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A 2.08 Å resolution structure of HLB5, a novel cellulase from the anaerobic gut bacterium Parabacteroides johnsonii DSM 18315.

Chang C, Brooke C, Piao H, Mack J, Babnigg G, Joachimiak A, Hess M.

Protein Sci. 2019 Apr;28(4):794-799. doi: 10.1002/pro.3582. Epub 2019 Feb 18.


Periplasmic protein EipA determines envelope stress resistance and virulence in Brucella abortus.

Herrou J, Willett JW, Fiebig A, Varesio LM, Czyż DM, Cheng JX, Ultee E, Briegel A, Bigelow L, Babnigg G, Kim Y, Crosson S.

Mol Microbiol. 2019 Mar;111(3):637-661. doi: 10.1111/mmi.14178. Epub 2019 Jan 21.


Resistance to Enediyne Antitumor Antibiotics by Sequestration.

Chang CY, Yan X, Crnovcic I, Annaval T, Chang C, Nocek B, Rudolf JD, Yang D, Hindra, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

Cell Chem Biol. 2018 Sep 20;25(9):1075-1085.e4. doi: 10.1016/j.chembiol.2018.05.012. Epub 2018 Jun 21.


Natural separation of the acyl-CoA ligase reaction results in a non-adenylating enzyme.

Wang N, Rudolf JD, Dong LB, Osipiuk J, Hatzos-Skintges C, Endres M, Chang CY, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

Nat Chem Biol. 2018 Jul;14(7):730-737. doi: 10.1038/s41589-018-0061-0. Epub 2018 Jun 4.


Molecular control of gene expression by Brucella BaaR, an IclR-type transcriptional repressor.

Herrou J, Czyż DM, Fiebig A, Willett JW, Kim Y, Wu R, Babnigg G, Crosson S.

J Biol Chem. 2018 May 11;293(19):7437-7456. doi: 10.1074/jbc.RA118.002045. Epub 2018 Mar 22.


Structural Insights into the Free-Standing Condensation Enzyme SgcC5 Catalyzing Ester-Bond Formation in the Biosynthesis of the Enediyne Antitumor Antibiotic C-1027.

Chang CY, Lohman JR, Huang T, Michalska K, Bigelow L, Rudolf JD, Jedrzejczak R, Yan X, Ma M, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

Biochemistry. 2018 Jun 12;57(23):3278-3288. doi: 10.1021/acs.biochem.8b00174. Epub 2018 Mar 21.


Structure of a novel antibacterial toxin that exploits elongation factor Tu to cleave specific transfer RNAs.

Michalska K, Gucinski GC, Garza-Sánchez F, Johnson PM, Stols LM, Eschenfeldt WH, Babnigg G, Low DA, Goulding CW, Joachimiak A, Hayes CS.

Nucleic Acids Res. 2017 Sep 29;45(17):10306-10320. doi: 10.1093/nar/gkx700.


Crystal Structure of Thioesterase SgcE10 Supporting Common Polyene Intermediates in 9- and 10-Membered Enediyne Core Biosynthesis.

Annaval T, Rudolf JD, Chang CY, Lohman JR, Kim Y, Bigelow L, Jedrzejczak R, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

ACS Omega. 2017 Aug 31;2(8):5159-5169. doi: 10.1021/acsomega.7b00933. Epub 2017 Aug 30.


Insights into PG-binding, conformational change, and dimerization of the OmpA C-terminal domains from Salmonella enterica serovar Typhimurium and Borrelia burgdorferi.

Tan K, Deatherage Kaiser BL, Wu R, Cuff M, Fan Y, Bigelow L, Jedrzejczak RP, Adkins JN, Cort JR, Babnigg G, Joachimiak A.

Protein Sci. 2017 Sep;26(9):1738-1748. doi: 10.1002/pro.3209. Epub 2017 Jun 19.


The CDI toxin of Yersinia kristensenii is a novel bacterial member of the RNase A superfamily.

Batot G, Michalska K, Ekberg G, Irimpan EM, Joachimiak G, Jedrzejczak R, Babnigg G, Hayes CS, Joachimiak A, Goulding CW.

Nucleic Acids Res. 2017 May 19;45(9):5013-5025. doi: 10.1093/nar/gkx230.


Evolution of substrate specificity in a retained enzyme driven by gene loss.

Juárez-Vázquez AL, Edirisinghe JN, Verduzco-Castro EA, Michalska K, Wu C, Noda-García L, Babnigg G, Endres M, Medina-Ruíz S, Santoyo-Flores J, Carrillo-Tripp M, Ton-That H, Joachimiak A, Henry CS, Barona-Gómez F.

Elife. 2017 Mar 31;6. pii: e22679. doi: 10.7554/eLife.22679.


A novel signal transduction protein: Combination of solute binding and tandem PAS-like sensor domains in one polypeptide chain.

Wu R, Wilton R, Cuff ME, Endres M, Babnigg G, Edirisinghe JN, Henry CS, Joachimiak A, Schiffer M, Pokkuluri PR.

Protein Sci. 2017 Apr;26(4):857-869. doi: 10.1002/pro.3134. Epub 2017 Mar 6.


Conserved ABC Transport System Regulated by the General Stress Response Pathways of Alpha- and Gammaproteobacteria.

Herrou J, Willett JW, Czyż DM, Babnigg G, Kim Y, Crosson S.

J Bacteriol. 2017 Feb 14;199(5). pii: e00746-16. doi: 10.1128/JB.00746-16. Print 2017 Mar 1.


Crystal structure of SgcJ, an NTF2-like superfamily protein involved in biosynthesis of the nine-membered enediyne antitumor antibiotic C-1027.

Huang T, Chang CY, Lohman JR, Rudolf JD, Kim Y, Chang C, Yang D, Ma M, Yan X, Crnovcic I, Bigelow L, Clancy S, Bingman CA, Yennamalli RM, Babnigg G, Joachimiak A, Phillips GN, Shen B.

J Antibiot (Tokyo). 2016 Oct;69(10):731-740. doi: 10.1038/ja.2016.88. Epub 2016 Jul 13.


Crystal Structures of SgcE6 and SgcC, the Two-Component Monooxygenase That Catalyzes Hydroxylation of a Carrier Protein-Tethered Substrate during the Biosynthesis of the Enediyne Antitumor Antibiotic C-1027 in Streptomyces globisporus.

Chang CY, Lohman JR, Cao H, Tan K, Rudolf JD, Ma M, Xu W, Bingman CA, Yennamalli RM, Bigelow L, Babnigg G, Yan X, Joachimiak A, Phillips GN Jr, Shen B.

Biochemistry. 2016 Sep 13;55(36):5142-54. doi: 10.1021/acs.biochem.6b00713. Epub 2016 Sep 1.


Structure of the ent-Copalyl Diphosphate Synthase PtmT2 from Streptomyces platensis CB00739, a Bacterial Type II Diterpene Synthase.

Rudolf JD, Dong LB, Cao H, Hatzos-Skintges C, Osipiuk J, Endres M, Chang CY, Ma M, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

J Am Chem Soc. 2016 Aug 31;138(34):10905-15. doi: 10.1021/jacs.6b04317. Epub 2016 Aug 18.


Structural dynamics of a methionine γ-lyase for calicheamicin biosynthesis: Rotation of the conserved tyrosine stacking with pyridoxal phosphate.

Cao H, Tan K, Wang F, Bigelow L, Yennamalli RM, Jedrzejczak R, Babnigg G, Bingman CA, Joachimiak A, Kharel MK, Singh S, Thorson JS, Phillips GN Jr.

Struct Dyn. 2016 Apr 29;3(3):034702. doi: 10.1063/1.4948539. eCollection 2016 May.


How Aromatic Compounds Block DNA Binding of HcaR Catabolite Regulator.

Kim Y, Joachimiak G, Bigelow L, Babnigg G, Joachimiak A.

J Biol Chem. 2016 Jun 17;291(25):13243-56. doi: 10.1074/jbc.M115.712067. Epub 2016 Apr 25.


Co-occurrence of analogous enzymes determines evolution of a novel (βα)8-isomerase sub-family after non-conserved mutations in flexible loop.

Verduzco-Castro EA, Michalska K, Endres M, Juárez-Vazquez AL, Noda-García L, Chang C, Henry CS, Babnigg G, Joachimiak A, Barona-Gómez F.

Biochem J. 2016 May 1;473(9):1141-52. doi: 10.1042/BJ20151271. Epub 2016 Feb 29.


WrpA Is an Atypical Flavodoxin Family Protein under Regulatory Control of the Brucella abortus General Stress Response System.

Herrou J, Czyż DM, Willett JW, Kim HS, Chhor G, Babnigg G, Kim Y, Crosson S.

J Bacteriol. 2016 Mar 31;198(8):1281-93. doi: 10.1128/JB.00982-15. Print 2016 Apr.


Gene selection and cloning approaches for co-expression and production of recombinant protein-protein complexes.

Babnigg G, Jedrzejczak R, Nocek B, Stein A, Eschenfeldt W, Stols L, Marshall N, Weger A, Wu R, Donnelly M, Joachimiak A.

J Struct Funct Genomics. 2015 Dec;16(3-4):113-28. doi: 10.1007/s10969-015-9200-y. Epub 2015 Dec 15.


Crystal Structure of the Zorbamycin-Binding Protein ZbmA, the Primary Self-Resistance Element in Streptomyces flavoviridis ATCC21892.

Rudolf JD, Bigelow L, Chang C, Cuff ME, Lohman JR, Chang CY, Ma M, Yang D, Clancy S, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

Biochemistry. 2015 Nov 17;54(45):6842-51. doi: 10.1021/acs.biochem.5b01008. Epub 2015 Nov 5.


Structural and evolutionary relationships of "AT-less" type I polyketide synthase ketosynthases.

Lohman JR, Ma M, Osipiuk J, Nocek B, Kim Y, Chang C, Cuff M, Mack J, Bigelow L, Li H, Endres M, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

Proc Natl Acad Sci U S A. 2015 Oct 13;112(41):12693-8. doi: 10.1073/pnas.1515460112. Epub 2015 Sep 29.


Structural Characterization of CalS8, a TDP-α-D-Glucose Dehydrogenase Involved in Calicheamicin Aminodideoxypentose Biosynthesis.

Singh S, Michalska K, Bigelow L, Endres M, Kharel MK, Babnigg G, Yennamalli RM, Bingman CA, Joachimiak A, Thorson JS, Phillips GN Jr.

J Biol Chem. 2015 Oct 23;290(43):26249-58. doi: 10.1074/jbc.M115.673459. Epub 2015 Aug 3.


Structural characterization of AtmS13, a putative sugar aminotransferase involved in indolocarbazole AT2433 aminopentose biosynthesis.

Singh S, Kim Y, Wang F, Bigelow L, Endres M, Kharel MK, Babnigg G, Bingman CA, Joachimiak A, Thorson JS, Phillips GN Jr.

Proteins. 2015 Aug;83(8):1547-54. doi: 10.1002/prot.24844. Epub 2015 Jul 1.


The structure of a contact-dependent growth-inhibition (CDI) immunity protein from Neisseria meningitidis MC58.

Tan K, Johnson PM, Stols L, Boubion B, Eschenfeldt W, Babnigg G, Hayes CS, Joachimiak A, Goulding CW.

Acta Crystallogr F Struct Biol Commun. 2015 Jun;71(Pt 6):702-9. doi: 10.1107/S2053230X15006585. Epub 2015 May 20.


Induction of osmoadaptive mechanisms and modulation of cellular physiology help Bacillus licheniformis strain SSA 61 adapt to salt stress.

Paul S, Aggarwal C, Thakur JK, Bandeppa GS, Khan MA, Pearson LM, Babnigg G, Giometti CS, Joachimiak A.

Curr Microbiol. 2015 Apr;70(4):610-7. doi: 10.1007/s00284-014-0761-y. Epub 2015 Jan 6.


Structure of a cupin protein Plu4264 from Photorhabdus luminescens subsp. laumondii TTO1 at 1.35 Å resolution.

Weerth RS, Michalska K, Bingman CA, Yennamalli RM, Li H, Jedrzejczak R, Wang F, Babnigg G, Joachimiak A, Thomas MG, Phillips GN Jr.

Proteins. 2015 Feb;83(2):383-8. doi: 10.1002/prot.24705. Epub 2014 Dec 18.


The crystal structure of BlmI as a model for nonribosomal peptide synthetase peptidyl carrier proteins.

Lohman JR, Ma M, Cuff ME, Bigelow L, Bearden J, Babnigg G, Joachimiak A, Phillips GN Jr, Shen B.

Proteins. 2014 Jul;82(7):1210-8.


RsaM: a transcriptional regulator of Burkholderia spp. with novel fold.

Michalska K, Chhor G, Clancy S, Jedrzejczak R, Babnigg G, Winans SC, Joachimiak A.

FEBS J. 2014 Sep;281(18):4293-306. doi: 10.1111/febs.12868. Epub 2014 Jul 4.


Salvage of failed protein targets by reductive alkylation.

Tan K, Kim Y, Hatzos-Skintges C, Chang C, Cuff M, Chhor G, Osipiuk J, Michalska K, Nocek B, An H, Babnigg G, Bigelow L, Joachimiak G, Li H, Mack J, Makowska-Grzyska M, Maltseva N, Mulligan R, Tesar C, Zhou M, Joachimiak A.

Methods Mol Biol. 2014;1140:189-200. doi: 10.1007/978-1-4939-0354-2_15.


Protein production for structural genomics using E. coli expression.

Makowska-Grzyska M, Kim Y, Maltseva N, Li H, Zhou M, Joachimiak G, Babnigg G, Joachimiak A.

Methods Mol Biol. 2014;1140:89-105. doi: 10.1007/978-1-4939-0354-2_7.


Analysis of periplasmic sensor domains from Anaeromyxobacter dehalogenans 2CP-C: structure of one sensor domain from a histidine kinase and another from a chemotaxis protein.

Pokkuluri PR, Dwulit-Smith J, Duke NE, Wilton R, Mack JC, Bearden J, Rakowski E, Babnigg G, Szurmant H, Joachimiak A, Schiffer M.

Microbiologyopen. 2013 Oct;2(5):766-77. doi: 10.1002/mbo3.112. Epub 2013 Jul 30.


New sub-family of lysozyme-like proteins shows no catalytic activity: crystallographic and biochemical study of STM3605 protein from Salmonella Typhimurium.

Michalska K, Brown RN, Li H, Jedrzejczak R, Niemann GS, Heffron F, Cort JR, Adkins JN, Babnigg G, Joachimiak A.

J Struct Funct Genomics. 2013 Mar;14(1):1-10. doi: 10.1007/s10969-013-9151-0. Epub 2013 Apr 10.


GH1-family 6-P-β-glucosidases from human microbiome lactic acid bacteria.

Michalska K, Tan K, Li H, Hatzos-Skintges C, Bearden J, Babnigg G, Joachimiak A.

Acta Crystallogr D Biol Crystallogr. 2013 Mar;69(Pt 3):451-63. doi: 10.1107/S0907444912049608. Epub 2013 Feb 16.


Insight into the sporulation phosphorelay: crystal structure of the sensor domain of Bacillus subtilis histidine kinase, KinD.

Wu R, Gu M, Wilton R, Babnigg G, Kim Y, Pokkuluri PR, Szurmant H, Joachimiak A, Schiffer M.

Protein Sci. 2013 May;22(5):564-76. doi: 10.1002/pro.2237. Epub 2013 Mar 18.


Structural and functional characterization of microcin C resistance peptidase MccF from Bacillus anthracis.

Nocek B, Tikhonov A, Babnigg G, Gu M, Zhou M, Makarova KS, Vondenhoff G, Van Aerschot A, Kwon K, Anderson WF, Severinov K, Joachimiak A.

J Mol Biol. 2012 Jul 20;420(4-5):366-83. doi: 10.1016/j.jmb.2012.04.011. Epub 2012 Apr 16.


Structure of apo- and monometalated forms of NDM-1--a highly potent carbapenem-hydrolyzing metallo-β-lactamase.

Kim Y, Tesar C, Mire J, Jedrzejczak R, Binkowski A, Babnigg G, Sacchettini J, Joachimiak A.

PLoS One. 2011;6(9):e24621. doi: 10.1371/journal.pone.0024621. Epub 2011 Sep 8.


High-throughput protein purification and quality assessment for crystallization.

Kim Y, Babnigg G, Jedrzejczak R, Eschenfeldt WH, Li H, Maltseva N, Hatzos-Skintges C, Gu M, Makowska-Grzyska M, Wu R, An H, Chhor G, Joachimiak A.

Methods. 2011 Sep;55(1):12-28. doi: 10.1016/j.ymeth.2011.07.010. Epub 2011 Aug 31. Review.


The gel electrophoresis markup language (GelML) from the Proteomics Standards Initiative.

Gibson F, Hoogland C, Martinez-Bartolomé S, Medina-Aunon JA, Albar JP, Babnigg G, Wipat A, Hermjakob H, Almeida JS, Stanislaus R, Paton NW, Jones AR.

Proteomics. 2010 Sep;10(17):3073-81. doi: 10.1002/pmic.201000120.


Novel α-glucosidase from human gut microbiome: substrate specificities and their switch.

Tan K, Tesar C, Wilton R, Keigher L, Babnigg G, Joachimiak A.

FASEB J. 2010 Oct;24(10):3939-49. doi: 10.1096/fj.10-156257. Epub 2010 Jun 25.


Predicting protein crystallization propensity from protein sequence.

Babnigg G, Joachimiak A.

J Struct Funct Genomics. 2010 Mar;11(1):71-80. doi: 10.1007/s10969-010-9080-0. Epub 2010 Feb 23.


Extracytoplasmic PAS-like domains are common in signal transduction proteins.

Chang C, Tesar C, Gu M, Babnigg G, Joachimiak A, Pokkuluri PR, Szurmant H, Schiffer M.

J Bacteriol. 2010 Feb;192(4):1156-9. doi: 10.1128/JB.01508-09. Epub 2009 Dec 11.


Global proteomic analysis of the chromate response in Arthrobacter sp. strain FB24.

Henne KL, Turse JE, Nicora CD, Lipton MS, Tollaksen SL, Lindberg C, Babnigg G, Giometti CS, Nakatsu CH, Thompson DK, Konopka AE.

J Proteome Res. 2009 Apr;8(4):1704-16. doi: 10.1021/pr800705f.


Guidelines for reporting the use of gel electrophoresis in proteomics.

Gibson F, Anderson L, Babnigg G, Baker M, Berth M, Binz PA, Borthwick A, Cash P, Day BW, Friedman DB, Garland D, Gutstein HB, Hoogland C, Jones NA, Khan A, Klose J, Lamond AI, Lemkin PF, Lilley KS, Minden J, Morris NJ, Paton NW, Pisano MR, Prime JE, Rabilloud T, Stead DA, Taylor CF, Voshol H, Wipat A, Jones AR.

Nat Biotechnol. 2008 Aug;26(8):863-4. doi: 10.1038/nbt0808-863. No abstract available.


Steady state protein levels in Geobacter metallireducens grown with iron (III) citrate or nitrate as terminal electron acceptor.

Ahrendt AJ, Tollaksen SL, Lindberg C, Zhu W, Yates JR 3rd, Nevin KP, Babnigg G, Lovley DR, Giometti CS.

Proteomics. 2007 Nov;7(22):4148-57.


A database of unique protein sequence identifiers for proteome studies.

Babnigg G, Giometti CS.

Proteomics. 2006 Aug;6(16):4514-22.


Primary structure-based function characterization of BRCT domain replicates in BRCA1.

Chen Y, Borowicz S, Fackenthal J, Collart FR, Myatt E, Moy S, Babnigg G, Wilton R, Boernke WE, Schiffer M, Stevens FJ, Olopade OI.

Biochem Biophys Res Commun. 2006 Jun 23;345(1):188-96. Epub 2006 Apr 21.


Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations.

Kolker E, Picone AF, Galperin MY, Romine MF, Higdon R, Makarova KS, Kolker N, Anderson GA, Qiu X, Auberry KJ, Babnigg G, Beliaev AS, Edlefsen P, Elias DA, Gorby YA, Holzman T, Klappenbach JA, Konstantinidis KT, Land ML, Lipton MS, McCue LA, Monroe M, Pasa-Tolic L, Pinchuk G, Purvine S, Serres MH, Tsapin S, Zakrajsek BA, Zhu W, Zhou J, Larimer FW, Lawrence CE, Riley M, Collart FR, Yates JR 3rd, Smith RD, Giometti CS, Nealson KH, Fredrickson JK, Tiedje JM.

Proc Natl Acad Sci U S A. 2005 Feb 8;102(6):2099-104. Epub 2005 Jan 31.

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