Publications

2018

1. Koteva K, Cox G, Kelso JK, Surette MD, Zubyk HL, Ejim L, Stogios P, Savchenko A, Sørensen D, Wright GD. “Rox, a Rifamycin Resistance Enzyme with an Unprecedented Mechanism of Action.” Cell Chem Biol. 2018 Jan 26. pii: S2451-9456(18)30031-X. doi: 10.1016/j.chembiol.2018.01.009. Pubmed ID 29398560.

2. Pawlowski AC, Stogios PJ, Koteva K, Skarina T, Evdokimova E, Savchenko A, Wright GD. “The evolution of substrate discrimination in macrolide antibiotic resistance enzymes.” Nat Commun. 2018 Jan 9;9(1):112. doi: 10.1038/s41467-017-02680-0. Pubmed ID 29317655.

3. Quaile AT, Stogios PJ, Egorova O, Evdokimova E, Valleau D, Nocek B, Kompella PS, Peisajovich S, Yakunin AF, Ensminger AW, Savchenko A. “The Legionella pneumophila effector Ceg4 is a phosphotyrosine phosphatase that attenuates activation of eukaryotic MAPK pathways.” J Biol Chem. 2018 Jan 4. pii: jbc.M117.812727. doi: 10.1074/jbc.M117.812727. Pubmed ID 29301934.

4. Martínez-Martínez M, Coscolín C, Santiago G, Chow J, Stogios PJ, Bargiela R, Gertler C, Navarro-Fernández J, Bollinger A, Thies S, Méndez-García C, Popovic A, Brown G, Chernikova TN, García-Moyano A, Bjerga GEK, Pérez-García P, Hai T, Del Pozo MV, Stokke R, Steen IH, Cui H, Xu X, Nocek BP, Alcaide M, Distaso M, Mesa V, Peláez AI, Sánchez J, Buchholz PCF, Pleiss J, Fernández-Guerra A, Glöckner FO, Golyshina OV, Yakimov MM, Savchenko A, Jaeger KE, Yakunin AF, Streit WR, Golyshin PN, Guallar V, Ferrer M, The Inmare Consortium. “Determinants and Prediction of Esterase Substrate Promiscuity Patterns.” ACS Chem Biol. 2018 Jan 19;13(1):225-234. doi: 10.1021/acschembio.7b00996. Epub 2017 Dec 20. Pubmed ID 29182315.

2017

1. Martínez-Martínez M, Coscolín C, Santiago G, Chow J, Stogios PJ, Bargiela R, Gertler C, Navarro-Fernández J, Bollinger A, Thies S, Méndez-García C, Popovic A, Brown G, Chernikova TN, García-Moyano A, Bjerga GEK, Pérez-García P, Hai T, Del Pozo MV, Stokke R, Steen IH, Cui H, Xu X, Nocek BP, Alcaide M, Distaso M, Mesa V, Peláez AI, Sánchez J, Buchholz PCF, Pleiss J, Fernández-Guerra A, Glöckner FO, Golyshina OV, Yakimov MM, Savchenko A, Jaeger KE, Yakunin AF, Streit WR, Golyshin PN, Guallar V, Ferrer M, The Inmare Consortium. “Determinants and Prediction of Esterase Substrate Promiscuity Patterns.” ACS Chem Biol. 2017 Dec 20. doi: 10.1021/acschembio.7b00996. Pubmed ID: 29182315

2. Xu Z, Stogios PJ, Quaile AT, Forsberg KJ, Patel S, Skarina T, Houliston S, Arrowsmith C, Dantas G, Savchenko A. “Structural and Functional Survey of Environmental Aminoglycoside Acetyltransferases Reveals Functionality of Resistance Enzymes.” ACS Infect Dis. 2017 Sep 8;3(9):653-665. doi: 10.1021/acsinfecdis.7b00068. Epub 2017 Aug 16. Pubmed ID: 28756664

3. Popovic A, Hai T, Tchigvintsev A, Hajighasemi M, Nocek B, Khusnutdinova AN, Brown G, Glinos J, Flick R, Skarina T, Chernikova TN, Yim V, Brüls T, Paslier DL, Yakimov MM, Joachimiak A, Ferrer M, Golyshina OV, Savchenko A, Golyshin PN, Yakunin AF. “Activity screening of environmental metagenomic libraries reveals novel carboxylesterase families.” Sci Rep. 2017 Mar 8;7:44103. doi:10.1038/srep44103. Pubmed ID 28272521.

4. Kim T, Flick R, Brunzelle J, Singer A, Evdokimova E, Brown G, Joo JC, Minasov GA, Anderson WF, Mahadevan R, Savchenko A, Yakunin AF. “Novel Aldo-Keto Reductases for the Biocatalytic Conversion of 3-Hydroxybutanal to 1,3-Butanediol: Structural and Biochemical Studies.” Appl Environ Microbiol. 2017 Mar 17;83(7). pii: e03172-16. doi: 10.1128/AEM.03172-16. Print 2017 Apr 1. Pubmed ID 28130301

5. Urbanus ML, Quaile AT, Stogios PJ, Morar M, Rao C, Di Leo R, Evdokimova E, Lam M, Oatway C, Cuff ME, Osipiuk J, Michalska K, Nocek BP, Taipale M, Savchenko A, Ensminger AW. “Diverse mechanisms of metaeffector activity in an intracellular bacterial pathogen, Legionella pneumophila.” Mol Syst Biol. 2016 Dec 16;12(12):893. doi: 10.15252/msb.20167381. Pubmed ID 27986836.

6. Sontag RL, Nakayasu ES, Brown RN, Niemann GS, Sydor MA, Sanchez O, Ansong C, Lu SY, Choi H, Valleau D, Weitz KK, Savchenko A, Cambronne ED, Adkins JN. “Identification of Novel Host Interactors of Effectors Secreted by Salmonella and Citrobacter.” mSystems. 2016 Jul 12;1(4). pii: e00032-15. eCollection 2016 Jul-Aug. Pubmed ID 27822540

7. Stogios PJ, Kuhn ML, Evdokimova E, Law M, Courvalin P, Savchenko A. “Structural and Biochemical Characterization of Acinetobacter spp. Aminoglycoside Acetyltransferases Highlights Functional and Evolutionary Variation among Antibiotic Resistance Enzymes.” ACS Infect Dis. 2017 Feb 10;3(2):132-143. Pubmed ID 27785912

 

2016

1. Urbanus ML, Quaile AT, Stogios PJ, Morar M, Rao C, Di Leo R, Evdokimova E, Lam M, Oatway C, Cuff ME, Osipiuk J, Michalska K, Nocek BP, Taipale M, Savchenko A, Ensminger AW. “Diverse mechanisms of metaeffector activity in an intracellular bacterial pathogen, Legionella pneumophila.” Mol Syst Biol. 2016 Dec 16;12(12):893. Pubmed ID 27986836.

2. Sontag RL, Nakayasu ES, Brown RN, Niemann GS, Sydor MA, Sanchez O, Ansong C, Lu SY, Choi H, Valleau D, Weitz KK, Savchenko A, Cambronne ED, Adkins JN. “Identification of Novel Host Interactors of Effectors Secreted by Salmonella and Citrobacter”. mSystems. 2016 Jul 12;1(4). pii: e00032-15. Pubmed ID 27822540.

3. Stogios PJ, Kuhn ML, Evdokimova E, Law M, Courvalin P, Savchenko A. “Structural and biochemical characterization of Acinetobacter spp. aminoglycoside acetyltransferases highlights functional and evolutionary variation among antibiotic resistance enzymes.” ACS Infect Dis. 2016 Oct 27. Pubmed ID 27785912.

7. Hajighasemi M, Nocek BP, Tchigvintsev A, Brown G, Flick R, Xu X, Cui H, Hai T, Joachimiak A, Golyshin PN, Savchenko A, Edwards EA, Yakunin AF. “Biochemical and structural insights into enzymatic depolymerization of polylactic acid and other polyesters by microbial carboxylesterases.” Biomacromolecules. 2016 Apr 18 [Epub ahead of print]. Pubmed ID 27087107

8. Chen S, White CE, diCenzo GC, Zhang Y, Stogios PJ, Savchenko A, Finan TM. “L-Hydroxyproline and D-Proline Catabolism in Sinorhizobium meliloti.“J Bacteriol. 2016 Feb 1. pii: JB.00961-15. Pubmed ID 26833407

9. Rolando M, Escoll P, Nora T, Botti J, Boitez V, Bedia C, Daniels C, Abraham G, Stogios PJ, Skarina T, Christophe C, Dervins-Ravault D, Cazalet C, Hilbi H, Rupasinghe T, Tull D, McConville MJ, Ong SY, Hartland EL, Codogno P, Levade T, Naderer T, Savchenko A, Buchrieser C. “Legionella pneumophila S1P-lyase targets host sphingolipid metabolism and restrains autophagy.” Proc Natl Acad Sci U S A. 2016 Feb. 1. Pubmed ID 26831115

10. McGregor N*, Morar M*, Fenger TH, Stogios P, Lenfant N, Yin V, Xu X, Evdokimova E, Cui H, Henrissat B, Savchenko A, Brumer H. “Structure-Function Analysis of a Mixed-linkage β-Glucanase/Xyloglucanase from the Key Ruminal Bacteroidetes Prevotella bryantii B14.” J. Biol. Chem. Jan 15;291(3):1175-97. Pubmed ID 26507654 *co-first authors

 

2015

1. Toh S, Holbrook-Smith D, Stogios PJ, Onopriyenko O, Lumba S, Tsuchiya Y, Savchenko A, McCourt P. “Structure-function analysis identifies highly sensitive strigolactone receptors in Striga.” Science Oct 9;350(6257):203-7. Pubmed ID 26450211

2. Morar M, Evdokimova E, Chang C, Ensminger AW, Savchenko A.”Crystal structure of the Legionella pneumophila lem10 effector reveals a new member of the HD protein superfamily.” Proteins. 2015 Oct 1. Pubmed ID 26426142

3. Otani H, Stogios PJ, Xu X, Nocek B, Li SN, Savchenko A, Eltis LD. “The activity of CouR, a MarR family transcriptional regulator, is modulated through a novel molecular mechanism.” Nucleic Acids Res. 2015 Sep 22. Pubmed ID 26400178

4. Meziane-Cherif D*, Stogios PJ*, Evdokimova E, Egorova O, Savchenko A, Courvalin P. “Structural and functional adaptation of vancomycin VanT serine racemases.” MBio August 11;6(4):e00806-15 . Pubmed ID 26400178 *co-first authors

5. Stogios PJ, Evdokimova E, Morar M, Koteva K, Wright GD, Courvalin P, Savchenko A. “Structural and functional plasticity of antibiotic resistance nucleotidylyltransferases revealed by molecular characterization of lincosamide nucleotidylyltransferases Lnu(A) and Lnu(D).” J Mol. Biol. 2015 June 19;427(12):2229-43. Pubmed ID 25900373.

6. Quaile AT, Urbanus ML, Stogios PJ, Skarina T, Ensminger AW, Savchenko A. “Molecular characterization of LuxB: Functional Divergence of the U-box Fold by Legionella pneumophila.” Structure 2015 June 18 e-pub. Pubmed ID 26146184.

7. Alcaide M, Tchigvintsev A, Martínez-Martínez M, Popovic A, Reva ON, Lafraya Á, Bargiela R, Nechitaylo TY, Matesanz R, Cambon-Bonavita MA, Jebbar M, Yakimov MM, Savchenko A, Golyshina OV, Yakunin AF, Golyshin PN, Ferrer M. “Identification and Characterization of Carboxyl Esterases of Gill Chamber-Associated Microbiota in the Deep-Sea Shrimp Rimicaris exoculata by Using Functional Metagenomics.” Appl Environ Microbiol. 2015 Mar 15;81(6):2125-36. Pubmed ID 25595762.

8. Mulder DT, McPhee JB, Reid-Yu SA, Stogios PJ, Savchenko A, Coombes BK. “Multiple histidines in the periplasmic domain of the Salmonella enterica sensor kinase SsrA enhance signaling in response to extracellular acidification.” Mol Microbiol. 2015 Feb;95(4):678-91 Pubmed ID 25442048.

9. Crowe AM*, Stogios PJ*, Casabon I, Evdokimova E, Savchenko A, Eltis LD. “Structural and functional characterization of a ketosteroid transcriptional regulator of Mycobacterium tuberculosis.” J Biol Chem. 2015 Jan 9;290(2):872-82. Pubmed ID 25406313. *co-first authors

10. Cox G, Stogios PJ, Savchenko A, Wright GD. “Structural and molecular basis for resistance to aminoglycoside antibiotics by the adenylyltransferase ANT(2″)-Ia.” MBio. 2015 Jan 6;6(1). Pubmed ID 25564464.

11. Sontag RL, Mihai C, Orr G, Savchenko A, Skarina T, Cui H, Cort JR, Adkins JN, Brown RN. “Electroporation of functional bacterial effectors into Mammalian cells.” J Vis Exp. 2015 Jan 19;(95). Pubmed 25650771.

 

 

2014

1. Alcaide M, Stogios PJ, Lafraya A, Tchigvintsev A, Flick R, Bargiela R, Chernikova TN, Reva ON, Hai T, Leggewie CC, Katzke N, La Cono V, Matesanz R, Jebbar M, Jaeger KE, Yakimov MM, Yakunin AF, Golyshin PN, Golyshina OV, Savchenko A, Ferrer M; MAMBA consortium. “Pressure adaptation is linked to thermal adaptation in salt-saturated marine habitats.” Environ Microbiol. 2014 Oct 20. Pubmed ID 25330254.

2. Filippova EV, Tkaczuk KL, Chruszcz M, Xu X, Savchenko A, Edwards A, Minor W. “Structural characterization of the putative ABC-type 2 transporter from Thermotoga maritima MSB8.” J Struct Funct Genomics. 2014 Oct 12. Pubmed ID 25306867.

3. Kaur AP, Nocek BP, Xu X, Lowden MJ, Leyva JF, Stogios PJ, Cui H, Di Leo R, Powlowski J, Tsang A, Savchenko A. “Functional and structural diversity in GH62 α-L-arabinofuranosidases from the thermophilic fungus Scytalidium thermophilum.” Microb Biotechnol. 2014 Sep 29. Pubmed ID 25267315.

4. Eshaghi A, Shalhoub S, Rosenfeld P, Li A, Higgins RR, Stogios PJ, Savchenko A, Bastien N, Li Y, Rotstein C, Gubbay JB. “Multiple Influenza A (H3N2) Mutations Conferring Resistance to Neuraminidase Inhibitors in a Bone Marrow Transplant Recipient.” Antimicrob Agents Chemother. 2014 Dec;58(12):7188-97. Pubmed ID 25246391.

5. Stogios PJ, Kuhn ML, Evdokimova E, Courvalin P, Anderson WF, Savchenko A. “Potential for Reduction of Streptogramin A Resistance Revealed by Structural Analysis of Acetyltransferase VatA.” Antimicrob Agents Chemother. 2014 Dec;58(12):7083-92. Pubmed ID 25223995.

6. Lemak S, Nocek B, Beloglazova N, Skarina T, Flick R, Brown G, Joachimiak A, Savchenko A, Yakunin AF. “The CRISPR-associated Cas4 protein Pcal_0546 from Pyrobaculum calidifontis contains a [2Fe-2S] cluster: crystal structure and nuclease activity.” Nucleic Acids Res. 2014;42(17):11144-55. Pubmed ID 25200083.

7. Tchigvintsev A, Tran H, Popovic A, Kovacic F, Brown G, Flick R, Hajighasemi M, Egorova O, Somody JC, Tchigvintsev D, Khusnutdinova A, Chernikova TN, Golyshina OV, Yakimov MM, Savchenko A, Golyshin PN, Jaeger KE, Yakunin AF. “The environment shapes microbial enzymes: five cold-active and salt-resistant carboxylesterases from marine metagenomes.” Appl Microbiol Biotechnol. 2014 Sep 7. Pubmed ID 25194841.

8. Eletsky A, Michalska K, Houliston S, Zhang Q, Daily MD, Xu X, Cui H, Yee A, Lemak A, Wu B, Garcia M, Burnet MC, Meyer KM, Aryal UK, Sanchez O, Ansong C, Xiao R, Acton TB, Adkins JN, Montelione GT, Joachimiak A, Arrowsmith CH, Savchenko A, Szyperski T, Cort JR. “Structural and functional characterization of DUF1471 domains of Salmonella proteins SrfN, YdgH/SssB, and YahO.” PLoS One. 2014 Jul 10;9(7):e101787. Pubmed ID 25010333.

9. Wang W, Mai-Gisondi G, Stogios PJ, Kaur A, Xu X, Cui H, Turunen O, Savchenko A, Master ER. “Biochemical and structural characterization of a thermostable family GH62 α-l-arabinofuranosidase from Streptomyces thermoviolaceus to elucidate the molecular basis for activity towards arabinoxylan.” Appl Environ Microbiol. 2014 Jun 20. Pubmed ID 24951792.

10. Hoyland CN, Aldridge C, Cleverley RM, Duchêne MC, Minasov G, Onopriyenko O, Sidiq K, Stogios PJ, Anderson WF, Daniel RA, Savchenko A, Vollmer W, Lewis RJ. “Structure of the LdcB LD-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition.” Structure. 2014 Jun 4. pii: S0969-2126(14)00139-7. Pubmed ID 24909784.

11. Bajor J, Tkaczuk KL, Chruszcz M, Chapman H, Kagan O, Savchenko A, Minor W.  “The crystal structure of pyrimidine/thiamin biosynthesis precursor-like domain-containing protein CAE31940 from proteobacterium Bordetella bronchiseptica RB50, and evolutionary insight into the NMT1/THI5 family.” J Struct Funct Genomics. 2014 Jun;15(2):73-81. Pubmed ID 24908050.

12. Chen C, Joo JC, Brown G, Stolnikova E, Halavaty AS, Savchenko A, Anderson WF, Yakunin AF.  “Structure-Based Mutational Studies of Substrate Inhibition of Betaine Aldehyde Dehydrogenase BetB from Staphylococcus aureus.” Appl Environ Microbiol. 2014 Jul 1;80(13):3992-4002. Pubmed ID 24747910.

13. Halavaty AS, Anderson SM, Wawrzak Z, Kudritska M, Skarina T, Anderson WF, Savchenko A.  “Type III effector NleH2 from Escherichia coli O157:H7 str. Sakai features an atypical protein kinase domain.” Biochemistry. 2014 Apr 22;53(15):2433-5. Pubmed ID 24712300.

14. Meziane-Cherif D, Stogios PJ, Evdokimova E, Savchenko A, Courvalin P.  “Structural basis for the evolution of vancomycin resistance D,D-peptidases.” Proc Natl Acad Sci U S A. 2014 Apr 22;111(16):5872-7. Pubmed ID 24711382.

15. Skarina T, Xu X, Evdokimova E, Savchenko A.  “High-throughput crystallization screening.” Methods Mol Biol. 2014;1140:159-68. Pubmed ID 24590716.

 

2013

1. Tchigvintsev A, Tchigvintsev D, Flick R, Popovic A, Dong A, Xu X, Brown G, Lu W, Wu H, Cui H, Dombrowski L, Joo JC, Beloglazova N, Min J, Savchenko A, Caudy AA, Rabinowitz JD, Murzin AG, Yakunin AF. “Biochemical and structural studies of conserved Maf proteins revealed nucleotide pyrophosphatases with a preference for modified nucleotides.” Chem Biol. 2013 Nov 21;20(11):1386-98. Pubmed ID 24210219.

2. Lemak S, Beloglazova N, Nocek B, Skarina T, Flick R, Brown G, Popovic A, Joachimiak A, Savchenko A, Yakunin AF. “Toroidal structure and DNA cleavage by the CRISPR-associated [4Fe-4S] cluster containing Cas4 nuclease SSO0001 from Sulfolobus solfataricus.”. J Am Chem Soc. 2013 Nov 20;135(46):17476-87. Pubmed ID 24171432.

3. Domalgalski MJ, Tkaczuk KL, Chruszcz M, Skarina T, Onopriyenko O, Cymborowski M, Grabowski M, Savchenko A, Minor W. “Structure of isochorismate synthase DhbC from Bacillus anthracis”. Acta Crystallographica Section F. Sep;69(Pt 9):956-61. Pubmed ID 23989140.

4. Loza-Correa M, Sahr T, Rolando M, Daniels C, Petit P, Skarina T, Gomez Valero L, Dervins-Ravault D, Honoré N, Savchenko A, Buchrieser C. “The Legionella pneumophila kai operon is implicated in stress response and confers fitness in competitive environments.” Environmental Microbiology Jul 25. Pubmed ID 23957615.

5. Kube M, Chernikova TN, Al-Ramahi Y, Beloqui A, Lopez-Cortez N, Guazzaroni ME, Heipieper HJ, Klages S, Kotsyurbenko OR, Langer I, Nechitaylo TY, Lünsdorf H, Fernández M, Juárez S, Ciordia S, Singer A, Kagan O, Egorova O, Petit PA, Stogios P, Kim Y, Tchigvintsev A, Flick R, Denaro R, Genovese M, Albar JP, Reva ON, Martínez-Gomariz M, Tran H, Ferrer M, Savchenko A, Yakunin AF, Yakimov MM, Golyshina OV, Reinhardt R, Golyshin PN. “Genome sequence and functional genomic analysis of the oil-degrading bacterium Oleispira antarctica.” Nature Communications 4;2156. Pubmed ID 23877221.

6. Stogios PJ, Spanogiannopoulos P, Evdokimova E, Egorova O, Shakya T, Todorovic N, Capretta A, Wright GD, Savchenko A. “Structure-guided optimization of protein kinase inhibitors reverses aminoglycoside antibiotic resistance.” Biochemical Journal Sep 1; 454(2):191-200. Pubmed ID 23758273.

7. Alcaide M, Tornés J, Stogios PJ, Xu X, Gertler C, Di Leo R, Bargiela R, Lafraya A, Guazzaroni ME, López-Cortés N, Chernikova TN, Golyshina OV, Nechitaylo TY, Plumeier I, Pieper DH, Yakimov MM, Savchenko A, Golyshin PN, Ferrer M. “Single residues dictate the co-evolution of dual esterases: MCP hydrolases from the α/β hydrolase family.” Biochemical Journal Aug 15; 454(1): 157-66. Pubmed ID 23750508.

8. Tkaczuk KL, A Shumilin I, Chruszcz M, Evdokimova E, Savchenko A, Minor W. “Structural and functional insight into the universal stress protein family.” Evolutionary Applications Apr; 6(3): 434-49. Pubmed ID 23745136.

9. Singer AU, Schulze S, Skarina T, Xu X, Cui H, Eschen-Lippold L, Egler M, Srikumar T, Raught B, Lee J, Scheel D, Savchenko A, Bonas U. “A pathogen type III effector with a novel E3 ubiquitin ligase architecture.” PLoS Pathogens Jan; 9(1): e1003121. Pubmed ID 23359647.

10. Zheng H, Beliavsky A, Tchigvintsev A, Brunzelle JS, Brown G, Flick R, Evdokimova E, Wawrzak Z, Mahadevan R, Anderson WF, Savchenko A, Yakunin AF. “Structure and activity of the NAD(P)+-dependent succinate semialdehyde dehydrogenase YneI from Salmonella typhimurium.” Proteins Jun; 81(6): 1031-41. Pubmed ID 23229889.

 

2012

1. Singer AU, Wu B, Yee A, Houliston S, Xu X, Cui H, Skarina T, Garcia M, Semesi A, Arrowsmith CH, Savchenko A. “Structural analysis of HopPmaL reveals the presence of a second adaptor domain common to the HopAB family of Pseudomonas syringae type III effectors.” Biochemistry. Jan; 51(1):1-3 Pubmed ID 22191472.

2. Tchigvintsev A, Singer A, Brown G, Flick R, Evdokimova E, Tan K, Gonzalez CF, Savchenko A, Yakunin AF. “Biochemical and structural studies of uncharacterized protein PA0743 from Pseudomonas aeruginosa revealed NAD+-dependent L-serine dehydrogenase.” J Biol Chem. Jan; 287(3):1874-83 Pubmed ID 22128181.

3. Goral AM, Tkaczuk KL, Chruszcz M, Kagan O, Savchenko A, Minor W. “Crystal structure of a putative isochorismatase hydrolase from Oleispira antarctica.” J Struct Funct Genomics. Mar; 13(1): 27-36 Pubmed ID 22350524.

4. Zheng H, Filippova EV, Tkaczuk KL, Dworzynski P, Chruszcz M, Porebski PJ, Wawrzak Z, Onopriyenko O, Kudritska M, Grimshaw S, Savchenko A, Anderson WF, Minor W. “Crystal structures of putative phosphoglycerate kinases from B. anthracis and C. jejuni.” J Struct Funct Genomics. Mar; 13(1): 15-26. Pubmed ID 22403005.

5. Porebski PJ, Klimecka M, Chruszcz M, Nicholls RA, Murzyn K, Cuff ME, Xu X, Cymborowski M, Murshudov GN, Savchenko A, Edwards A, Minor W. “Structural characterization of Helicobacter pylori dethiobiotin synthetase reveals differences between family members.” FEBS J. Mar; 279(6): 1093-105. Pubmed ID 22284390.

6. Hou J, Wojciechowska K, Zheng H, Chruszcz M, Cooper DR, Cymborowski M, Skarina T, Gordon E, Luo H, Savchenko A, Minor W. “Structure of a short-chain dehydrogenase/reductase from Bacillus anthracis.” Acta Crystallogr Sect F Struct Biol Cryst Commun. Jun; 68(6): 632-7. Pubmed ID 22684058.

7. Lemak S, Tchigvintsev A, Petit P, Flick R, Singer AU, Brown G, Evdokimova E, Egorova O, Gonzalez CF, Chernikova TN, Yakimov MM, Kube M, Reinhardt R, Golyshin PN, Savchenko A, Yakunin AF. “Structure and activity of the cold-active and anion-activated carboxyl esterase OLEI01171 from the oil-degrading marine bacterium Oleispira antarctica.” Biochem J. Jul; 445(2): 193-203. Pubmed ID 22519667.

8. Gonzalez CF, Tchigvintsev A, Brown G, Flick R, Evdokimova E, Xu X, Osipiuk J, Cuff ME, Lynch S, Joachimiak A, Savchenko A, Yakunin AF. “Structure and activity of the Pseudomonas aeruginosa hotdog-fold thioesterases PA5202 and PA2801.” Biochem J. Jul; 444(3): 445-55. Pubmed ID 22439787.

9. Shabalin IG, Porebski PJ, Cooper DR, Grabowski M, Onopriyenko O, Grimshaw S, Savchenko A, Chruszcz M, Minor W. “Structure of anabolic ornithine carbamoyltransferase from Campylobacter jejuni at 2.7 Å resolution.” Acta Crystallogr Sect F Struct Biol Cryst Commun. Sep; 68(9): 1018-24. Pubmed ID 22949186.

10. Halavaty AS, Kim Y, Minasov G, Shuvalova L, Dubrovska I, Winsor J, Zhou M, Onopriyenko O, Skarina T, Papazisi L, Kwon K, Peterson SN, Joachimiak A, Savchenko A, Anderson WF. “Structural characterization and comparison of three acyl-carrier-protein synthases from pathogenic bacteria.” Acta Crystallogr D Biol Crystallogr. Oct; 68(10): 1359-70. Pubmed ID 22993090.

 

2011

1. Shakya T, Stogios PJ, Waglechner N, Evdokimova E, Ejim L, Blanchard JE, McArthur AG, Savchenko A, Wright GD.”A small molecule discrimination map of the antibiotic resistance kinome.” Chem Biol. Dec 23;18(12):1591-601. Pubmed ID 22195561.

2. Singer AU, Wu B, Yee A, Houliston S, Xu X, Cui H, Skarina T, Garcia M, Semesi A, Arrowsmith CH, Savchenko A. “Structural analysis of HopPmaL reveals the presence of a second adaptor domain common to the HopAB family of Pseudomonas syringae type III effectors.” Biochemistry. 2012 Jan 10;51(1):1-3. Pubmed ID 22191472.

3. Tchigvintsev A, Singer A, Brown G, Flick R, Evdokimova E, Tan K, Gonzalez CF, Savchenko A, Yakunin AF. “Biochemical and structural studies of uncharacterized protein PA0743 from Pseudomonas aeruginosa revealed NAD+-dependent L-serine dehydrogenase.” J Biol Chem. 2012 Jan 13;287(3):1874-83. Pubmed ID 22128181

4. Beloglazova N, Petit P, Flick R, Brown G, Savchenko A, Yakunin AF. “Structure and activity of the Cas3 HD nuclease MJ0384, an effector enzyme of the CRISPR interference.” EMBO J. 2011 Oct 18;30(22):4616-27. Pubmed ID 22009198.

5. Lai KK*, Stogios PJ*, Vu C, Xu X, Cui H, Molloy S, Savchenko A, Yakunin A, Gonzalez CF. “An inserted α/β subdomain shapes the catalytic pocket of Lactobacillus johnsonii cinnamoyl esterase.” PLoS One. 2011;6(8):e23269. Pubmed ID 21876742

6. Eshaghi A, Patel SN, Sarabia A, Higgins RR, Savchenko A, Stogios PJ, Li Y, Bastien N, Alexander DC, Low DE, Gubbay JB. “Multidrug-resistant pandemic (H1N1) 2009 infection in immunocompetent child.” Emerg Infect Dis. 2011 Aug;17(8):1472-4. Pubmed ID 21801626.

7. Clasquin MF, Melamud E, Singer A, Gooding JR, Xu X, Dong A, Cui H, Campagna SR, Savchenko A, Yakunin AF, Rabinowitz JD, Caudy AA. “Riboneogenesis in yeast.” Cell. 2011 Jun 10;145(6):969-80. Pubmed ID 21663798.

8. Filippova EV, Chruszcz M, Cymborowski M, Gu J, Savchenko A, Edwards A, Minor W. “Crystal structure of a putative transcriptional regulator SCO0520 from Streptomyces coelicolor A3(2) reveals an unusual dimer among TetR family proteins.” J Struct Funct Genomics. 2011 Sep;12(3):149-57. Pubmed ID 21625866

9. Klimecka MM, Chruszcz M, Font J, Skarina T, Shumilin I, Onopryienko O, Porebski PJ, Cymborowski M, Zimmerman MD, Hasseman J, Glomski IJ, Lebioda L, Savchenko A, Edwards A, Minor W. “Structural analysis of a putative aminoglycoside N-acetyltransferase from Bacillus anthracis.” J Mol Biol. 2011 Jul 15;410(3):411-23. Pubmed ID 21601576

10. Tchigvintsev A, Singer AU, Flick R, Petit P, Brown G, Evdokimova E, Savchenko A, Yakunin AF. “Structure and activity of the Saccharomyces cerevisiae dUTP pyrophosphatase DUT1, an essential housekeeping enzyme.” Biochem J. 2011 Jul 15;437(2):243-53. doi: 10.1042/BJ20110304. Pubmed ID 21548881

11. Osipiuk J, Xu X, Cui H, Savchenko A, Edwards A, Joachimiak A. “Crystal structure of secretory protein Hcp3 from Pseudomonas aeruginosa”. J Struct Funct Genomics. 2011 Mar;12(1):21-6. Pubmed ID 21476004

12. Deshpande CN, Harrop SJ, Boucher Y, Hassan KA, Di Leo R, Xu X, Cui H, Savchenko A, Chang C, Labbate M, Paulsen IT, Stokes HW, Curmi PM, Mabbutt BC. “Crystal structure of an integron gene cassette-associated protein from Vibrio cholerae identifies a cationic drug-binding module.” PLoS One. 2011 Mar 3;6(3):e16934. Pubmed ID 21390267

13. Babu M, Beloglazova N, Flick R, Graham C, Skarina T, Nocek B, Gagarinova A, Pogoutse O, Brown G, Binkowski A, Phanse S, Joachimiak A, Koonin EV, Savchenko A, Emili A, Greenblatt J, Edwards AM, Yakunin AF. “A dual function of the CRISPR-Cas system in bacterial antivirus immunity and DNA repair.” Mol Microbiol. 2011 Jan;79(2):484-502. doi: 10.1111/j.1365-2958.2010.07465.x. Pubmed ID 21219465

14. Stogios PJ, Shakya T, Evdokimova E, Savchenko A, Wright GD. “Structure and function of APH(4)-Ia, a hygromycin B resistance enzyme.” J Biol Chem. 2011 Jan 21;286(3):1966-75. doi: 10.1074/jbc.M110.194266. Epub 2010 Nov 17. Erratum in: J Biol Chem. 2011 Dec 9;286(49):42786. Pubmed ID 21084294