Jenkins JL, Kielkopf CL

Journal of molecular biology.. 2012 January 27415 (4):727-40. Epub 12/02/2011.

Crystallographic analysis of small ribozymes and riboswitches.

Lippa GM, Liberman JA, Jenkins JL, Krucinska J, Salim M, Wedekind JE

Methods in molecular biology.. 2012 848 :159-84. Epub 1900 01 01.

Comparison of a preQ1 riboswitch aptamer in metabolite-bound and free states with implications for gene regulation.

Jenkins JL, Krucinska J, McCarty RM, Bandarian V, Wedekind JE

The Journal of biological chemistry.. 2011 July 15286 (28):24626-37. Epub 05/18/2011.

Large favorable enthalpy changes drive specific RNA recognition by RNA recognition motif proteins.

McLaughlin KJ, Jenkins JL, Kielkopf CL

Biochemistry.. 2011 March 850 (9):1429-31. Epub 02/02/2011.

RNA induces conformational changes in the SF1/U2AF65 splicing factor complex.

Gupta A, Jenkins JL, Kielkopf CL

Journal of molecular biology.. 2011 February 4405 (5):1128-38. Epub 12/10/2010.

Solution conformation and thermodynamic characteristics of RNA binding by the splicing factor U2AF65.

Jenkins JL, Shen H, Green MR, Kielkopf CL

The Journal of biological chemistry.. 2008 November 28283 (48):33641-9. Epub 10/08/2008.

Solution Conformation and Thermodynamic Characteristics of RNA binding by Splicing Factor U2AF65

Jenkins, J.L; Shen H.; Green M.R.; Kielkopf.

J. Biol. Chem. 2008; 283: 33641-33649.

Structural Basis of the Transcriptional Regulation of the Proline Utilization Regulon by Multifunctional PutA

Zhou Y.; Larson J.D.; Bottoms C.A.; Arturo E.C.; Henzl M.T.; Jenkins, J.L; Nix J.C.; Becker D.F.; Tanner, J.J.

J. Mol. Biol. 2008; 381: 174-188.

Crystal Structures of the DNA-binding Domain of Escherichia coli Proline Utilization A Flavoprotein and Analysis of the Role of Lys9 in DNA Recognition

Larson, J.D.; Jenkins, J.L.; Schuermann, J.P.; Zhou, Y.; Becker, D.F.; Tanner, J.J.

Protein Science. 2006; v15: 2630-2641.

High Resolution Crystal Structure of Human D-Glyceraldehyde-3-Phosphate Dehydrogenase

Jenkins, J.L.; Tanner, J.J.

Acta Crystallogr. 2006; D62: 290-301.