Skip to main content
Explore URMC

Clara L. Kielkopf, Ph.D.


Showing all 49 journal articles & 0 books available

Journal Articles

Galardi JW, Bela VN, Jeffery N, He X, Glasser E, Loerch S, Jenkins JL, Pulvino MJ, Boutz PL, Kielkopf CL. "A UHM - ULM interface with unusual structural features contributes to U2AF2 and SF3B1 association for pre-mRNA splicing." The Journal of biological chemistry.. 2022 Jun 30; :102224. Epub 2022 Jun 30.

Glasser E, Maji D, Biancon G, Puthenpeedikakkal AMK, Cavender CE, Tebaldi T, Jenkins JL, Mathews DH, Halene S, Kielkopf CL. "Pre-mRNA splicing factor U2AF2 recognizes distinct conformations of nucleotide variants at the center of the pre-mRNA splice site signal." Nucleic acids research.. 2022 May 7; Epub 2022 May 07.

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. "A synthetic small molecule stalls pre-mRNA splicing by promoting an early-stage U2AF2-RNA complex." Cell chemical biology.. 2021 Feb 26; Epub 2021 Feb 26.

Maji D, Glasser E, Henderson S, Galardi J, Pulvino MJ, Jenkins JL, Kielkopf CL. "Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing." The Journal of biological chemistry.. 2020 Dec 11; 295(50):17148-17157.

Maji D, Glasser E, Henderson S, Galardi J, Pulvino MJ, Jenkins JL, Kielkopf CL. "Representative cancer-associated U2AF2 mutations alter RNA interactions and splicing." The Journal of biological chemistry.. 2020 Oct 5; Epub 2020 Oct 05.

Warnasooriya C, Feeney CF, Laird KM, Ermolenko DN, Kielkopf CL. "A splice site-sensing conformational switch in U2AF2 is modulated by U2AF1 and its recurrent myelodysplasia-associated mutation." Nucleic acids research.. 2020 Jun 4; 48(10):5695-5709.

Maji D, Grossfield AM, Kielkopf CL. "Structures of SF3b1 reveal a dynamic Achilles heel of spliceosome assembly: Implications for cancer-associated abnormalities and drug discovery." Biochimica et biophysica acta. Gene regulatory mechanisms.. 2019 Nov 7; :194440. Epub 2019 Nov 07.

Talkish J, Igel H, Hunter O, Horner SW, Jeffery NN, Leach JR, Jenkins JL, Kielkopf CL, Ares M. "Cus2 enforces the first ATP-dependent step of splicing by binding to yeast SF3b1 through a UHM-ULM interaction." RNA.. 2019 Aug; 25(8):1020-1037. Epub 2019 May 20.

Kennedy SD, Bauer WJ, Wang W, Kielkopf CL. "Dynamic stacking of an expected branch point adenosine in duplexes containing pseudouridine-modified or unmodified U2 snRNA sites." Biochemical and biophysical research communications.. 2019 Feb 20; Epub 2019 Feb 20.

Loerch S, Leach JR, Horner SW, Maji D, Jenkins JL, Pulvino M, Kielkopf CL. "The pre-mRNA splicing and transcription factor Tat-SF1 is a functional partner of the spliceosome SF3b1 subunit via a U2AF homology motif interface." The Journal of biological chemistry.. 2018 Dec 19; Epub 2018 Dec 19.

Kielkopf CL. "Insights from structures of cancer-relevant pre-mRNA splicing factors." Current opinion in genetics & development.. 2018 Feb; 48:57-66. Epub 2017 Nov 10.

Glasser E, Agrawal A, Jenkins JL, Kielkopf CL. "Cancer-Associated Mutations Mapped on High-Resolution Structures of the U2AF2 RNA Recognition Motifs." Biochemistry.. 2017 Sep 12; 56(36):4757-4761. Epub 2017 Sep 01.

Jenkins JL, Kielkopf CL. "Splicing Factor Mutations in Myelodysplasias: Insights from Spliceosome Structures." Trends in genetics : TIG.. 2017 May; 33(5):336-348. Epub 2017 Mar 31.

Chatrikhi R, Wang W, Gupta A, Loerch S, Maucuer A, Kielkopf CL. "SF1 Phosphorylation Enhances Specific Binding to U2AF and Reduces Binding to 3'-Splice-Site RNA." Biophysical journal.. 2016 Dec 20; 111(12):2570-2586.

Loerch S, Kielkopf CL. "Unmasking the U2AF homology motif family: a bona fide protein-protein interaction motif in disguise." RNA.. 2016 Dec; 22(12):1795-1807.

Fei DL, Motowski H, Chatrikhi R, Prasad S, Yu J, Gao S, Kielkopf CL, Bradley RK, Varmus H. "Wild-Type U2AF1 Antagonizes the Splicing Program Characteristic of U2AF1-Mutant Tumors and Is Required for Cell Survival." PLoS genetics.. 2016 Oct; 12(10):e1006384. Epub 2016 Oct 24.

Agrawal AA, Salsi E, Chatrikhi R, Henderson S, Jenkins JL, Green MR, Ermolenko DN, Kielkopf CL. "An extended U2AF(65)-RNA-binding domain recognizes the 3' splice site signal." Nature communications.. 2016 Mar 8; 7:10950. Epub 2016 Mar 08.

Loerch S, Kielkopf CL. "Dividing and Conquering the Family of RNA Recognition Motifs: A Representative Case Based on hnRNP L." Journal of molecular biology.. 2015 Sep 25; 427(19):2997-3000. Epub 2015 Jun 20.

Okeyo-Owuor T, White BS, Chatrikhi R, Mohan DR, Kim S, Griffith M, Ding L, Ketkar-Kulkarni S, Hundal J, Laird KM, Kielkopf CL, Ley TJ, Walter MJ, Graubert TA. "U2AF1 mutations alter sequence specificity of pre-mRNA binding and splicing." Leukemia.. 2015 Apr; 29(4):909-17. Epub 2014 Oct 14.

Agrawal AA, McLaughlin KJ, Jenkins JL, Kielkopf CL. "Structure-guided U2AF65 variant improves recognition and splicing of a defective pre-mRNA." Proceedings of the National Academy of Sciences of the United States of America.. 2014 Dec 9; 111(49):17420-5. Epub 2014 Nov 24.

Loerch S, Maucuer A, Manceau V, Green MR, Kielkopf CL. "Cancer-relevant splicing factor CAPER? engages the essential splicing factor SF3b155 in a specific ternary complex." The Journal of biological chemistry.. 2014 Jun 20; 289(25):17325-37. Epub 2014 May 02.

Jenkins JL, Agrawal AA, Gupta A, Green MR, Kielkopf CL. "U2AF65 adapts to diverse pre-mRNA splice sites through conformational selection of specific and promiscuous RNA recognition motifs." Nucleic acids research.. 2013 Apr 1; 41(6):3859-73. Epub 2013 Feb 01.

Gleghorn ML, Gong C, Kielkopf CL, Maquat LE. "Staufen1 dimerizes through a conserved motif and a degenerate dsRNA-binding domain to promote mRNA decay." Nature structural & molecular biology.. 2013 Apr; 20(4):515-24. Epub 2013 Mar 24.

Wang W, Maucuer A, Gupta A, Manceau V, Thickman KR, Bauer WJ, Kennedy SD, Wedekind JE, Green MR, Kielkopf CL. "Structure of phosphorylated SF1 bound to U2AF?? in an essential splicing factor complex." Structure.. 2013 Feb 5; 21(2):197-208. Epub 2012 Dec 27.

Jenkins JL, Laird KM, Kielkopf CL. "A Broad range of conformations contribute to the solution ensemble of the essential splicing factor U2AF(65)." Biochemistry.. 2012 Jul 3; 51(26):5223-5. Epub 2012 Jun 19.

Bauer WJ, Heath J, Jenkins JL, Kielkopf CL. "Three RNA recognition motifs participate in RNA recognition and structural organization by the pro-apoptotic factor TIA-1." Journal of molecular biology.. 2012 Jan 27; 415(4):727-40. Epub 2011 Dec 02.

Gupta A, Kielkopf CL. "Purification, crystallization and preliminary X-ray crystallographic analysis of a central domain of human splicing factor 1." Acta crystallographica. Section F, Structural biology and crystallization communications.. 2011 Apr 1; 67(Pt 4):486-90. Epub 2011 Mar 25.

McLaughlin KJ, Jenkins JL, Kielkopf CL. "Large favorable enthalpy changes drive specific RNA recognition by RNA recognition motif proteins." Biochemistry.. 2011 Mar 8; 50(9):1429-31. Epub 2011 Feb 02.

Gupta A, Jenkins JL, Kielkopf CL. "RNA induces conformational changes in the SF1/U2AF65 splicing factor complex." Journal of molecular biology.. 2011 Feb 4; 405(5):1128-38. Epub 2010 Dec 10.

McLaughlin KJ, Strain-Damerell CM, Xie K, Brekasis D, Soares AS, Paget MS, Kielkopf CL. "Structural basis for NADH/NAD+ redox sensing by a Rex family repressor." Molecular cell.. 2010 May 28; 38(4):563-75.

Jenkins JL, Shen H, Green MR, Kielkopf CL. "Solution conformation and thermodynamic characteristics of RNA binding by the splicing factor U2AF65." The Journal of biological chemistry.. 2008 Nov 28; 283(48):33641-9. Epub 2008 Oct 08.

Manceau V, Kielkopf CL, Sobel A, Maucuer A. "Different requirements of the kinase and UHM domains of KIS for its nuclear localization and binding to splicing factors." Journal of molecular biology.. 2008 Sep 5; 381(3):748-62. Epub 2008 Jun 17.

Lin Y, Kielkopf CL. "X-ray structures of U2 snRNA-branchpoint duplexes containing conserved pseudouridines." Biochemistry.. 2008 May 20; 47(20):5503-14. Epub 2008 Apr 25.

Kumar AO, Swenson MC, Benning MM, Kielkopf CL. "Structure of the central RNA recognition motif of human TIA-1 at 1.95A resolution." Biochemical and biophysical research communications.. 2008 Mar 21; 367(4):813-9. Epub 2008 Jan 15.

Swenson MC, Paranawithana SR, Miller PS, Kielkopf CL. "Structure of a DNA repair substrate containing an alkyl interstrand cross-link at 1.65 A resolution." Biochemistry.. 2007 Apr 17; 46(15):4545-53. Epub 2007 Mar 22.

Thickman KR, Sickmier EA, Kielkopf CL. "Alternative conformations at the RNA-binding surface of the N-terminal U2AF(65) RNA recognition motif." Journal of molecular biology.. 2007 Feb 23; 366(3):703-10. Epub 2006 Dec 02.

Sickmier EA, Frato KE, Shen H, Paranawithana SR, Green MR, Kielkopf CL. "Structural basis for polypyrimidine tract recognition by the essential pre-mRNA splicing factor U2AF65." Molecular cell.. 2006 Jul 7; 23(1):49-59.

Sickmier EA, Frato KE, Kielkopf CL. "Crystallization and preliminary X-ray analysis of a U2AF65 variant in complex with a polypyrimidine-tract analogue by use of protein engineering." Acta crystallographica. Section F, Structural biology and crystallization communications.. 2006 May 1; 62(Pt 5):457-9. Epub 2006 Apr 12.

Thickman KR, Swenson MC, Kabogo JM, Gryczynski Z, Kielkopf CL. "Multiple U2AF65 binding sites within SF3b155: thermodynamic and spectroscopic characterization of protein-protein interactions among pre-mRNA splicing factors." Journal of molecular biology.. 2006 Feb 24; 356(3):664-83. Epub 2005 Dec 07.

Manceau V, Swenson M, Le Caer JP, Sobel A, Kielkopf CL, Maucuer A. "Major phosphorylation of SF1 on adjacent Ser-Pro motifs enhances interaction with U2AF65." The FEBS journal.. 2006 Feb; 273(3):577-87.

Sickmier EA, Brekasis D, Paranawithana S, Bonanno JB, Paget MS, Burley SK, Kielkopf CL. "X-ray structure of a Rex-family repressor/NADH complex insights into the mechanism of redox sensing." Structure.. 2005 Jan; 13(1):43-54.

Kielkopf CL, Lücke S, Green MR. "U2AF homology motifs: protein recognition in the RRM world." Genes & development.. 2004 Jul 1; 18(13):1513-26.

Kielkopf CL, Burley SK. "X-ray structures of threonine aldolase complexes: structural basis of substrate recognition." Biochemistry.. 2002 Oct 1; 41(39):11711-20.

Kielkopf CL, Rodionova NA, Green MR, Burley SK. "A novel peptide recognition mode revealed by the X-ray structure of a core U2AF35/U2AF65 heterodimer." Cell.. 2001 Sep 7; 106(5):595-605.

Kielkopf CL, Ding S, Kuhn P, Rees DC. "Conformational flexibility of B-DNA at 0.74 A resolution: d(CCAGTACTGG)(2)." Journal of molecular biology.. 2000 Feb 25; 296(3):787-801.

Kielkopf CL, Erkkila KE, Hudson BP, Barton JK, Rees DC. "Structure of a photoactive rhodium complex intercalated into DNA." Nature structural biology.. 2000 Feb; 7(2):117-21.

Kielkopf CL, Bremer RE, White S, Szewczyk JW, Turner JM, Baird EE, Dervan PB, Rees DC. "Structural effects of DNA sequence on T.A recognition by hydroxypyrrole/pyrrole pairs in the minor groove." Journal of molecular biology.. 2000 Jan 21; 295(3):557-67.

Kielkopf CL, White S, Szewczyk JW, Turner JM, Baird EE, Dervan PB, Rees DC. "A structural basis for recognition of A.T and T.A base pairs in the minor groove of B-DNA." Science.. 1998 Oct 2; 282(5386):111-5.

Kielkopf CL, Baird EE, Dervan PB, Rees DC. "Structural basis for G.C recognition in the DNA minor groove." Nature structural biology.. 1998 Feb; 5(2):104-9.