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Joseph E. Wedekind, Ph.D.

Joseph E. Wedekind, Ph.D.

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About Me

Faculty Appointments

Professor - Department of Biochemistry and Biophysics (SMD)

Credentials

Post-doctoral Training & Residency

RNA Biophysics, Dept. of Structural Biology, Stanford University School of Medicine. 1995-1999 1995 - 1999

Education

Ph.D. | University of Wisconsin at Madison. Biochemistry (Structural Enzymology). 1995

B.Sc. | University of California at Riverside. Biochemistry (Magna Cum Laude). 1990

Awards

Editorial Board Member, The Journal of Biological Chemistry. 2024 - 2029

Faculty Teaching Award in Biophysics. 2019

Member, MSFB Study Section. 2018 - 2022

Secretary, Medical Faculty Council. 2017 - 2019

Faculty Teaching Award in Biophysics. 2015

Editorial Board Member, The Journal of Biological Chemistry. 2011 - 2016

Executive Committee Member, CHESS Users' Group. 2010 - 2012

Faculty Teaching Award in Biophysics. 2010

Elected Secretary (The Board of Directors). 2007 - 2009

Faculty Teaching Award in Biophysics. 2005

Life Sciences Research Foundation Fellow. 1996 - 1999

Individual NRSA Post-doctoral Fellowship (declined). 1996

Leukemia and Lymphoma Society Post-Doctoral Award (declined). 1996

Dean's Fellow. 1995 - 1996

NIH Biophysics Training Grant Recipient. 1992 - 1995

Elected Member, Phi Beta Kappa. 1990

Edmondson Summer Research Fellow. 1989

Research

The Wedekind lab investigates the mechanisms of action of non-protein-coding (nc)RNAs. We are interested especially in the elegant, three-dimensional architectures of these RNAs, and how they bind to specific small molecules or peptides, leading to conformations that alter biological function. Mode...
The Wedekind lab investigates the mechanisms of action of non-protein-coding (nc)RNAs. We are interested especially in the elegant, three-dimensional architectures of these RNAs, and how they bind to specific small molecules or peptides, leading to conformations that alter biological function. Model systems include: (i) metabolite-sensing riboswitches that regulate protein translation, and (ii) the application of lab-evolved proteins to target HIV-1 RNA. This work is relevant to the development of new antibiotics and anti-retroviral therapies. This work is funded by NIH/NIGMS grants R01 GM063162 and R01 GM123864.

Our lab employs a variety of biochemical, biophysical, and structural approaches, such as X-ray crystallography. We greatly acknowledge NIH/NCRR award S10 RR026501 for supporting this instrumentation. For access or further information see: https://www.urmc.rochester.edu/structural-biology-biophysics.aspx

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.

Cyclic peptides targeting the SARS-CoV-2 programmed ribosomal frameshifting RNA from a multiplexed phage display library.

Iannuzzelli JA, Bonn R, Hong AS, Anitha AS, Jenkins JL, Wedekind JE, Fasan R

Chemical science.. 2024 October 17 Epub 10/17/2024.

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.

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.

RNA target highlights in CASP15: Evaluation of predicted models by structure providers.

Kretsch RC, Andersen ES, Bujnicki JM, Chiu W, Das R, Luo B, Masquida B, McRae EKS, Schroeder GM, Su Z, Wedekind JE, Xu L, Zhang K, Zheludev IN, Moult J, Kryshtafovych A

Proteins.. 2023 December 91 (12):1600-1615. Epub 07/19/2023.

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.

RNA in the Loop: Probing T-loop/T-loop Receptor Interactions as Mediators of Long-range RNA Contacts that Influence Gene Regulation.

Wedekind JE

Journal of molecular biology.. 2023 May 15435 (10):168087. Epub 04/07/2023.

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.

Isothermal Titration Calorimetry Analysis of a Cooperative Riboswitch Using an Interdependent-Sites Binding Model.

Cavender CE, Schroeder GM, Mathews DH, Wedekind JE

Methods in molecular biology.. 2023 2568 :53-73. 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.

Cyclic peptides with a distinct arginine-fork motif recognize the HIV trans-activation response RNA in vitro and in cells.

Chavali SS, Mali SM, Bonn R, Saseendran A, Bennett RP, Smith HC, Fasan R, Wedekind JE

The Journal of biological chemistry.. 2021 December 297 (6):101390. Epub 11/09/2021.

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.

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.

Arginine Forks Are a Widespread Motif to Recognize Phosphate Backbones and Guanine Nucleobases in the RNA Major Groove.

Chavali SS, Cavender CE, Mathews DH, Wedekind JE

Journal of the American Chemical Society.. 2020 November 25142 (47):19835-19839. Epub 11/10/2020.

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.

Nucleobase mutants of a bacterial preQ-II riboswitch that uncouple metabolite sensing from gene regulation.

Dutta D, Wedekind JE

The Journal of biological chemistry.. 2020 February 28295 (9):2555-2567. Epub 10/28/2019.

Structure of Sonic Hedgehog protein in complex with zinc(II) and magnesium(II) reveals ion-coordination plasticity relevant to peptide drug design.

Bonn-Breach R, Gu Y, Jenkins J, Fasan R, Wedekind J

Acta crystallographica. Section D, Structural biology.. 2019 November 175 (Pt 11):969-979. Epub 10/30/2019.

Observation of preQ-II riboswitch dynamics using single-molecule FRET.

Warnasooriya C, Ling C, Belashov IA, Salim M, Wedekind JE, Ermolenko DN

RNA biology.. 2019 September 16 (9):1086-1092. Epub 10/30/2018.

Face-time with TAR: Portraits of an HIV-1 RNA with diverse modes of effector recognition relevant for drug discovery.

Chavali SS, Bonn-Breach R, Wedekind JE

The Journal of biological chemistry.. 2019 June 14294 (24):9326-9341. Epub 05/12/2019.

Coupling Green Fluorescent Protein Expression with Chemical Modification to Probe Functionally Relevant Riboswitch Conformations in Live Bacteria.

Dutta D, Belashov IA, Wedekind JE

Biochemistry.. 2018 August 757 (31):4620-4628. Epub 06/26/2018.

Structure of HIV TAR in complex with a Lab-Evolved RRM provides insight into duplex RNA recognition and synthesis of a constrained peptide that impairs transcription.

Belashov IA, Crawford DW, Cavender CE, Dai P, Beardslee PC, Mathews DH, Pentelute BL, McNaughton BR, Wedekind JE

Nucleic acids research.. 2018 July 2746 (13):6401-6415. Epub 1900 01 01.

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.

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.

Gene Regulation Gets in Tune: How Riboswitch Tertiary-Structure Networks Adapt to Meet the Needs of Their Transcription Units.

Dutta D, Wedekind JE

Journal of molecular biology.. 2015 November 6427 (22):3469-3472. Epub 08/06/2015.

Molecular mechanism for preQ1-II riboswitch function revealed by molecular dynamics.

Aytenfisu AH, Liberman JA, Wedekind JE, Mathews DH

RNA.. 2015 November 21 (11):1898-907. Epub 09/14/2015.

Structural analysis of a class III preQ1 riboswitch reveals an aptamer distant from a ribosome-binding site regulated by fast dynamics.

Liberman JA, Suddala KC, Aytenfisu A, Chan D, Belashov IA, Salim M, Mathews DH, Spitale RC, Walter NG, Wedekind JE

Proceedings of the National Academy of Sciences of the United States of America.. 2015 July 7112 (27):E3485-94. Epub 06/23/2015.

Evidence for the role of active site residues in the hairpin ribozyme from molecular simulations along the reaction path.

Heldenbrand H, Janowski PA, Giamba?u G, Giese TJ, Wedekind JE, York DM

Journal of the American Chemical Society.. 2014 June 4136 (22):7789-92. Epub 05/23/2014.

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.

Single transcriptional and translational preQ1 riboswitches adopt similar pre-folded ensembles that follow distinct folding pathways into the same ligand-bound structure.

Suddala KC, Rinaldi AJ, Feng J, Mustoe AM, Eichhorn CD, Liberman JA, Wedekind JE, Al-Hashimi HM, Brooks CL, Walter NG

Nucleic acids research.. 2013 December 41 (22):10462-75. Epub 09/03/2013.

Structural characterization of nitrosomonas europaea cytochrome c-552 variants with marked differences in electronic structure.

Can M, Krucinska J, Zoppellaro G, Andersen NH, Wedekind JE, Hersleth HP, Andersson KK, Bren KL

Chembiochem : a European journal of chemical biology.. 2013 September 2314 (14):1828-38. Epub 07/31/2013.

Structure of a class II preQ1 riboswitch reveals ligand recognition by a new fold.

Liberman JA, Salim M, Krucinska J, Wedekind JE

Nature chemical biology.. 2013 June 9 (6):353-5. Epub 04/14/2013.

Structure of phosphorylated SF1 bound to U2AF?? in an essential splicing factor complex.

Wang W, Maucuer A, Gupta A, Manceau V, Thickman KR, Bauer WJ, Kennedy SD, Wedekind JE, Green MR, Kielkopf CL

Structure.. 2013 February 521 (2):197-208. Epub 12/27/2012.

Core-binding factor ? increases the affinity between human Cullin 5 and HIV-1 Vif within an E3 ligase complex.

Salter JD, Lippa GM, Belashov IA, Wedekind JE

Biochemistry.. 2012 November 651 (44):8702-4. Epub 10/25/2012.

Molecular mechanism of preQ1 riboswitch action: a molecular dynamics study.

Banáš P, Sklenovský P, Wedekind JE, Sponer J, Otyepka M

The journal of physical chemistry. B. 2012 October 25116 (42):12721-34. Epub 10/12/2012.

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.

Riboswitch structure in the ligand-free state.

Liberman JA, Wedekind JE

Wiley interdisciplinary reviews. RNA.. 2012 3 (3):369-84. Epub 09/28/2011.

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.

Base ionization and ligand binding: how small ribozymes and riboswitches gain a foothold in a protein world.

Liberman JA, Wedekind JE

Current opinion in structural biology.. 2011 June 21 (3):327-34. Epub 04/27/2011.

The apo riboswitch as a molecular hydra.

Wedekind JE

Structure.. 2010 July 1418 (7):757-8. Epub 1900 01 01.

A hydrodynamic analysis of APOBEC3G reveals a monomer-dimer-tetramer self-association that has implications for anti-HIV function.

Salter JD, Krucinska J, Raina J, Smith HC, Wedekind JE

Biochemistry.. 2009 November 1748 (45):10685-7. Epub 1900 01 01.

Exploring ribozyme conformational changes with X-ray crystallography.

Spitale RC, Wedekind JE

Methods : a companion to Methods in enzymology.. 2009 October 49 (2):87-100. Epub 06/24/2009.

Direct Raman measurement of an elevated base pKa in the active site of a small ribozyme in a precatalytic conformation.

Guo M, Spitale RC, Volpini R, Krucinska J, Cristalli G, Carey PR, Wedekind JE

Journal of the American Chemical Society.. 2009 September 16131 (36):12908-9. Epub 1900 01 01.

Single-atom imino substitutions at A9 and A10 reveal distinct effects on the fold and function of the hairpin ribozyme catalytic core.

Spitale RC, Volpini R, Mungillo MV, Krucinska J, Cristalli G, Wedekind JE

Biochemistry.. 2009 August 2548 (33):7777-9. Epub 1900 01 01.

Identification of an imino group indispensable for cleavage by a small ribozyme.

Spitale RC, Volpini R, Heller MG, Krucinska J, Cristalli G, Wedekind JE

Journal of the American Chemical Society.. 2009 May 6131 (17):6093-5. Epub 1900 01 01.

The structural basis for recognition of the PreQ0 metabolite by an unusually small riboswitch aptamer domain.

Spitale RC, Torelli AT, Krucinska J, Bandarian V, Wedekind JE

The Journal of biological chemistry.. 2009 April 24284 (17):11012-6. Epub 03/04/2009.

APOBEC3G subunits self-associate via the C-terminal deaminase domain.

Bennett RP, Salter JD, Liu X, Wedekind JE, Smith HC

The Journal of biological chemistry.. 2008 November 28283 (48):33329-36. Epub 10/08/2008.

Structural effects of nucleobase variations at key active site residue Ade38 in the hairpin ribozyme.

MacElrevey C, Salter JD, Krucinska J, Wedekind JE

RNA.. 2008 August 14 (8):1600-16. Epub 07/02/2008.

Shared traits on the reaction coordinates of ribonuclease and an RNA enzyme.

Torelli AT, Spitale RC, Krucinska J, Wedekind JE

Biochemical and biophysical research communications.. 2008 June 20371 (1):154-8. Epub 04/16/2008.

Reduced dNTP binding affinity of 3TC-resistant M184I HIV-1 reverse transcriptase variants responsible for viral infection failure in macrophage.

Jamburuthugoda VK, Santos-Velazquez JM, Skasko M, Operario DJ, Purohit V, Chugh P, Szymanski EA, Wedekind JE, Bambara RA, Kim B

The Journal of biological chemistry.. 2008 April 4283 (14):9206-16. Epub 01/24/2008.

Nuclear Exclusion of the HIV-1 host defense factor APOBEC3G requires a novel cytoplasmic retention signal and is not dependent on RNA binding.

Bennett RP, Presnyak V, Wedekind JE, Smith HC

The Journal of biological chemistry.. 2008 March 21283 (12):7320-7. Epub 12/28/2007.

Efficient syntheses of 5'-deoxy-5'-fluoroguanosine and -inosine.

Spitale RC, Heller MG, Pelly AJ, Wedekind JE

The Journal of organic chemistry.. 2007 October 2672 (22):8551-4. Epub 09/29/2007.

A comparison of vanadate to a 2'-5' linkage at the active site of a small ribozyme suggests a role for water in transition-state stabilization.

Torelli AT, Krucinska J, Wedekind JE

RNA.. 2007 July 13 (7):1052-70. Epub 05/08/2007.

A posteriori design of crystal contacts to improve the X-ray diffraction properties of a small RNA enzyme.

MacElrevey C, Spitale RC, Krucinska J, Wedekind JE

Acta crystallographica. Section D, Biological crystallography.. 2007 July 63 (Pt 7):812-25. Epub 06/15/2007.

Functional characterization of APOBEC-1 complementation factor phosphorylation sites.

Lehmann DM, Galloway CA, MacElrevey C, Sowden MP, Wedekind JE, Smith HC

Biochimica et biophysica acta.. 2007 March 1773 (3):408-18. Epub 12/08/2006.

Nanostructures of APOBEC3G support a hierarchical assembly model of high molecular mass ribonucleoprotein particles from dimeric subunits.

Wedekind JE, Gillilan R, Janda A, Krucinska J, Salter JD, Bennett RP, Raina J, Smith HC

The Journal of biological chemistry.. 2006 December 15281 (50):38122-6. Epub 10/31/2006.

APOBEC-1 and AID are nucleo-cytoplasmic trafficking proteins but APOBEC3G cannot traffic.

Bennett RP, Diner E, Sowden MP, Lees JA, Wedekind JE, Smith HC

Biochemical and biophysical research communications.. 2006 November 10350 (1):214-9. Epub 09/18/2006.

Structure-based design of novel HIV-1 protease inhibitors to combat drug resistance.

Ghosh AK, Sridhar PR, Leshchenko S, Hussain AK, Li J, Kovalevsky AY, Walters DE, Wedekind JE, Grum-Tokars V, Das D, Koh Y, Maeda K, Gatanaga H, Weber IT, Mitsuya H

Journal of medicinal chemistry.. 2006 August 2449 (17):5252-61. Epub 1900 01 01.

Structural phylogenetic analysis of activation-induced deaminase function.

Ichikawa HT, Sowden MP, Torelli AT, Bachl J, Huang P, Dance GS, Marr SH, Robert J, Wedekind JE, Smith HC, Bottaro A

The Journal of immunology : official journal of the American Association of Immunologists.. 2006 July 1177 (1):355-61. Epub 1900 01 01.

Peptide-binding motifs for the I-Ad MHC class II molecule: alternate pH-dependent binding behavior.

Chaves FA, Richards KA, Torelli A, Wedekind J, Sant AJ

Biochemistry.. 2006 May 2345 (20):6426-33. Epub 1900 01 01.

Water in the active site of an all-RNA hairpin ribozyme and effects of Gua8 base variants on the geometry of phosphoryl transfer.

Salter J, Krucinska J, Alam S, Grum-Tokars V, Wedekind JE

Biochemistry.. 2006 January 2445 (3):686-700. Epub 1900 01 01.

Crystallization and X-ray diffraction analysis of the Trp/amber editing site of hepatitis delta virus (+)RNA: a case of rational design.

MacElrevey C, Wedekind JE

Acta crystallographica. Section F, Structural biology and crystallization communications.. 2005 December 161 (Pt 12):1049-53. Epub 11/12/2005.

Conformational heterogeneity at position U37 of an all-RNA hairpin ribozyme with implications for metal binding and the catalytic structure of the S-turn.

Alam S, Grum-Tokars V, Krucinska J, Kundracik ML, Wedekind JE

Biochemistry.. 2005 November 844 (44):14396-408. Epub 1900 01 01.

Crystallographic analysis of the NNA7 Fab and proposal for the mode of human blood-group recognition.

Xie K, Song SC, Spitalnik SL, Wedekind JE

Acta crystallographica. Section D, Biological crystallography.. 2005 October 61 (Pt 10):1386-94. Epub 09/28/2005.

Coupling of MBP fusion protein cleavage with sparse matrix crystallization screens to overcome problematic protein solubility.

Gruswitz F, Frishman M, Goldstein BM, Wedekind JE

BioTechniques.. 2005 October 39 (4):476, 478, 480. Epub 1900 01 01.

Kinetic evidence for interaction of human immunodeficiency virus type 1 reverse transcriptase with the 3'-OH of the incoming dTTP substrate.

Jamburuthugoda VK, Guo D, Wedekind JE, Kim B

Biochemistry.. 2005 August 944 (31):10635-43. Epub 1900 01 01.

Ornithine cyclodeaminase: structure, mechanism of action, and implications for the mu-crystallin family.

Goodman JL, Wang S, Alam S, Ruzicka FJ, Frey PA, Wedekind JE

Biochemistry.. 2004 November 943 (44):13883-91. Epub 1900 01 01.

The structure of a yeast RNA-editing deaminase provides insight into the fold and function of activation-induced deaminase and APOBEC-1.

Xie K, Sowden MP, Dance GS, Torelli AT, Smith HC, Wedekind JE

Proceedings of the National Academy of Sciences of the United States of America.. 2004 May 25101 (21):8114-9. Epub 05/17/2004.

Crystallization and X-ray diffraction analysis of ornithine cyclodeaminase from Pseudomonas putida.

Alam S, Wang SC, Ruzicka FJ, Frey PA, Wedekind JE

Acta crystallographica. Section D, Biological crystallography.. 2004 May 60 (Pt 5):941-4. Epub 04/21/2004.

Purification, crystallization and X-ray diffraction analysis of a recombinant Fab that recognizes a human blood-group antigen.

Song SC, Xie K, Czerwinski M, Spitalnik SL, Wedekind JE

Acta crystallographica. Section D, Biological crystallography.. 2004 April 60 (Pt 4):788-91. Epub 03/23/2004.

Crystal structure of the leadzyme at 1.8 A resolution: metal ion binding and the implications for catalytic mechanism and allo site ion regulation.

Wedekind JE, McKay DB

Biochemistry.. 2003 August 1942 (32):9554-63. Epub 1900 01 01.

Messenger RNA editing in mammals: new members of the APOBEC family seeking roles in the family business.

Wedekind JE, Dance GS, Sowden MP, Smith HC

Trends in genetics : TIG.. 2003 April 19 (4):207-16. Epub 1900 01 01.

Crystallization and X-ray diffraction analysis of an all-RNA U39C mutant of the minimal hairpin ribozyme.

Grum-Tokars V, Milovanovic M, Wedekind JE

Acta crystallographica. Section D, Biological crystallography.. 2003 January 59 (Pt 1):142-5. Epub 12/19/2002.

Refined crystallographic structure of Pseudomonas aeruginosa exotoxin A and its implications for the molecular mechanism of toxicity.

Wedekind JE, Trame CB, Dorywalska M, Koehl P, Raschke TM, McKee M, FitzGerald D, Collier RJ, McKay DB

Journal of molecular biology.. 2001 December 7314 (4):823-37. Epub 1900 01 01.

Purification, crystallization, and X-ray diffraction analysis of small ribozymes.

Wedekind JE, McKay DB

Methods in enzymology.. 2000 317 :149-68. Epub 1900 01 01.

Crystal structure of a lead-dependent ribozyme revealing metal binding sites relevant to catalysis.

Wedekind JE, McKay DB

Nature structural biology.. 1999 March 6 (3):261-8. Epub 1900 01 01.

Crystallographic structures of the hammerhead ribozyme: relationship to ribozyme folding and catalysis.

Wedekind JE, McKay DB

Annual review of biophysics and biomolecular structure. 1998 27 :475-502. Epub 1900 01 01.

The enolase superfamily: a general strategy for enzyme-catalyzed abstraction of the alpha-protons of carboxylic acids.

Babbitt PC, Hasson MS, Wedekind JE, Palmer DR, Barrett WC, Reed GH, Rayment I, Ringe D, Kenyon GL, Gerlt JA

Biochemistry.. 1996 December 2435 (51):16489-501. Epub 1900 01 01.

Structural and mechanistic studies of enolase.

Reed GH, Poyner RR, Larsen TM, Wedekind JE, Rayment I

Current opinion in structural biology.. 1996 December 6 (6):736-43. Epub 1900 01 01.

The structure of nucleotidylated histidine-166 of galactose-1-phosphate uridylyltransferase provides insight into phosphoryl group transfer.

Wedekind JE, Frey PA, Rayment I

Biochemistry.. 1996 September 1035 (36):11560-9. Epub 1900 01 01.

A carboxylate oxygen of the substrate bridges the magnesium ions at the active site of enolase: structure of the yeast enzyme complexed with the equilibrium mixture of 2-phosphoglycerate and phosphoenolpyruvate at 1.8 A resolution.

Larsen TM, Wedekind JE, Rayment I, Reed GH

Biochemistry.. 1996 April 935 (14):4349-58. Epub 1900 01 01.

Three-dimensional structure of galactose-1-phosphate uridylyltransferase from Escherichia coli at 1.8 A resolution.

Wedekind JE, Frey PA, Rayment I

Biochemistry.. 1995 September 534 (35):11049-61. Epub 1900 01 01.

Galactose-1-phosphate uridylyltransferase from Escherichia coli, a zinc and iron metalloenzyme.

Ruzicka FJ, Wedekind JE, Kim J, Rayment I, Frey PA

Biochemistry.. 1995 April 2534 (16):5610-7. Epub 1900 01 01.

Octahedral coordination at the high-affinity metal site in enolase: crystallographic analysis of the MgII--enzyme complex from yeast at 1.9 A resolution.

Wedekind JE, Reed GH, Rayment I

Biochemistry.. 1995 April 434 (13):4325-30. Epub 1900 01 01.

Chelation of serine 39 to Mg2+ latches a gate at the active site of enolase: structure of the bis(Mg2+) complex of yeast enolase and the intermediate analog phosphonoacetohydroxamate at 2.1-A resolution.

Wedekind JE, Poyner RR, Reed GH, Rayment I

Biochemistry.. 1994 August 933 (31):9333-42. Epub 1900 01 01.

Crystallization and preliminary crystallographic analysis of galactose-1-phosphate uridylyltransferase from Escherichia coli.

Wedekind JE, Frey PA, Rayment I

Acta crystallographica. Section D, Biological crystallography.. 1994 May 150 (Pt 3):329-31. Epub 1900 01 01.

Books

eLifeSciences (2015)

Chapter: Tails of Three Knotty Switches: How PreQ1 Riboswitch Structures Control Protein Translation

Authors: Belashov I.A., Dutta D., Salim M., Wedekind J.E.

Publisher: John Wiley & Sons, Inc 2015

Chemical Biology of Nucleic Acids (2014)

Chapter: Metal Dependence of Ligand Binding and Heavy-Atom Derivatization of Evolutionarily Distinct PreQ1 Riboswitches

Authors: Joseph E. Wedekind, Joseph A. Liberman, Jermaine L. Jenkins, Mohammad Salim

Publisher: Springer 2014

Metal Ions in Life Sciences: Structural and Catalytic Roles of Metals in RNA (2010)

Chapter: Structural aspects of metal ion binding in small natural and artificial RNA enzymes

Authors: J.E. Wedekind

Publisher: Wiley-Blackwell 2010

In DNA and RNA modification Enzymes: Comparative Structure, Mechanism, Functions (2009)

Chapter: Mechanism of action and structural aspects of ADARS (A-to-I) and APOBEC-related (C-to-U) deaminases

Authors: J.E. Wedekind & P.A Beal

Publisher: Landes BioSciences 2009

RNA and DNA Editing: Molecular Mechanisms and their Integration into Biological (2008)

Chapter: Chemistry, Phylogeny and Structure of the APOBEC Family

Authors: C. McElrevey, J.E. Wedekind

Publisher: Wiley Interscience, New Jersey 2008

Topics in Current Genetics: "Fine-Tuning of RNA Functions by Modification and Ed (2005)

Chapter: Mammalian C to U Editing

Authors: Smith* HC, Wedekind* JE, Xie K, Sowden MP

Publisher: Springer-Verlag, Berlin 2005

The RNA World (1999)

Chapter: Small Ribozymes

Authors: McKay, D.B & Wedekind, J.E.

Publisher: Cold Spring Harbor, Cold Spring Harbor, New York 1999