News
January 2023
Data for the following publications were obtained using instrumentation in the COBRE-supported PPC Core facility:
Hamsici et al. (2023) "Controllable membrane damage by tunable peptide aggregation with albumin", AIChe Journal. doi: 10.1002/aic.17893
Heydarian et al. (2023) "Eradicating biofilms of carbapenem-resistant enterobacteriaceae by simultaneously dispersing the biomass and killing planktonic bacteria with PEGylated branched polyethyleneimine", ChemMedChem. doi: 10.1002/cmdc.202200428
Martin et al. (2023) "Optimized protocols for the characterization of Cas12a activities", Methods Enzymol. doi: 10.1016/bs.mie.2022.08.048
Dr. Blaine Mooers, Academic Core Director of the COBRE Biomolecular Structure Core, has a new publication, which also acknowledges use of the BSC:
Tsytsykova et al. (2022) "Mutated KLF4(K409Q) in meningioma binds STRs and activates FGF3 gene expression", iScience doi: 10.1016/j.isci.2022.104839
Dr. Rakhi Rajan, former COBRE Project Leader, has two new publications:
Martin et al. (2023) "Optimized protocols for the characterization of Cas12a activities", Methods Enzymol. doi: 10.1016/bs.mie.2022.08.048
Flusche and Rajan (2022) "Molecular details of DNA integration by CRISPR-associated proteins during adaptation in bacteria and archaea", Adv. Exp. Med. Biol. doi: 10.1007/5584_2022_730
Dr. Christina Bourne, former COBRE Project Leader, has a new publication, which also acknowledges use of the BSC:
Boyer et al. (2022) "Synthesis and characterization of functionalized amino dihydropyrimidines toward the analysis of their antibacterial structure-activity relationships and mechanism of action", ACS Omega doi: 10.1021/acsomega.2c05071
June 2022
Data for the following publication were obtained using instrumentation in the COBRE-supported PPC Core facility:
Kayastha et al. (2022) "EF-hand protein, EfhP, specifically binds Ca2+ and mediates Ca2+ regulation of virulence in a human pathogen Pseudomonas aeruginosa", Sci Rep. doi: 10.1038/s41598-022-12584-9
Dr. Robert Matts, former COBRE Project Leader, has a new publication:
Peng et al. (2022) "Crystal structure of the middle and C-terminal domains of Hsp90a labeled with a coumarin derivative reveals a potential allosteric binding site as a drug target", Acta Crystallogr D Struct Biol. doi: 10.1107/S2059798322002261
Dr. Ashlee Rowe, COBRE Project Leader, has a new publication:
George et al. (2022) "Structural and functional characterization of a novel scorpion toxin that inhibits Nav1.8 via interactions with the DI voltage sensor and DII pore module ", Front Pharmacol. doi: 10.3389/fphar.2022.846992
Dr. Rakhi Rajan, former COBRE Project Leader, has a new publication:
Zuo et al. (2022) "Rational engineering of CRISPR-Cas9 nuclease to attenuate position-dependent off-target effects", CRISPR J. doi: 10.1089/crispr.2021.0076
January 2022
Dr. Christina Bourne, former COBRE Project Leader, has a new publication:
Snead et al. (2022) "ParD antitoxin hotspot alters a disorder-to-order transition upon binding to its cognate ParE toxin, lessening its interaction affinity and increasing its protease degradation kinetic", Biochemistry doi: 10.1021/acs.biochem.1c00584
The protein structure reported in the publication was selected for the cover art of the journal issue and can be viewed here.
Dr. Adam Duerfeldt, former COBRE Project Leader, has a new publication:
Bishop et al. (2022) "Identification of ClpP dual isoform disruption as an anti-sporulation strategy for Clostridioides difficile", J. Bact. doi: 10.1128/JB.00411-21
December 2021
Dr. Rakhi Rajan, former COBRE Project Leader, has a new publication:
Babu et al. (2021) "Coordinated actions of Cas9 HNH and RuvC nuclease domains are regulated by the bridge helix and the target DNA sequence", Biochemistry doi: 10.1021/acs.biochem.1c00354
Dr. Shanteri Singh, COBRE Project Leader, has a new publication:
Johnson et al. (2021) "Molecular basis for the substrate promiscuity of isopentenyl phosphate kinase from Candidatus methanomethylophilus alvus", ACS Chem. Biol. doi: 10.1021/acschembio.1c00655
August 2021
Dr. Blaine Mooers, Academic Core Director of the COBRE Biomolecular Structure Core, has a new publication:
Acquah et al. (2021) "Simulations of promising indolizidine- α 6- β 2 nicotinic acetylcholine receptor complexes", Int J Mol Sci. doi.org/10.3390/ijms22157934
Dr. Ashlee Rowe, COBRE Project Leader, has a new publication:
Abd El-Aziz et al. (2021) "Identification and characterization of novel proteins from Arizona bark scorpion venom that inhibit Nav1.8, a voltage-gated sodium channel regulator of pain signaling", Toxins doi.org/10.3390/toxins13070501
July 2021
Dr. Jialing Lin, COBRE Project Leader, has a new publication:
Lv et al. (2021) "An amphipathic Bax core dimer forms part of the apoptotic pore wall in the mitochondrial membrane", EMBO J. doi.org/10.15252/embj.2020106438
Dr. Blaine Mooers, Academic Core Director of the COBRE Biomolecular Structure Core, has two new publications:
Mooers (2021) "A PyMOL snippet library for Jupyter to boost researcher productivity", Computing in Science and Engineering. doi.org/10.1109/MCSE.2021.3059536
Shen et al. (2021) "The L730V/I RET roof mutations display different activities towards pralsetinib and selpercatinib", NPJ Precision Oncology. doi.org/10.1038/s41698-021-00188-x
April 2021
Dr. Rakhi Rajan, former COBRE Project Leader, has a new publication:
Parameshwaran et al. (2021) "The bridge helix of Cas12a imparts selectivity in cis-DNA cleavage and regulates trans-DNA cleavage", FEBS Lett. doi: 10.1002/1873-3468.14051
March 2021
Dr. Jialing Lin, COBRE Project Leader, has a new publication:
Zhang et al. (2021) "Cysteine-based crosslinking approach for characterization of oligomeric pore-forming proteins in the mitochondrial membrane", Methods Enzymol. doi.org/10.1016/bs.mie.2021.01.023
Dr. Len Thomas, Facility Director of the COBRE Biomolecular Structure Core has a new publication:
Karsten et al. (2021) "Kinetic, spectral, and structural studies of the slow-binding inhibition of the Escherichia coli dihydrodipicolinate synthase by 2, 4-oxo-pentanoic acid", Arch. Biochem. Biophys. doi.org/10.1016/j.abb.2021.108819
Dr. Robert Matts, former COBRE Project Leader, has a new publication:
Mishra et al. (2021) "Selective inhibition of the Hsp90a isoform", Angew Chem Intl Ed Eng. doi: 10.1002/anie.202015422
February 2021
Dr. Christina Bourne, former COBRE Project Leader, has a new publication:
McGillick et al. (2021) "A YoeB toxin cleaves both RNA and DNA", Sci Rep. doi: 10.1038/s41598-021-82950-6
Dr. Marie Hanigan, former COBRE Project Leader, has a new publication:
Terzyan et al. (2021) "Crystal structures of glutathione- and inhibitor-bound human GGT1: Critical interactions within the cysteinylglycine binding site", J. Biol. Chem. doi: 10.1074/jbc.RA120.016265
Dr. Blaine Mooers, Academic Core Director of the COBRE Biomolecular Structure Core, has two new publications:
Mooers and Brown (2021) "Templates for writing PyMOL scripts", Protein Sci. doi.org/10.1002/pro.3997
Subbiah et al. (2021) "Structural basis of acquired resistance to selpercatinib and pralsetinib mediated by non-gatekeeper RET mutations", Annals Oncol. doi.org/10.1016/j.annonc.2020.10.599
August 2020
Dr. Wei-Qun Ding, former COBRE Project Leader, has a new publication:
Xu et al. (2020) "SRSF1 regulates exosome microRNA enrichment in human cancer cells", Cell Communication and Signaling. doi: 10.1186/s12964-020-00615-9
Dr. Rakhi Rajan, former COBRE Project Leader, has a new publication:
Van Orden et al. (2020) "CRISPR type II-A subgroups exhibit phylogenetically distinct mechanisms for spacer insertion", J. Biol. Chem. doi: 10.1074/jbc.RA120.013554
May 2020
Dr. Anne Kasus-Jacobi, former COBRE Project Leader, has a new publication:
Kasus-Jacobi et al. (2020) "Antimicrobial peptides derived from the immune defense protein CAP37 inhibit TLR4 activation by S100A9", Invest. Ophthalmol. Vis. Sci., doi: 10.1167/iovs.61.4.16
Dr. Wei-Qun Ding, COBRE Project Leader, has a new publication:
Xu et al. (2020) "The role of exosomal microRNAs in pancreatic cancer", Stem Cell Investig., doi: 10.21037/sci.2020.02.01
Dr. Christina Bourne, former COBRE Project Leader, has two new publications:
Ames et al. (2020) "Identifying a molecular mechanism that imparts species-specific toxicity to YoeB toxins", Front. Microbiol. doi: 10.3389/fmicb.2020.00959
Muddala et al. (2020) "Inhibitor design to target a unique feature in the folate pocket of Staphylococcus aureus dihydrofolate reductase", Eur. J. Med. Chem. doi.org/10.1016/j.ejmech.2020.112412
March 2020
Dr. Shanteri Singh, COBRE Project Leader, has a new publication:
Johnson et al. (2020) "Acceptor substrate determines the donor substrate specificity of an aromatic prenyltransferase: expanding the biocatalytic potential of NphB", Appl. Microbiol. Biotechnol., doi: 10.1007/s00253-020-10529-8
Dr. Adam Duerfeldt, COBRE Project Leader, has a new publication:
Dou et al. (2020) "Structure-based evolution of a 4-benzyloxy-benzylamino chemotype to provide efficacious, potent, and isoform selective PPARα agonists as leads for retinal disorders", J. Med. Chem. doi.org/10.1021/acs.jmedchem.9b01189
February 2020
Dr. Indrajeet Sharma, fomer COBRE Project Leader, has a new publication:
Schlitzer et al. (2020) "A metal-free aromatic cascade for the synthesis of diverse heterocycles", Org. Chem. Front. doi: 10.1039/C9QO01336A
January 2020
Dr. Augen Pioszak, former COBRE Project Leader, has a new publication:
Lee et al. (2020) "Calcitonin receptor N-glycosylation enhances peptide hormone affinity by controlling receptor dynamics", J. Mol. Biol. doi.org/10.1016/j.jmb.2020.01.028
Dr. Jialing Lin, COBRE Project Leader, has a new publication:
Chi et al. (2020) "The carboxyl-terminal sequence of Bim enables Bax activation and killing of unprimed cells", eLife. doi.org/10.7554/eLife.44525
December 2019
Dr. Yihan Shao, former COBRE Pilot Project Leader, has a new publication:
Tao et al. (2019) "Constructing spin-adiabatic states for the modeling of spin-crossing reactions. I. A shared-orbital implementation", Int. J. Quantum Chem. doi.org/10.1002/qua.26123
Dr. Rakhi Rajan, COBRE Project Leader, has a new publication:
Chan et al. (2019) "Crystal structures of an unmodified bacterial tRNA reveal intrinsic structural flexibility and plasticity as general properties of folded tRNAs", RNA, doi:10.1261/rna.073478.119
November 2019
Dr. Blaine Mooers, Academic Core Director of the COBRE Biomolecular Structure Core, has a new publication:
B.H.M. Mooers (2019) "Shortcuts for faster image creation in PyMOL", Protein Science, doi: 10.1002/pro.3781
October 2019
Dr. Ann West, COBRE PI, has a new publication:
Branscum, K.M., Menon, S.K., Foster, C.A., and West, A.H. (2019) "Insights revealed by the co-crystal structure of the Saccharomyces cerevisiae histidine phosphotransfer protein Ypd1 and the receiver domain of its downstream response regulator Ssk1", Protein Science, doi: 10.1002/pro.3755
Dr. Yihan Shao, COBRE Pilot Project Investigator, has been awarded a four-year R01 grant by the National Institutes of Health:
Project title: "Multiscale modeling of enzymatic reactions and firefly bioluminescence".
