| Year |
Citation |
Score |
| 2024 |
He S, Taher NM, Simard AR, Hvorecny KL, Ragusa MJ, Bahl CD, Hickman AB, Dyda F, Madden DR. Molecular basis for the transcriptional regulation of an epoxide-based virulence circuit in Pseudomonas aeruginosa. Nucleic Acids Research. 52: 12727-12747. PMID 39413156 DOI: 10.1093/nar/gkae889 |
0.595 |
|
| 2024 |
Colom MS, Vučinić J, Adolf-Bryfogle J, Bowman JW, Verel S, Moczygemba I, Schiex T, Simoncini D, Bahl CD. Complete combinatorial mutational enumeration of a protein functional site enables sequence-landscape mapping and identifies highly-mutated variants that retain activity. Protein Science : a Publication of the Protein Society. 33: e5109. PMID 38989563 DOI: 10.1002/pro.5109 |
0.783 |
|
| 2024 |
Adolf-Bryfogle J, Labonte JW, Kraft JC, Shapovalov M, Raemisch S, Lütteke T, DiMaio F, Bahl CD, Pallesen J, King NP, Gray JJ, Kulp DW, Schief WR. Growing Glycans in Rosetta: Accurate de novo glycan modeling, density fitting, and rational sequon design. Plos Computational Biology. 20: e1011895. PMID 38913746 DOI: 10.1371/journal.pcbi.1011895 |
0.706 |
|
| 2024 |
Fram B, Su Y, Truebridge I, Riesselman AJ, Ingraham JB, Passera A, Napier E, Thadani NN, Lim S, Roberts K, Kaur G, Stiffler MA, Marks DS, Bahl CD, Khan AR, et al. Simultaneous enhancement of multiple functional properties using evolution-informed protein design. Nature Communications. 15: 5141. PMID 38902262 DOI: 10.1038/s41467-024-49119-x |
0.784 |
|
| 2024 |
He S, Taher NM, Hvorecny KL, Ragusa MJ, Bahl CD, Hickman AB, Dyda F, Madden DR. Molecular basis for the transcriptional regulation of an epoxide-based virulence circuit in . Biorxiv : the Preprint Server For Biology. PMID 38293063 DOI: 10.1101/2024.01.16.572601 |
0.595 |
|
| 2023 |
Fram B, Truebridge I, Su Y, Riesselman AJ, Ingraham JB, Passera A, Napier E, Thadani NN, Lim S, Roberts K, Kaur G, Stiffler M, Marks DS, Bahl CD, Khan AR, et al. Simultaneous enhancement of multiple functional properties using evolution-informed protein design. Biorxiv : the Preprint Server For Biology. PMID 37214973 DOI: 10.1101/2023.05.09.539914 |
0.789 |
|
| 2022 |
Colom MS, Vucinic J, Adolf-Bryfogle J, Bowman JW, Verel S, Moczygemba I, Schiex T, Simoncini D, Bahl CD. Deep Evolutionary Forecasting identifies highly-mutated SARS-CoV-2 variants via functional sequence-landscape enumeration. Research Square. PMID 36482980 DOI: 10.21203/rs.3.rs-2248327/v1 |
0.784 |
|
| 2022 |
Garrido JL, Medina MA, Bravo F, McGee S, Fuentes-Villalobos F, Calvo M, Pinos Y, Bowman JW, Bahl CD, Barria MI, Brachman RA, Alvarez RA. IgG targeting distinct seasonal coronavirus- conserved SARS-CoV-2 spike subdomains correlates with differential COVID-19 disease outcomes. Cell Reports. 110904. PMID 35617962 DOI: 10.1016/j.celrep.2022.110904 |
0.577 |
|
| 2021 |
Koehler Leman J, Lyskov S, Lewis SM, Adolf-Bryfogle J, Alford RF, Barlow K, Ben-Aharon Z, Farrell D, Fell J, Hansen WA, Harmalkar A, Jeliazkov J, Kuenze G, Krys JD, Ljubetič A, ... ... Bahl CD, et al. Ensuring scientific reproducibility in bio-macromolecular modeling via extensive, automated benchmarks. Nature Communications. 12: 6947. PMID 34845212 DOI: 10.1038/s41467-021-27222-7 |
0.662 |
|
| 2021 |
Taher NM, Hvorecny KL, Burke CM, Gilman MSA, Heussler GE, Adolf-Bryfogle J, Bahl CD, O'Toole GA, Madden DR. Biochemical and structural characterization of two cif-like epoxide hydrolases from . Current Research in Structural Biology. 3: 72-84. PMID 34235487 DOI: 10.1016/j.crstbi.2021.02.002 |
0.778 |
|
| 2021 |
Kennedy AL, Myers KC, Bowman J, Gibson CJ, Camarda ND, Furutani E, Muscato GM, Klein RH, Ballotti K, Liu S, Harris CE, Galvin A, Malsch M, Dale D, Gansner JM, ... ... Bahl C, et al. Distinct genetic pathways define pre-malignant versus compensatory clonal hematopoiesis in Shwachman-Diamond syndrome. Nature Communications. 12: 1334. PMID 33637765 DOI: 10.1038/s41467-021-21588-4 |
0.587 |
|
| 2020 |
Adolf-Bryfogle J, Teets FD, Bahl CD. Toward complete rational control over protein structure and function through computational design. Current Opinion in Structural Biology. 66: 170-177. PMID 33276237 DOI: 10.1016/j.sbi.2020.10.015 |
0.774 |
|
| 2020 |
Gao M, Mackley IGP, Mesbahi-Vasey S, Bamonte HA, Struyvenberg SA, Landolt L, Pederson NJ, Williams LI, Bahl CD, Brooks L, Amacher JF. Structural Characterization and Computational Analysis of PDZ domains in Monosiga brevicollis. Protein Science : a Publication of the Protein Society. PMID 32914530 DOI: 10.1002/Pro.3947 |
0.747 |
|
| 2019 |
Ford AS, Weitzner BD, Bahl CD. Integration of the Rosetta Suite with the Python Software Stack via reproducible packaging and core programming interfaces for distributed simulation. Protein Science : a Publication of the Protein Society. PMID 31495995 DOI: 10.1002/Pro.3721 |
0.377 |
|
| 2018 |
Buchko GW, Pulavarti SVSRK, Ovchinnikov V, Shaw EA, Rettie SA, Myler PJ, Karplus M, Szyperski T, Baker D, Bahl CD. Cytosolic expression, solution structures, and molecular dynamics simulation of genetically encodable disulfide-rich de novo designed peptides. Protein Science : a Publication of the Protein Society. PMID 30152054 DOI: 10.1002/Pro.3453 |
0.46 |
|
| 2018 |
Lau YK, Baytshtok V, Howard TA, Fiala BM, Morgan JM, Carter LP, Baker D, Lima CD, Bahl CD. Discovery and engineering of enhanced SUMO protease enzymes. The Journal of Biological Chemistry. PMID 29976752 DOI: 10.1074/Jbc.Ra118.004146 |
0.497 |
|
| 2018 |
Correnti CE, Gewe MM, Mehlin C, Bandaranayake AD, Johnsen WA, Rupert PB, Brusniak MY, Clarke M, Burke SE, De Van Der Schueren W, Pilat K, Turnbaugh SM, May D, Watson A, Chan MK, ... Bahl CD, et al. Screening, large-scale production and structure-based classification of cystine-dense peptides. Nature Structural & Molecular Biology. PMID 29483648 DOI: 10.1038/S41594-018-0033-9 |
0.331 |
|
| 2018 |
Buchko G, Bahl C, Baker D. Chemical shifts for the de novo mini protein gHH_44 in the reduced state. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr27420 |
0.394 |
|
| 2018 |
Pulavarti SVSRK, Shaw E, Bahl C, Garry B, Baker D, Szyperski T. Backbone 1H, 13C, and 15N Chemical Shift Assignments for gHEEE_02 in presence of 10 mM TCEP Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr27269 |
0.313 |
|
| 2017 |
Hvorecny KL, Dolben E, Moreau-Marquis S, Hampton TH, Shabaneh TB, Flitter BA, Bahl CD, Bomberger JM, Levy BD, Stanton BA, Hogan DA, Madden DR. An epoxide hydrolase secreted by Pseudomonas aeruginosa decreases mucociliary transport and hinders bacterial clearance from the lung. American Journal of Physiology. Lung Cellular and Molecular Physiology. ajplung.00383.2017. PMID 28982736 DOI: 10.1152/Ajplung.00383.2017 |
0.597 |
|
| 2017 |
Chevalier A, Silva DA, Rocklin GJ, Hicks DR, Vergara R, Murapa P, Bernard SM, Zhang L, Lam KH, Yao G, Bahl CD, Miyashita SI, Goreshnik I, Fuller JT, Koday MT, et al. Massively parallel de novo protein design for targeted therapeutics. Nature. PMID 28953867 DOI: 10.1038/Nature23912 |
0.781 |
|
| 2017 |
Hvorecny KL, Bahl CD, Kitamura S, Lee KS, Hammock BD, Morisseau C, Madden DR. Active-Site Flexibility and Substrate Specificity in a Bacterial Virulence Factor: Crystallographic Snapshots of an Epoxide Hydrolase. Structure (London, England : 1993). PMID 28392259 DOI: 10.1016/J.Str.2017.03.002 |
0.641 |
|
| 2017 |
Bahl CD, St Laurent JD, Karthikeyan RS, Priya JL, Prajna L, Zegans ME, Madden DR. The cif Virulence Factor Gene Is Present in Isolates From Patients With Pseudomonas aeruginosa Keratitis. Cornea. PMID 28079684 DOI: 10.1097/Ico.0000000000001132 |
0.569 |
|
| 2016 |
Flitter BA, Hvorecny KL, Ono E, Eddens T, Yang J, Kwak DH, Bahl CD, Hampton TH, Morisseau C, Hammock BD, Liu X, Lee JS, Kolls JK, Levy BD, Madden DR, et al. Pseudomonas aeruginosa sabotages the generation of host proresolving lipid mediators. Proceedings of the National Academy of Sciences of the United States of America. PMID 27980032 DOI: 10.1073/Pnas.1610242114 |
0.6 |
|
| 2016 |
Bhardwaj G, Mulligan VK, Bahl CD, Gilmore JM, Harvey PJ, Cheneval O, Buchko GW, Pulavarti SV, Kaas Q, Eletsky A, Huang PS, Johnsen WA, Greisen PJ, Rocklin GJ, Song Y, et al. Accurate de novo design of hyperstable constrained peptides. Nature. PMID 27626386 DOI: 10.1038/Nature19791 |
0.761 |
|
| 2016 |
Rödström KE, Regenthal P, Bahl C, Ford A, Baker D, Lindkvist-Petersson K. Two common structural motifs for TCR recognition by staphylococcal enterotoxins. Scientific Reports. 6: 25796. PMID 27180909 DOI: 10.1038/Srep25796 |
0.428 |
|
| 2016 |
Bahl CD, Hvorecny KL, Morisseau C, Gerber SA, Madden DR. Visualizing the Mechanism of Epoxide Hydrolysis by the Bacterial Virulence Enzyme Cif. Biochemistry. 55: 788-97. PMID 26752215 DOI: 10.1021/Acs.Biochem.5B01229 |
0.625 |
|
| 2016 |
Szyperski T, Pulavarti S, Shaw E, Bahl C, Garry B, Baker D. Solution structure of the de novo mini protein gHEEE_02 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr30312 |
0.414 |
|
| 2015 |
Bahl CD, Hvorecny KL, Bomberger JM, Stanton BA, Hammock BD, Morisseau C, Madden DR. Inhibiting an epoxide hydrolase virulence factor from Pseudomonas aeruginosa protects CFTR. Angewandte Chemie (International Ed. in English). PMID 26136396 DOI: 10.1002/Anie.201503983 |
0.63 |
|
| 2014 |
Bahl CD, Hvorecny KL, Bridges AA, Ballok AE, Bomberger JM, Cady KC, O'Toole GA, Madden DR. Signature motifs identify an Acinetobacter Cif virulence factor with epoxide hydrolase activity. The Journal of Biological Chemistry. 289: 7460-9. PMID 24474692 DOI: 10.1074/Jbc.M113.518092 |
0.654 |
|
| 2013 |
Amacher JF, Cushing PR, Bahl CD, Beck T, Madden DR. Stereochemical determinants of C-terminal specificity in PDZ peptide-binding domains: a novel contribution of the carboxylate-binding loop. The Journal of Biological Chemistry. 288: 5114-26. PMID 23243314 DOI: 10.1074/Jbc.M112.401588 |
0.748 |
|
| 2012 |
Ballok AE, Bahl CD, Dolben EL, Lindsay AK, St Laurent JD, Hogan DA, Madden DR, O'Toole GA. Epoxide-mediated CifR repression of cif gene expression utilizes two binding sites in Pseudomonas aeruginosa. Journal of Bacteriology. 194: 5315-24. PMID 22843844 DOI: 10.1128/Jb.00984-12 |
0.618 |
|
| 2012 |
Bahl CD, Madden DR. Pseudomonas aeruginosa Cif defines a distinct class of α/β epoxide hydrolases utilizing a His/Tyr ring-opening pair. Protein and Peptide Letters. 19: 186-93. PMID 21933119 DOI: 10.2174/092986612799080392 |
0.658 |
|
| 2010 |
Bahl CD, Morisseau C, Bomberger JM, Stanton BA, Hammock BD, O'Toole GA, Madden DR. Crystal structure of the cystic fibrosis transmembrane conductance regulator inhibitory factor Cif reveals novel active-site features of an epoxide hydrolase virulence factor. Journal of Bacteriology. 192: 1785-95. PMID 20118260 DOI: 10.1128/Jb.01348-09 |
0.659 |
|
| 2010 |
Bahl CD, MacEachran DP, O'Toole GA, Madden DR. Purification, crystallization and preliminary X-ray diffraction analysis of Cif, a virulence factor secreted by Pseudomonas aeruginosa. Acta Crystallographica. Section F, Structural Biology and Crystallization Communications. 66: 26-8. PMID 20057063 DOI: 10.1107/S1744309109047599 |
0.622 |
|
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