Department of Physiology and Biophysics

Publication Highlights

Publication Highlights in 2014-15

  Akabas MH. Cysteine Modification: Probing Channel Structure, Function and Conformational Change. Adv Exp Med Biol. 2015; 869:25-54.
  Hough LE, Dutta K, Sparks S, Temel DB, Kamal A, Tetenbaum-Novatt J, Rout MP, Cowburn D. The molecular mechanism of nuclear transport revealed by atomic scale measurements. Elife. 2015 Sep 15;4
  Frame IJ, Deniskin R, Arora A, Akabas MH. Purine import into malaria parasites as a target for antimalarial drug development. Ann N Y Acad Sci. 2015 Apr; 1342(1):19-28.
  Fu S, Davies KP. Opiorphin-dependent upregulation of CD73 (a key enzyme in the adenosine signaling pathway) in corporal smooth muscle cells exposed to hypoxic conditions and in corporal tissue in pre-priapic sickle cell mice. Int J Impot Res. 2015 Apr 2. doi: 10.1038/ijir.2015.5. [Epub ahead of print]
  Thomas K, Cameron SA, Almo SC, Burgos ES, Gulab SA, Schramm VL. Active Site and Remote Contributions to Catalysis in Methylthioadenosine Nucleosidases. Biochemistry. 2015 Apr 3. [Epub ahead of print]
  Thomson R, Finkelstein A. Human trypanolytic factor APOL1 forms pH-gated cation-selective channels in planar lipid bilayers: Relevance to trypanosome lysis. Proc Natl Acad Sci U S A. 2015 Mar 3; 112(9):2894-9.
  Kaluka D, Batabyal D, Chiang BY, Poulos TL, Yeh SR. Spectroscopic and Mutagenesis Studies of Human PGRMC1. Biochemistry. 2015 Mar 3; 54(8):1638-47.
  Frame IJ, Deniskin R, Rinderspacher A, Katz F, Deng SX, Moir RD, Adjalley SH, Coburn-Flynn O, Fidock DA, Willis IM, Landry DW, Akabas MH. Yeast-Based High-Throughput Screen Identifies Plasmodium falciparum Equilibrative Nucleoside Transporter 1 Inhibitors That Kill Malaria Parasites. ACS Chem Biol. 2015 Mar 20; 10(3):775-83.
  Akhavan A, Murphy-Chutorian B, Friedman A. Pediatric Dermatology Training During Residency: A Survey of the 2014 Graduating Residents. Pediatr Dermatol. 2015 Mar 26. doi: 10.1111/pde.12565. [Epub ahead of print]
  Baltazar LM, Krausz AE, Souza AC, Adler BL, Landriscina A, Musaev T, Nosanchuk JD, Friedman AJ. Trichophyton rubrum is Inhibited by Free and Nanoparticle Encapsulated Curcumin by Induction of Nitrosative Stress after Photodynamic Activation. PLoS One. 2015 Mar 24; 10(3):e0120179.
  Krausz AE, Adler BL, Landriscina A, Rosen JM, Musaev T, Nosanchuk JD, Friedman AJ. Biafine topical emulsion accelerates excisional and burn wound healing in mice. Arch Dermatol Res. 2015 Mar 21. [Epub ahead of print]
  Baltazar LM, Ray A, Santos DA, Cisalpino PS, Friedman AJ, Nosanchuk JD. Antimicrobial photodynamic therapy: an effective alternative approach to control fungal infections. Front Microbiol. 2015 Mar 13; 6:202.
  Charafeddine RA, Makdisi J, Schairer D, O'Rourke BP, Diaz-Valencia JD, Chouake J, Kutner A, Krausz A, Adler B, Nacharaju P, Liang H, Mukherjee S, Friedman JM, Friedman A, Nosanchuk JD, Sharp DJ. Fidgetin-Like 2: A Microtubule-Based Regulator of Wound Healing. J Invest Dermatol. 2015 Mar 10. doi: 10.1038/jid.2015.94. [Epub ahead of print]
  Schiffmiller A, Finkelstein A. Ion Conductance of the Stem of the Anthrax Toxin Channel during Lethal Factor Translocation. J Mol Biol. 2015 Mar 27; 427(6 Pt A):1211-23.
  Malashkevich VN, Higgins CD, Almo SC, Lai JR. A Switch from Parallel to Antiparallel Strand Orientation in a Coiled-Coil X-Ray Structure via Two Core Hydrophobic Mutations. Biopolymers. 2015 Mar 6. doi: 10.1002/bip.22631. [Epub ahead of print]
  Kienker PK, Wu Z, Finkelstein A. Mapping the membrane topography of the TH6-TH7 segment of the diphtheria toxin T-domain channel. J Gen Physiol. 2015 Feb; 145(2):107-25.
  Zhang X, Kumar R, Vetting MW, Zhao S, Jacobson MP, Almo SC, Gerlt JA. A unique cis-3-hydroxy-l-proline dehydratase in the enolase superfamily. J Am Chem Soc. 2015 Feb 4; 137(4):1388-91.
  Chitu V, Gokhan S, Gulinello M, Branch CA, Patil M, Basu R, Stoddart C, Mehler MF, Stanley ER. Phenotypic characterization of a Csf1r haploinsufficient mouse model of adult-onset leukodystrophy with axonal spheroids and pigmented glia (ALSP). Neurobiol Dis. 2015 Feb; 74:219-28.
  Mordorski B, Pelgrift R, Adler B, Krausz A, da Costa Neto AB, Liang H, Gunther L, Clendaniel A, Harper S, Friedman JM, Nosanchuk JD, Nacharaju P, Friedman AJ. S-nitrosocaptopril nanoparticles as nitric oxide-liberating and transnitrosylating anti-infective technology. Nanomedicine. 2015 Feb; 11(2):283-91.
  Samanta D, Almo SC. Nectin family of cell-adhesion molecules: structural and molecular aspects of function and specificity. Cell Mol Life Sci. 2015 Feb; 72(4):645-58.
  Fedorov AA, Martí-Arbona R, Nemmara VV, Hitchcock D, Fedorov EV, Almo SC, Raushel FM. Structure of N-formimino-L-glutamate iminohydrolase from Pseudomonas aeruginosa. Biochemistry. 2015 Jan 27; 54(3):890-7.
  Ishigami I, Hikita M, Egawa T, Yeh SR, Rousseau DL. Proton translocation in cytochrome c oxidase: insights from proton exchange kinetics and vibrational spectroscopy. Biochim Biophys Acta. 2015 Jan; 1847(1):98-108.
  Karp JM, Erylimaz E, Cowburn D. Correlation of chemical shifts predicted by molecular dynamics simulations for partially disordered proteins. J Biomol NMR. 2015 Jan; 61(1):35-45.
  Roche CJ, Talwar A, Palmer AF, Cabrales P, Gerfen G, Friedman JM. Evaluating the capacity to generate and preserve nitric oxide bioactivity in highly purified earthworm erythrocruorin: a giant polymeric hemoglobin with potential blood substitute properties. J Biol Chem. 2015 Jan 2; 290(1):99-117.
  Krausz AE, Adler BL, Cabral V, Navati M, Doerner J, Charafeddine RA, Chandra D, Liang H, Gunther L, Clendaniel A, Harper S, Friedman JM, Nosanchuk JD, Friedman AJ. Curcumin-encapsulated nanoparticles as innovative antimicrobial and wound healing agent. Nanomedicine. 2015 Jan; 11(1):195-206.
  London N, Farelli JD, Brown SD, Liu C, Huang H, Korczynska M, Al-Obaidi NF, Babbitt PC, Almo SC, Allen KN, Shoichet BK. Covalent docking predicts substrates for haloalkanoate dehalogenase superfamily phosphatases. Biochemistry. 2015 Jan 20; 54(2):528-37.
  Morrill GA, Kostellow AB, Gupta RK. Computational analysis of the extracellular domain of the Ca(2+)-sensing receptor: An alternate model for the Ca(2+) sensing region. Biochem Biophys Res Commun. 2015 Mar 27; 459(1):36-41.
  Vetting MW, Al-Obaidi N, Zhao S, San Francisco B, Kim J, Wichelecki DJ, Bouvier JT, Solbiati JO, Vu H, Zhang X, Rodionov DA, Love JD, Hillerich BS, Seidel RD, Quinn RJ, Osterman AL, Cronan JE, Jacobson MP, Gerlt JA, Almo SC. Experimental strategies for functional annotation and metabolism discovery: targeted screening of solute binding proteins and unbiased panning of metabolomes. Biochemistry. 2015 Jan 27; 54(3):909-31.
  Adler BL, Krausz AE, Tian J, Nosanchuk JD, Kirsner RS, Friedman AJ. Modifiable lifestyle factors in psoriasis: screening and counseling practices among dermatologists and dermatology residents in academic institutions. J Am Acad Dermatol. 2014 Nov;71(5):1028-9.
  Ahn YO, Mahinthichaichan P, Lee HJ, Ouyang H, Kaluka D, Yeh SR, Arjona D, Rousseau DL, Tajkhorshid E, Adelroth P, Gennis RB. Conformational coupling between the active site and residues within the K(C)-channel of the Vibrio cholerae cbb3-type (C-family) oxygen reductase. Proc Natl Acad Sci U S A. 2014 Oct 21;111(42):E4419-28.
  Akabas MH, Brass LF. A closer look at attrition in MD-PhD programs. Acad Med. 2014 Jul; 89(7):958.
  Almo SC, Guha C. Considerations for combined immune checkpoint modulation and radiation treatment. Radiat Res. 2014 Aug;182(2):230-8.
  Apontes P, Liu Z, Su K, Benard O, Youn DY, Li X, Li W, Mirza RH, Bastie CC, Jelicks LA, Pessin JE, Muzumdar RH, Sauve AA, Chi Y. Mangiferin stimulates carbohydrate oxidation and protects against metabolic disorders induced by high-fat diets. Diabetes. 2014 Nov; 63(11):3626-36.
  Arora K, Talje L, Asenjo AB, Andersen P, Atchia K, Joshi M, Sosa H, Allingham JS, Kwok BH. KIF14 binds tightly to microtubules and adopts a rigor-like conformation. J Mol Biol. 2014 Aug 26; 426(17):2997-3015.
  Bosler JS, Davies KP, Neal-Perry GS. Peptides in seminal fluid and their role in infertility: a potential role for opiorphin inhibition of neutral endopeptidase activity as a clinically relevant modulator of sperm motility: a review. Reprod Sci. 2014 Nov; 21(11):1334-40.
  Chi Y, Suadicani SO, Schuster VL. Regulation of prostaglandin EP1 and EP4 receptor signaling by carrier-mediated ligand reuptake. Pharmacol Res Perspect. 2014 Oct; 2(5):e00051.
  Cui MH, Branch CA, Cahill SM, Quinn TJ, Adem A, Libutti SK, Yuan Z. In vivo proton MR spectroscopy of pancreatic neuroendocrine tumors in a multiple endocrine neoplasia type 1 conditional knockout mouse model. Magn Reson Med. 2014 Nov 13. doi: 10.1002/mrm.25529. [Epub ahead of print]
  Desai BJ, Goto Y, Cembran A, Fedorov AA, Almo SC, Gao J, Suga H, Gerlt JA. Investigating the role of a backbone to substrate hydrogen bond in OMP decarboxylase using a site-specific amide to ester substitution. Proc Natl Acad Sci U S A. 2014 Oct 21; 111(42):15066-71.
  Eryilmaz E, Shah NH, Muir TW, Cowburn D. Structural and dynamical features of inteins and implications on protein splicing. J Biol Chem. 2014 May 23; 289(21):14506-11.
  Fu S, Tar MT, Melman A, Davies KP. Opiorphin is a master regulator of the hypoxic response in corporal smooth muscle cells. FASEB J. 2014 Aug; 28(8):3633-44.
  Hitchcock DS, Fedorov AA, Fedorov EV, Almo SC, Raushel FM. Discovery of a bacterial 5-methylcytosine deaminase. Biochemistry. 2014 Dec 2; 53(47):7426-35.
  Jakes KS. Daring to be different: colicin N finds another way. Mol Microbiol. 2014 May; 92(3):435-9.
  Janakiram M, Chinai J, Fineberg S, Fiser A, Montagna C, Medaverepu R, Castano E, Jeon H, Ohaegbulam KC, Zhao R, Zhao A, Almo S, Sparano JA, Zang X. Expression, clinical significance, and receptor identification of the newest B7 family member HHLA2 protein. Clin Cancer Res. 2014 Dec 30. pii: clincanres.1495.2014. [Epub ahead of print]
  Jasmin, Jelicks LA, Tanowitz HB, Peters VM, Mendez-Otero R, Campos de Carvalho AC, Spray DC. Molecular imaging, biodistribution and efficacy of mesenchymal bone marrow cell therapy in a mouse model of Chagas disease. Microbes Infect. 2014 Nov; 16(11):923-35.
  Jeon H, Vigdorovich V, Garrett-Thomson SC, Janakiram M, Ramagopal UA, Abadi YM, Lee JS, Scandiuzzi L, Ohaegbulam KC, Chinai JM, Zhao R, Yao Y, Mao Y, Sparano JA, Almo SC, Zang X. Structure and cancer immunotherapy of the B7 family member B7x. Cell Rep. 2014 Nov 6; 9(3):1089-98.
  Kim N, Heo M, Fleysher R, Branch CA, Lipton ML. A gaussian mixture model approach for estimating and comparing the shapes of distributions of neuroimaging data: diffusion-measured aging effects in brain white matter. Front Public Health. 2014 Apr 14; 2:32.
  Kim SJ, Fernandez-Martinez J, Sampathkumar P, Martel A, Matsui T, Tsuruta H, Weiss TM, Shi Y, Markina-Inarrairaegui A, Bonanno JB, Sauder JM, Burley SK, Chait BT, Almo SC, Rout MP, Sali A. Integrative structure-function mapping of the nucleoporin Nup133 suggests a conserved mechanism for membrane anchoring of the nuclear pore complex. Mol Cell Proteomics. 2014 Nov; 13(11):2911-26.
  Lamont D, Mukherjee G, Kumar PR, Samanta D, McPhee CG, Kay TW, Almo SC, DiLorenzo TP, Serreze DV. Compensatory mechanisms allow undersized anchor-deficient class I MHC ligands to mediate pathogenic autoreactive T cell responses. J Immunol. 2014 Sep 1; 193(5):2135-46.
  Liong C, Ortiz D, Ao-ieong E, Navati MS, Friedman JM, Cabrales P. Localized increase of tissue oxygen tension by magnetic targeted drug delivery. Nanotechnology. 2014 Jul 4; 25(26):265102.
  Liu W, Zhan C, Cheng H, Kumar PR, Bonanno JB, Nathenson SG, Almo SC. Mechanistic basis for functional promiscuity in the TNF and TNF receptor superfamilies: structure of the LIGHT:DcR3 assembly. Structure. 2014 Sep 2; 22(9):1252-62.
  Malvestio LM, Celes MR, Milanezi C, Silva JS, Jelicks LA, Tanowitz HB, Rossi MA, Prado CM. Role of dystrophin in acute Trypanosoma cruzi infection. Microbes Infect. 2014 Sep; 16(9):768-77.
  Manjasetty BA, Chance MR, Burley SK, Panjikar S, Almo SC. Crystal structure of Clostridium acetobutylicum Aspartate kinase (CaAK): An important allosteric enzyme for amino acids production. Biotechnol Rep (Amst). 2014 Sep 1; 3:73-85.
  Morrill GA, Kostellow AB, Gupta RK. The pore-lining regions in cytochrome c oxidases: A computational analysis of caveolin, cholesterol and transmembrane helix contributions to proton movement. Biochim Biophys Acta. 2014 Nov; 1838(11):2838-51.
  Nagajyothi F, Weiss LM, Zhao D, Koba W, Jelicks LA, Cui MH, Factor SM, Scherer PE, Tanowitz HB. High fat diet modulates Trypanosoma cruzi infection associated myocarditis. PLoS Negl Trop Dis. 2014 Oct 2; 8(10):e3118.
  Nemeria NS, Ambrus A, Patel H, Gerfen G, Adam-Vizi V, Tretter L, Zhou J, Wang J, Jordan F. Human 2-oxoglutarate dehydrogenase complex E1 component forms a thiamin-derived radical by aerobic oxidation of the enamine intermediate. J Biol Chem. 2014 Oct 24; 289(43):29859-73.
  Nguyen KQ, Tsou WI, Calarese DA, Kimani SG, Singh S, Hsieh S, Liu Y, Lu B, Wu Y, Garforth SJ, Almo SC, Kotenko SV, Birge RB. Overexpression of MERTK receptor tyrosine kinase in epithelial cancer cells drives efferocytosis in a gain-of-function capacity. J Biol Chem. 2014 Sep 12; 289(37):25737-49.
  O'Rourke BP, Gomez-Ferreria MA, Berk RH, Hackl AM, Nicholas MP, O'Rourke SC, Pelletier L, Sharp DJ. Cep192 controls the balance of centrosome and non-centrosomal microtubules during interphase. PLoS One. 2014 Jun 27; 9(6):e101001.
  Piatkevich KD, English BP, Malashkevich VN, Xiao H, Almo SC, Singer RH, Verkhusha VV. Photoswitchable red fluorescent protein with a large Stokes shift. Chem Biol. 2014 Oct 23; 21(10):1402-14.
  Tar M, Cabrales P, Navati M, Adler B, Nacharaju P, Friedman AJ, Friedman J, Davies KP. Topically applied NO-releasing nanoparticles can increase intracorporal pressure and elicit spontaneous erections in a rat model of radical prostatectomy. J Sex Med. 2014 Dec ;11(12):2903-14.
  Tar MT, Martinez LR, Nosanchuk JD, Davies KP. The effect of methamphetamine on an animal model of erectile function. Andrology. 2014 Jul; 2(4):531-6.
  Wang Y, Tar MT, Fu S, Melman A, Davies KP. Diabetes attenuates urothelial modulation of detrusor contractility and spontaneous activity. Int J Urol. 2014 Oct; 21(10):1059-64.
  Wichelecki DJ, Vendiola JA, Jones AM, Al-Obaidi N, Almo SC, Gerlt JA. Investigating the physiological roles of low-efficiency D-mannonate and D-gluconate dehydratases in the enolase superfamily: pathways for the catabolism of L-gulonate and L-idonate. Biochemistry. 2014 Sep 9; 53(35):5692-9.
  Fine EJ, Herbst L, Jelicks LA, Koba W, Theele D. Small-animal research imaging devices. Semin Nucl Med. 2014 Jan; 44(1):57-65.
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