• 16268 Citations
  • 67 h-Index
1980 …2020

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2020

A metabolic pathway for bile acid dehydroxylation by the gut microbiome

Funabashi, M., Grove, T. L., Wang, M., Varma, Y., McFadden, M. E., Brown, L. C., Guo, C., Higginbottom, S., Almo, S. C. & Fischbach, M. A., Jun 25 2020, In : Nature. 582, 7813, p. 566-570 5 p.

Research output: Contribution to journalArticle

1 Scopus citations

Cue-101, a novel E7-pHLA-IL2-Fc fusion protein, enhances tumor antigen-specific T-cell activation for the treatment of HPV16-driven malignancies

Quayle, S. N., Girgis, N., Thapa, D. R., Merazga, Z., Kemp, M. M., Histed, A., Zhao, F., Moreta, M., Ruthardt, P., Hulot, S., Nelson, A., Kraemer, L. D., Beal, D. R., Witt, L., Ryabin, J., Soriano, J., Haydock, M., Spaulding, E., Ross, J. F., Kiener, P. A. & 7 others, Almo, S., Chaparro, R., Seidel, R., Suri, A., Cemerski, S., Pienta, K. J. & Simcox, M. E., Apr 15 2020, In : Clinical Cancer Research. 26, 8, p. 1953-1964 12 p.

Research output: Contribution to journalArticle

Open Access

HVEM signaling promotes protective antibody-dependent cellular cytotoxicity (ADCC) vaccine responses to herpes simplex viruses

Aschner, C. B., Loh, L. N., Galen, B., Delwel, I., Jangra, R. K., Garforth, S. J., Chandran, K., Almo, S., Jacobs, W. R., Ware, C. F. & Herold, B. C., Aug 2020, In : Science immunology. 5, 50, eaax2454.

Research output: Contribution to journalArticle

In vivo detection of antigen-specific CD8+ T cells by immuno-positron emission tomography

Woodham, A. W., Zeigler, S. H., Zeyang, E. L., Kolifrath, S. C., Cheloha, R. W., Rashidian, M., Chaparro, R. J., Seidel, R. D., Garforth, S. J., Dearling, J. L., Mesyngier, M., Duddempudi, P. K., Packard, A. B., Almo, S. C. & Ploegh, H. L., Oct 1 2020, In : Nature Methods. 17, 10, p. 1025-1032 8 p.

Research output: Contribution to journalArticle

Mechanistic dissection of the PD-L1:B7-1 co-inhibitory immune complex

Garrett-Thomson, S. C., Massimi, A., Fedorov, E. V., Bonanno, J. B., Scandiuzzi, L., Hillerich, B., Seidel, R. D., Love, J. D., Garforth, S. J., Guha, C. & Almo, S. C., Jun 2020, In : PloS one. 15, 6, e0233578.

Research output: Contribution to journalArticle

Open Access

Narrow-Spectrum Antibiotic Targeting of the Radical SAM Enzyme MqnE in Menaquinone Biosynthesis

Carl, A. G., Harris, L. D., Feng, M., Nordstrøm, L. U., Gerfen, G. J., Evans, G. B., Silakov, A., Almo, S. C. & Grove, T. L., Jul 14 2020, In : Biochemistry. 59, 27, p. 2562-2575 14 p.

Research output: Contribution to journalArticle

Redesigning HVEM Interface for Selective Binding to LIGHT, BTLA, and CD160

Shrestha, R., Garrett-Thomson, S. C., Liu, W., Almo, S. C. & Fiser, A., 2020, (Accepted/In press) In : Structure.

Research output: Contribution to journalArticle

Open Access

Structure of a single-chain H2A/H2B dimer

Warren, C., Bonanno, J. B., Almo, S. C. & Shechter, D., May 1 2020, In : Acta Crystallographica Section F: Structural Biology Communications. 76, p. 194-198 5 p.

Research output: Contribution to journalArticle

Structures of FOX-4 cephamycinase in complex with transition-state analog inhibitors

Lefurgy, S. T., Caselli, E., Taracila, M. A., Malashkevich, V. N., Biju, B., Papp-Wallace, K. M., Bonanno, J. B., Prati, F., Almo, S. C. & Bonomo, R. A., May 2020, In : Biomolecules. 10, 5, 671.

Research output: Contribution to journalArticle

Open Access
2019

An essential bifunctional enzyme in Mycobacterium tuberculosis for itaconate dissimilation and leucine catabolism

Wang, H., Fedorov, A. A., Fedorov, E. V., Hunt, D. M., Rodgers, A., Douglas, H. L., Garza-Garcia, A., Bonanno, J. B., Almo, S. C. & de Carvalho, L. P. S., Aug 6 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 32, p. 15907-15913 7 p.

Research output: Contribution to journalArticle

Open Access
4 Scopus citations

Computational Redesign of PD-1 Interface for PD-L1 Ligand Selectivity

Shrestha, R., Garrett, S. C., Almo, S. C. & Fiser, A., May 7 2019, In : Structure. 27, 5, p. 829-836.e3

Research output: Contribution to journalArticle

3 Scopus citations

Discovery of novel bacterial queuine salvage enzymes and pathways in human pathogens

Yuan, Y., Zallot, R., Grove, T. L., Payan, D. J., Martin-Verstraete, I., Šepić, S., Balamkundu, S., Neelakandan, R., Gadi, V. K., Liu, C. F., Swairjo, M. A., Dedon, P. C., Almo, S. C., Gerlt, J. A. & de Crécy-Lagard, V., Sep 17 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 38, p. 19126-19135 10 p.

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

Genetically modified hematopoietic stem/progenitor cells that produce IL-10–secreting regulatory T cells

Ng, S. L., Leno-Duran, E., Samanta, D., Almo, S. C. & Strominger, J. L., Feb 12 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 7, p. 2634-2639 6 p.

Research output: Contribution to journalArticle

1 Scopus citations

GPRC5D is a target for the immunotherapy of multiple myeloma with rationally designed CAR T cells

Smith, E. L., Harrington, K., Staehr, M., Masakayan, R., Jones, J., Long, T. J., Ng, K. Y., Ghoddusi, M., Purdon, T. J., Wang, X., Do, T., Pham, M. T., Brown, J. M., De Larrea, C. F., Olson, E., Peguero, E., Wang, P., Liu, H., Xu, Y., Garrett-Thomson, S. C. & 6 others, Almo, S. C., Wendel, H. G., Riviere, I., Liu, C., Sather, B. & Brentjens, R. J., Jan 1 2019, In : Science translational medicine. 11, 485, eaau7746.

Research output: Contribution to journalArticle

37 Scopus citations

Novel metabolic pathways and regulons for hexuronate utilization in Proteobacteria

Bouvier, J. T., Sernova, N. V., Ghasempur, S., Rodionova, I. A., Vetting, M. W., Al-Obaidi, N. F., Almo, S. C., Gerlt, J. A. & Rodionov, D. A., Jan 1 2019, In : Journal of Bacteriology. 201, 2, e00431-18.

Research output: Contribution to journalArticle

6 Scopus citations

Structural Basis of CD160:HVEM Recognition

Liu, W., Garrett, S. C., Fedorov, E. V., Ramagopal, U. A., Garforth, S. J., Bonanno, J. B. & Almo, S. C., Aug 6 2019, In : Structure. 27, 8, p. 1286-1295.e4

Research output: Contribution to journalArticle

Open Access
1 Scopus citations

The active site of the Mycobacterium tuberculosis branched-chain amino acid biosynthesis enzyme dihydroxyacid dehydratase contains a 2Fe-2S cluster

Bashiri, G., Grove, T. L., Hegde, S. S., Lagautriere, T., Gerfen, G. J., Almo, S. C., Squire, C. J., Blanchard, J. S. & Baker, E. N., Aug 30 2019, In : Journal of Biological Chemistry. 294, 35, p. 13158-13170 13 p.

Research output: Contribution to journalArticle

1 Scopus citations
2018

Advantages of Molecular Weight Identification during Native MS Screening

Khan, A., Bresnick, A., Cahill, S., Girvin, M. E., Almo, S. & Quinn, R., May 9 2018, (Accepted/In press) In : Planta Medica.

Research output: Contribution to journalArticle

14 Scopus citations

A naturally occurring antiviral ribonucleotide encoded by the human genome

Gizzi, A. S., Grove, T. L., Arnold, J. J., Jose, J., Jangra, R. K., Garforth, S. J., Du, Q., Cahill, S. M., Dulyaninova, N. G., Love, J. D., Chandran, K., Bresnick, A. R., Cameron, C. E. & Almo, S. C., Jun 28 2018, In : Nature. 558, 7711, p. 610-614 5 p.

Research output: Contribution to journalArticle

52 Scopus citations

Anti-CTLA-4 therapy requires an Fc domain for efficacy

Ingram, J. R., Blomberg, O. S., Rashidian, M., Ali, L., Garforth, S., Fedorov, E., Fedorov, A. A., Bonanno, J. B., Le Gall, C., Crowley, S., Espinosa, C., Biary, T., Keliher, E. J., Weissleder, R., Almo, S. C., Dougan, S. K., Ploegh, H. L. & Dougan, M., 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 15, p. 3912-3917 6 p.

Research output: Contribution to journalArticle

39 Scopus citations

Comparison of Alicyclobacillus acidocaldarius o-Succinylbenzoate Synthase to Its Promiscuous N-Succinylamino Acid Racemase/ o-Succinylbenzoate Synthase Relatives

Odokonyero, D., McMillan, A. W., Ramagopal, U. A., Toro, R., Truong, D. P., Zhu, M., Lopez, M. S., Somiari, B., Herman, M., Aziz, A., Bonanno, J. B., Hull, K. G., Burley, S. K., Romo, D., Almo, S. C. & Glasner, M. E., Jul 3 2018, In : Biochemistry. 57, 26, p. 3676-3689 14 p.

Research output: Contribution to journalArticle

2 Scopus citations

Development and Evaluation of an Optimal Human Single-Chain Variable Fragment-Derived BCMA-Targeted CAR T Cell Vector

Smith, E. L., Staehr, M., Masakayan, R., Tatake, I. J., Purdon, T. J., Wang, X., Wang, P., Liu, H., Xu, Y., Garrett-Thomson, S. C., Almo, S. C., Riviere, I., Liu, C. & Brentjens, R. J., Jun 6 2018, In : Molecular Therapy. 26, 6, p. 1447-1456 10 p.

Research output: Contribution to journalArticle

34 Scopus citations

Functional assignment of multiple catabolic pathways for d-apiose article

Carter, M. S., Zhang, X., Huang, H., Bouvier, J. T., Francisco, B. S., Vetting, M. W., Al-Obaidi, N., Bonanno, J. B., Ghosh, A., Zallot, R. G., Andersen, H. M., Almo, S. C. & Gerlt, J. A., Jul 1 2018, In : Nature Chemical Biology. 14, 7, p. 696-705 10 p.

Research output: Contribution to journalArticle

8 Scopus citations

Identification of a novel tRNA wobble uridine modifying activity in the biosynthesis of 5-methoxyuridine

Ryu, H., Grove, T. L., Almo, S. C. & Kim, J., 2018, In : Nucleic acids research. 46, 17, p. 9160-9169 10 p.

Research output: Contribution to journalArticle

5 Scopus citations

Identification of mycobacterial ribosomal proteins as targets for CD4 + T cells that enhance protective immunity in tuberculosis

Kennedy, S. C., Johnson, A. J., Bharrhan, S., Arlehamn, C. S. L., Xu, J., Garforth, S. J., Chan, J., Jacobs, W. R., Sette, A., Almo, S. C. & Porcelli, S. A., Sep 1 2018, In : Infection and immunity. 86, 9, e00009-18.

Research output: Contribution to journalArticle

2 Scopus citations

Mechanism and Structure of γ-Resorcylate Decarboxylase

Sheng, X., Patskovsky, Y., Vladimirova, A., Bonanno, J. B., Almo, S. C., Himo, F. & Raushel, F. M., Jun 5 2018, In : Biochemistry. 57, 22, p. 3167-3175 9 p.

Research output: Contribution to journalArticle

9 Scopus citations

Prediction of enzymatic pathways by integrative pathway mapping

Calhoun, S., Korczynska, M., Wichelecki, D. J., San Francisco, B., Zhao, S., Rodionov, D. A., Vetting, M. W., Al Obaidi, N. F., Lin, H., O’Meara, M. J., Scott, D. A., Morris, J. H., Russel, D., Almo, S. C., Osterman, A. L., Gerlt, J. A., Jacobson, M. P., Shoichet, B. K. & Sali, A., Jan 29 2018, In : eLife. 7, e31097.

Research output: Contribution to journalArticle

12 Scopus citations

Structures of the L27 Domain of Disc Large Homologue 1 Protein Illustrate a Self-Assembly Module

Ghosh, A., Ramagopal, U. A., Bonanno, J. B., Brenowitz, M. & Almo, S. C., Feb 27 2018, In : Biochemistry. 57, 8, p. 1293-1305 13 p.

Research output: Contribution to journalArticle

3 Scopus citations

Substrate Profile of the Phosphotriesterase Homology Protein from Escherichia coli

Nemmara, V. V., Xiang, D. F., Fedorov, A. A., Fedorov, E. V., Bonanno, J. B., Almo, S. C. & Raushel, F. M., Oct 30 2018, In : Biochemistry. 57, 43, p. 6219-6227 9 p.

Research output: Contribution to journalArticle

The biosynthesis of methanobactin

Kenney, G. E., Dassama, L. M. K., Pandelia, M. E., Gizzi, A. S., Martinie, R. J., Gao, P., DeHart, C. J., Schachner, L. F., Skinner, O. S., Ro, S. Y., Zhu, X., Sadek, M., Thomas, P. M., Almo, S. C., Bollinger, J. M., Krebs, C., Kelleher, N. L. & Rosenzweig, A. C., Mar 23 2018, In : Science. 359, 6382, p. 1411-1416 6 p.

Research output: Contribution to journalArticle

22 Scopus citations

X-ray and EPR Characterization of the Auxiliary Fe-S Clusters in the Radical SAM Enzyme PqqE

Barr, I., Stich, T. A., Gizzi, A. S., Grove, T. L., Bonanno, J. B., Latham, J. A., Chung, T., Wilmot, C. M., Britt, R. D., Almo, S. C. & Klinman, J. P., Feb 27 2018, In : Biochemistry. 57, 8, p. 1306-1315 10 p.

Research output: Contribution to journalArticle

9 Scopus citations
2017

A novel bifunctional transcriptional regulator of riboflavin metabolism in Archaea

Rodionova, I. A., Vetting, M. W., Li, X., Almo, S. C., Osterman, A. L. & Rodionov, D. A., Apr 20 2017, In : Nucleic acids research. 45, 7, p. 3785-3799 15 p.

Research output: Contribution to journalArticle

8 Scopus citations

Can the propensity of protein crystallization be increased by using systematic screening with metals?

Hegde, R. P., Pavithra, G. C., Dey, D., Almo, S. C., Ramakumar, S. & Ramagopal, U. A., 2017, (Accepted/In press) In : Protein Science.

Research output: Contribution to journalArticle

1 Scopus citations

Discovery of GBT440, an Orally Bioavailable R-State Stabilizer of Sickle Cell Hemoglobin

Metcalf, B., Chuang, C., Dufu, K., Patel, M. P., Silva-Garcia, A., Johnson, C., Lu, Q., Partridge, J. R., Patskovska, L., Patskovsky, Y., Almo, S. C., Jacobson, M. P., Hua, L., Xu, Q., Gwaltney, S. L., Yee, C., Harris, J., Morgan, B. P., James, J., Xu, D. & 4 others, Hutchaleelaha, A., Paulvannan, K., Oksenberg, D. & Li, Z., Mar 9 2017, In : ACS Medicinal Chemistry Letters. 8, 3, p. 321-326 6 p.

Research output: Contribution to journalArticle

39 Scopus citations
12 Scopus citations

Molecular Architecture of the Major Membrane Ring Component of the Nuclear Pore Complex

Upla, P., Kim, S. J., Sampathkumar, P., Dutta, K., Cahill, S. M., Chemmama, I. E., Williams, R., Bonanno, J. B., Rice, W. J., Stokes, D. L., Cowburn, D., Almo, S. C., Sali, A., Rout, M. P. & Fernandez-Martinez, J., Mar 7 2017, In : Structure. 25, 3, p. 434-445 12 p.

Research output: Contribution to journalArticle

17 Scopus citations

Mycobacterium tuberculosis universal stress protein Rv2623 interacts with the putative ATP binding cassette (APC) transporter Rv1747 to regulate mycobacterial growth

Glass, L. N., Swapna, G., Chavadi, S. S., Tufariello, J. A. M., Mi, K., Drumm, J. E., Lam, T. K. T., Zhu, G., Zhan, C., Vilchéze, C., Arcos, J., Chen, Y., Bi, L., Mehta, S., Porcelli, S. A., Almo, S. C., Yeh, S. R., Jacobs, W. R., Torrelles, J. B. & Chan, J., Jul 2017, In : PLoS pathogens. 13, 7, e1006515.

Research output: Contribution to journalArticle

16 Scopus citations

PD-L1 is an activation-independent marker of brown adipocytes

Ingram, J. R., Dougan, M., Rashidian, M., Knoll, M., Keliher, E. J., Garrett, S., Garforth, S., Blomberg, O. S., Espinosa, C., Bhan, A., Almo, S. C., Weissleder, R., Lodish, H., Dougan, S. K. & Ploegh, H. L., Dec 1 2017, In : Nature communications. 8, 1, 647.

Research output: Contribution to journalArticle

30 Scopus citations

Stilbene epoxidation and detoxification in a Photorhabdus luminescens-nematode symbiosis

Park, H. B., Sampathkumar, P., Perez, C. E., Lee, J. H., Tran, J., Bonanno, J. B., Hallem, E. A., Almo, S. C. & Crawford, J. M., Apr 21 2017, In : Journal of Biological Chemistry. 292, 16, p. 6680-6694 15 p.

Research output: Contribution to journalArticle

8 Scopus citations

Structural, mutational and biophysical studies reveal a canonical mode of molecular recognition between immune receptor TIGIT and nectin-2

Samanta, D., Guo, H., Rubinstein, R., Ramagopal, U. A. & Almo, S. C., Jan 1 2017, In : Molecular Immunology. 81, p. 151-159 9 p.

Research output: Contribution to journalArticle

10 Scopus citations

Structural basis for cancer immunotherapy by the first-in-class checkpoint inhibitor ipilimumab

Ramagopal, U. A., Liu, W., Garrett-Thomson, S. C., Bonanno, J. B., Yan, Q., Srinivasan, M., Wong, S. C., Bell, A., Mankikar, S., Rangan, V. S., Deshpande, S., Korman, A. J. & Almo, S. C., May 23 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 21, p. E4223-E4232

Research output: Contribution to journalArticle

45 Scopus citations

Structural Insights into Thioether Bond Formation in the Biosynthesis of Sactipeptides

Grove, T. L., Himes, P. M., Hwang, S., Yumerefendi, H., Bonanno, J. B., Kuhlman, B., Almo, S. C. & Bowers, A. A., Aug 30 2017, In : Journal of the American Chemical Society. 139, 34, p. 11734-11744 11 p.

Research output: Contribution to journalArticle

42 Scopus citations

Structure-guided development of a high-affinity human Programmed Cell Death-1: Implications for tumor immunotherapy

Lázár-Molnár, E., Scandiuzzi, L., Basu, I., Quinn, T., Sylvestre, E., Palmieri, E., Ramagopal, U. A., Nathenson, S. G., Guha, C. & Almo, S. C., Mar 1 2017, In : EBioMedicine. 17, p. 30-44 15 p.

Research output: Contribution to journalArticle

23 Scopus citations

The hidden treasure in your data: Phasing with unexpected weak anomalous scatterers from routine data sets

Hegde, R. P., Fedorov, A. A., Sauder, J. M., Burley, S. K., Almo, S. C. & Ramagopal, U. A., Apr 1 2017, In : Acta Crystallographica Section:F Structural Biology Communications. 73, 4, p. 184-195 12 p.

Research output: Contribution to journalArticle

3 Scopus citations

Tumor-expressed immune checkpoint B7x promotes cancer progression and antigen-specific CD8 T cell exhaustion and suppressive innate immune cells

Ohaegbulam, K. C., Liu, W., Jeon, H., Almo, S. C. & Zang, X., 2017, In : Oncotarget. 8, 47, p. 82740-82753 14 p.

Research output: Contribution to journalArticle

7 Scopus citations
2016

Analysis of the structure and function of FOX-4 cephamycinase

Lefurgy, S. T., Malashkevich, V. N., Aguilan, J. T., Nieves, E., Mundorff, E. C., Biju, B., Noel, M. A., Toro, R., Baiwir, D., Papp-Wallace, K. M., Almo, S. C., Frere, J. M., Bou, G. & Bonomo, R. A., Feb 2016, In : Antimicrobial agents and chemotherapy. 60, 2, p. 717-728 12 p.

Research output: Contribution to journalArticle

9 Scopus citations

An Autoinhibited Dimeric Form of BAX Regulates the BAX Activation Pathway

Garner, T. P., Reyna, D. E., Priyadarshi, A., Chen, H. C., Li, S., Wu, Y., Ganesan, Y. T., Malashkevich, V. N., Almo, S. S., Cheng, E. H. & Gavathiotis, E., Aug 4 2016, In : Molecular Cell. 63, 3, p. 485-497 13 p.

Research output: Contribution to journalArticle

24 Scopus citations

A Small Protein Associated with Fungal Energy Metabolism Affects the Virulence of Cryptococcus neoformans in Mammals

McClelland, E. E., Ramagopal, U. A., Rivera, J., Cox, J., Nakouzi, A., Prabu, M. M., Almo, S. C. & Casadevall, A., Sep 2016, In : PLoS pathogens. 12, 9, e1005849.

Research output: Contribution to journalArticle

8 Scopus citations

Assignment of function to a domain of unknown function: DUF1537 is a new kinase family in catabolic pathways for acid sugars

Zhang, X., Carter, M. S., Vetting, M. W., Francisco, B. S., Zhao, S., Al-Obaidi, N. F., Solbiati, J. O., Thiaville, J. J., Crécy-Lagard, V. D., Jacobson, M. P., Almo, S. C. & Gerlt, J. A., Jul 19 2016, In : Proceedings of the National Academy of Sciences of the United States of America. 113, 29, p. E4161-E4169

Research output: Contribution to journalArticle

26 Scopus citations