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Nonspecific Binding of RNA to PARP1 and PARP2 Does Not Lead to Catalytic Activation.

Nakamoto MY, Rudolph J, Wuttke DS, Luger K.

Biochemistry. 2019 Dec 24;58(51):5107-5111. doi: 10.1021/acs.biochem.9b00986. Epub 2019 Dec 16.


The glucocorticoid receptor DNA-binding domain recognizes RNA hairpin structures with high affinity.

Parsonnet NV, Lammer NC, Holmes ZE, Batey RT, Wuttke DS.

Nucleic Acids Res. 2019 Sep 5;47(15):8180-8192. doi: 10.1093/nar/gkz486.


Measuring Low-Picomolar Apparent Binding Affinities by Minigel Electrophoretic Mobility Shift.

Lewis KA, Altschuler SE, Wuttke DS.

Methods Mol Biol. 2019;1855:341-354. doi: 10.1007/978-1-4939-8793-1_29.


Single-stranded telomere-binding protein employs a dual rheostat for binding affinity and specificity that drives function.

Glustrom LW, Lyon KR, Paschini M, Reyes CM, Parsonnet NV, Toro TB, Lundblad V, Wuttke DS.

Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):10315-10320. doi: 10.1073/pnas.1722147115. Epub 2018 Sep 24.


Discrimination against RNA Backbones by a ssDNA Binding Protein.

Lloyd NR, Wuttke DS.

Structure. 2018 May 1;26(5):722-733.e2. doi: 10.1016/j.str.2018.03.016. Epub 2018 Apr 19.


Diversity in peptide recognition by the SH2 domain of SH2B1.

McKercher MA, Guan X, Tan Z, Wuttke DS.

Proteins. 2018 Feb;86(2):164-176. doi: 10.1002/prot.25420. Epub 2017 Dec 1.


Human CST Prefers G-Rich but Not Necessarily Telomeric Sequences.

Hom RA, Wuttke DS.

Biochemistry. 2017 Aug 15;56(32):4210-4218. doi: 10.1021/acs.biochem.7b00584. Epub 2017 Aug 2.


Multimodal Recognition of Diverse Peptides by the C-Terminal SH2 Domain of Phospholipase C-γ1 Protein.

McKercher MA, Guan X, Tan Z, Wuttke DS.

Biochemistry. 2017 Apr 25;56(16):2225-2237. doi: 10.1021/acs.biochem.7b00023. Epub 2017 Apr 11.


Calorimetric Measurement of SH2 Domain Ligand Affinities.

McKercher MA, Wuttke DS.

Methods Mol Biol. 2017;1555:291-305. doi: 10.1007/978-1-4939-6762-9_16.


NMR Chemical Shift Mapping of SH2 Peptide Interactions.

McKercher MA, Wuttke DS.

Methods Mol Biol. 2017;1555:269-290. doi: 10.1007/978-1-4939-6762-9_15.


Tying up the Ends: Plasticity in the Recognition of Single-Stranded DNA at Telomeres.

Lloyd NR, Dickey TH, Hom RA, Wuttke DS.

Biochemistry. 2016 Sep 27;55(38):5326-40. doi: 10.1021/acs.biochem.6b00496. Epub 2016 Sep 15.


Telomere Replication Stress Induced by POT1 Inactivation Accelerates Tumorigenesis.

Pinzaru AM, Hom RA, Beal A, Phillips AF, Ni E, Cardozo T, Nair N, Choi J, Wuttke DS, Sfeir A, Denchi EL.

Cell Rep. 2016 Jun 7;15(10):2170-2184. doi: 10.1016/j.celrep.2016.05.008. Epub 2016 May 26.


The Digital Ageing Atlas: integrating the diversity of age-related changes into a unified resource.

Craig T, Smelick C, Tacutu R, Wuttke D, Wood SH, Stanley H, Janssens G, Savitskaya E, Moskalev A, Arking R, de Magalhães JP.

Nucleic Acids Res. 2015 Jan;43(Database issue):D873-8. doi: 10.1093/nar/gku843. Epub 2014 Sep 17.


Less is more: structures of difficult targets with minimal constraints.

Lloyd NR, Wuttke DS.

Structure. 2014 Sep 2;22(9):1223-1224. doi: 10.1016/j.str.2014.08.004.


The telomeric protein Pot1 from Schizosaccharomyces pombe binds ssDNA in two modes with differing 3' end availability.

Dickey TH, Wuttke DS.

Nucleic Acids Res. 2014 Sep;42(15):9656-65. doi: 10.1093/nar/gku680. Epub 2014 Jul 29.


Structure of Est3 reveals a bimodal surface with differential roles in telomere replication.

Rao T, Lubin JW, Armstrong GS, Tucey TM, Lundblad V, Wuttke DS.

Proc Natl Acad Sci U S A. 2014 Jan 7;111(1):214-8. doi: 10.1073/pnas.1316453111. Epub 2013 Dec 16.


In silico approaches and the role of ontologies in aging research.

Fuellen G, Boerries M, Busch H, de Grey A, Hahn U, Hiller T, Hoeflich A, Jansen L, Janssens GE, Kaleta C, Meinema AC, Schäuble S, Simm A, Schofield PN, Smith B, Sühnel J, Vera J, Wagner W, Wönne EC, Wuttke D.

Rejuvenation Res. 2013 Dec;16(6):540-6. doi: 10.1089/rej.2013.1517.


The tenacious recognition of yeast telomere sequence by Cdc13 is fully exerted by a single OB-fold domain.

Lewis KA, Pfaff DA, Earley JN, Altschuler SE, Wuttke DS.

Nucleic Acids Res. 2014 Jan;42(1):475-84. doi: 10.1093/nar/gkt843. Epub 2013 Sep 20.


Single-stranded DNA-binding proteins: multiple domains for multiple functions.

Dickey TH, Altschuler SE, Wuttke DS.

Structure. 2013 Jul 2;21(7):1074-84. doi: 10.1016/j.str.2013.05.013. Review.


Dissecting protein function: an efficient protocol for identifying separation-of-function mutations that encode structurally stable proteins.

Lubin JW, Rao T, Mandell EK, Wuttke DS, Lundblad V.

Genetics. 2013 Mar;193(3):715-25. doi: 10.1534/genetics.112.147801. Epub 2013 Jan 10.


Practical strategies for the evaluation of high-affinity protein/nucleic acid interactions.

Altschuler SE, Lewis KA, Wuttke DS.

J Nucleic Acids Investig. 2013 Jan 1;4(1):19-28.


Nonspecific recognition is achieved in Pot1pC through the use of multiple binding modes.

Dickey TH, McKercher MA, Wuttke DS.

Structure. 2013 Jan 8;21(1):121-132. doi: 10.1016/j.str.2012.10.015. Epub 2012 Nov 29.


Human Ageing Genomic Resources: integrated databases and tools for the biology and genetics of ageing.

Tacutu R, Craig T, Budovsky A, Wuttke D, Lehmann G, Taranukha D, Costa J, Fraifeld VE, de Magalhães JP.

Nucleic Acids Res. 2013 Jan;41(Database issue):D1027-33. doi: 10.1093/nar/gks1155. Epub 2012 Nov 27.


The role of DNA methylation in aging, rejuvenation, and age-related disease.

Johnson AA, Akman K, Calimport SR, Wuttke D, Stolzing A, de Magalhães JP.

Rejuvenation Res. 2012 Oct;15(5):483-94. doi: 10.1089/rej.2012.1324. Review.


A small molecule inhibitor of Pot1 binding to telomeric DNA.

Altschuler SE, Croy JE, Wuttke DS.

Biochemistry. 2012 Oct 9;51(40):7833-45. doi: 10.1021/bi300365k. Epub 2012 Sep 26.


Systems biology and bioinformatics in aging research: a workshop report.

Fuellen G, Dengjel J, Hoeflich A, Hoeijemakers J, Kestler HA, Kowald A, Priebe S, Rebholz-Schuhmann D, Schmeck B, Schmitz U, Stolzing A, Sühnel J, Wuttke D, Vera J.

Rejuvenation Res. 2012 Dec;15(6):631-41. doi: 10.1089/rej.2012.1360. Epub 2012 Nov 19.


Dissecting the gene network of dietary restriction to identify evolutionarily conserved pathways and new functional genes.

Wuttke D, Connor R, Vora C, Craig T, Li Y, Wood S, Vasieva O, Shmookler Reis R, Tang F, de Magalhães JP.

PLoS Genet. 2012;8(8):e1002834. doi: 10.1371/journal.pgen.1002834. Epub 2012 Aug 9.


Osh6 links yeast vacuolar functions to lifespan extension and TOR.

Wuttke D, de Magalhães JP.

Cell Cycle. 2012 Jul 1;11(13):2419. doi: 10.4161/cc.21069. Epub 2012 Jul 1. No abstract available.


A meta-analysis of caloric restriction gene expression profiles to infer common signatures and regulatory mechanisms.

Plank M, Wuttke D, van Dam S, Clarke SA, de Magalhães JP.

Mol Biosyst. 2012 Apr;8(4):1339-49. doi: 10.1039/c2mb05255e. Epub 2012 Feb 10.


Telomerase and telomere-associated proteins: structural insights into mechanism and evolution.

Lewis KA, Wuttke DS.

Structure. 2012 Jan 11;20(1):28-39. doi: 10.1016/j.str.2011.10.017. Review.


The role of adjuvant in mediating antigen structure and stability.

Braun LJ, Eldridge AM, Cummiskey J, Arthur KK, Wuttke DS.

J Pharm Sci. 2012 Apr;101(4):1391-9. doi: 10.1002/jps.23039. Epub 2011 Dec 28.


Genome-environment interactions that modulate aging: powerful targets for drug discovery.

de Magalhães JP, Wuttke D, Wood SH, Plank M, Vora C.

Pharmacol Rev. 2012 Jan;64(1):88-101. doi: 10.1124/pr.110.004499. Epub 2011 Nov 16. Review.


Schizosaccharomyces pombe protection of telomeres 1 utilizes alternate binding modes to accommodate different telomeric sequences.

Altschuler SE, Dickey TH, Wuttke DS.

Biochemistry. 2011 Sep 6;50(35):7503-13. doi: 10.1021/bi200826a. Epub 2011 Aug 16.


Sequence-specific binding to telomeric DNA is not a conserved property of the Cdc13 DNA binding domain.

Mandell EK, Gelinas AD, Wuttke DS, Lundblad V.

Biochemistry. 2011 Jul 26;50(29):6289-91. doi: 10.1021/bi2005448. Epub 2011 Jun 29.


Effect of benzyl alcohol on recombinant human interleukin-1 receptor antagonist structure and hydrogen-deuterium exchange.

Alford JR, Fowler AC, Wuttke DS, Kerwin BA, Latypov RF, Carpenter JF, Randolph TW.

J Pharm Sci. 2011 Oct;100(10):4215-24. doi: 10.1002/jps.22601. Epub 2011 May 5.


Investigating the role of the Est3 protein in yeast telomere replication.

Lee J, Mandell EK, Rao T, Wuttke DS, Lundblad V.

Nucleic Acids Res. 2010 Apr;38(7):2279-90. doi: 10.1093/nar/gkp1173. Epub 2010 Jan 4.


Telomere capping proteins are structurally related to RPA with an additional telomere-specific domain.

Gelinas AD, Paschini M, Reyes FE, Héroux A, Batey RT, Lundblad V, Wuttke DS.

Proc Natl Acad Sci U S A. 2009 Nov 17;106(46):19298-303. doi: 10.1073/pnas.0909203106. Epub 2009 Nov 2.


Nonadditivity in the recognition of single-stranded DNA by the schizosaccharomyces pombe protection of telomeres 1 DNA-binding domain, Pot1-DBD.

Croy JE, Altschuler SE, Grimm NE, Wuttke DS.

Biochemistry. 2009 Jul 28;48(29):6864-75. doi: 10.1021/bi900307x.


Insights into the dynamics of specific telomeric single-stranded DNA recognition by Pot1pN.

Croy JE, Wuttke DS.

J Mol Biol. 2009 Apr 10;387(4):935-48. doi: 10.1016/j.jmb.2009.02.016. Epub 2009 Feb 13.


Inhibition of yeast telomerase action by the telomeric ssDNA-binding protein, Cdc13p.

Zappulla DC, Roberts JN, Goodrich KJ, Cech TR, Wuttke DS.

Nucleic Acids Res. 2009 Feb;37(2):354-67. doi: 10.1093/nar/gkn830. Epub 2008 Nov 29.


Deciphering the mechanism of thermodynamic accommodation of telomeric oligonucleotide sequences by the Schizosaccharomyces pombe protection of telomeres 1 (Pot1pN) protein.

Croy JE, Fast JL, Grimm NE, Wuttke DS.

Biochemistry. 2008 Apr 15;47(15):4345-4358. doi: 10.1021/bi701778x. Epub 2008 Mar 21.


Accurate structural correlations from maximum likelihood superpositions.

Theobald DL, Wuttke DS.

PLoS Comput Biol. 2008 Feb;4(2):e43. doi: 10.1371/journal.pcbi.0040043.


Probing the mechanism of recognition of ssDNA by the Cdc13-DBD.

Eldridge AM, Wuttke DS.

Nucleic Acids Res. 2008 Mar;36(5):1624-33. doi: 10.1093/nar/gkn017. Epub 2008 Feb 3.


High concentration formulations of recombinant human interleukin-1 receptor antagonist: I. Physical characterization.

Alford JR, Kwok SC, Roberts JN, Wuttke DS, Kendrick BS, Carpenter JF, Randolph TW.

J Pharm Sci. 2008 Aug;97(8):3035-50.


Empirical Bayes hierarchical models for regularizing maximum likelihood estimation in the matrix Gaussian Procrustes problem.

Theobald DL, Wuttke DS.

Proc Natl Acad Sci U S A. 2006 Dec 5;103(49):18521-7. Epub 2006 Nov 27.


Themes in ssDNA recognition by telomere-end protection proteins.

Croy JE, Wuttke DS.

Trends Biochem Sci. 2006 Sep;31(9):516-25. Epub 2006 Aug 4. Review.


A new model for Schizosaccharomyces pombe telomere recognition: the telomeric single-stranded DNA-binding activity of Pot11-389.

Croy JE, Podell ER, Wuttke DS.

J Mol Biol. 2006 Aug 4;361(1):80-93. Epub 2006 Jun 19. Erratum in: J Mol Biol. 2006 Oct 6;362(5):1181.


THESEUS: maximum likelihood superpositioning and analysis of macromolecular structures.

Theobald DL, Wuttke DS.

Bioinformatics. 2006 Sep 1;22(17):2171-2. Epub 2006 Jun 15.


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