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Items: 46

1.

Determinants of human glucokinase activation and implications for small molecule allosteric control.

Li Q, Gakhar L, Ashley Spies M.

Biochim Biophys Acta Gen Subj. 2018 Sep;1862(9):1902-1912. doi: 10.1016/j.bbagen.2018.06.001. Epub 2018 Jun 6.

PMID:
29885360
2.

Characterization of a nontypeable Haemophilus influenzae thermonuclease.

Cho C, Chande AT, Gakhar L, Hunt J, Ketterer MR, Apicella MA.

PLoS One. 2018 May 10;13(5):e0197010. doi: 10.1371/journal.pone.0197010. eCollection 2018.

3.

A novel de novo CAPN5 mutation in a patient with inflammatory vitreoretinopathy, hearing loss, and developmental delay.

Velez G, Bassuk AG, Schaefer KA, Brooks B, Gakhar L, Mahajan M, Kahn P, Tsang SH, Ferguson PJ, Mahajan VB.

Cold Spring Harb Mol Case Stud. 2018 Jun 1;4(3). pii: a002519. doi: 10.1101/mcs.a002519. Print 2018 Jun.

4.

Allosteric Tuning of Caspase-7: A Fragment-Based Drug Discovery Approach.

Vance NR, Gakhar L, Spies MA.

Angew Chem Int Ed Engl. 2017 Nov 13;56(46):14443-14447. doi: 10.1002/anie.201706959. Epub 2017 Oct 9.

5.

The Tiam1 guanine nucleotide exchange factor is auto-inhibited by its pleckstrin homology coiled-coil extension domain.

Xu Z, Gakhar L, Bain FE, Spies M, Fuentes EJ.

J Biol Chem. 2017 Oct 27;292(43):17777-17793. doi: 10.1074/jbc.M117.799114. Epub 2017 Sep 7.

6.

Unique structural features of the AIPL1-FKBP domain that support prenyl lipid binding and underlie protein malfunction in blindness.

Yadav RP, Gakhar L, Yu L, Artemyev NO.

Proc Natl Acad Sci U S A. 2017 Aug 8;114(32):E6536-E6545. doi: 10.1073/pnas.1704782114. Epub 2017 Jul 24.

7.

Distinct Roles for Conformational Dynamics in Protein-Ligand Interactions.

Liu X, Speckhard DC, Shepherd TR, Sun YJ, Hengel SR, Yu L, Fowler CA, Gakhar L, Fuentes EJ.

Structure. 2016 Dec 6;24(12):2053-2066. doi: 10.1016/j.str.2016.08.019. Epub 2016 Oct 27.

8.

Nlrp12 mutation causes C57BL/6J strain-specific defect in neutrophil recruitment.

Ulland TK, Jain N, Hornick EE, Elliott EI, Clay GM, Sadler JJ, Mills KA, Janowski AM, Volk AP, Wang K, Legge KL, Gakhar L, Bourdi M, Ferguson PJ, Wilson ME, Cassel SL, Sutterwala FS.

Nat Commun. 2016 Oct 25;7:13180. doi: 10.1038/ncomms13180.

9.

The Anti-sigma Factor RsiV Is a Bacterial Receptor for Lysozyme: Co-crystal Structure Determination and Demonstration That Binding of Lysozyme to RsiV Is Required for σV Activation.

Hastie JL, Williams KB, Bohr LL, Houtman JC, Gakhar L, Ellermeier CD.

PLoS Genet. 2016 Sep 7;12(9):e1006287. doi: 10.1371/journal.pgen.1006287. eCollection 2016 Sep.

10.

Small-angle X-ray scattering of calpain-5 reveals a highly open conformation among calpains.

Gakhar L, Bassuk AG, Velez G, Khan S, Yang J, Tsang SH, Mahajan VB.

J Struct Biol. 2016 Dec;196(3):309-318. doi: 10.1016/j.jsb.2016.07.017. Epub 2016 Jul 27.

11.

Structural and Kinetic Studies of Formate Dehydrogenase from Candida boidinii.

Guo Q, Gakhar L, Wickersham K, Francis K, Vardi-Kilshtain A, Major DT, Cheatum CM, Kohen A.

Biochemistry. 2016 May 17;55(19):2760-71. doi: 10.1021/acs.biochem.6b00181. Epub 2016 May 3.

12.

Extended conformation of the proline-rich domain of human aryl hydrocarbon receptor-interacting protein-like 1: implications for retina disease.

Yadav RP, Majumder A, Gakhar L, Artemyev NO.

J Neurochem. 2015 Oct;135(1):165-75. doi: 10.1111/jnc.13223. Epub 2015 Aug 25.

13.

CAPN5 mutation in hereditary uveitis: the R243L mutation increases calpain catalytic activity and triggers intraocular inflammation in a mouse model.

Wert KJ, Bassuk AG, Wu WH, Gakhar L, Coglan D, Mahajan M, Wu S, Yang J, Lin CS, Tsang SH, Mahajan VB.

Hum Mol Genet. 2015 Aug 15;24(16):4584-98. doi: 10.1093/hmg/ddv189. Epub 2015 May 20.

14.

Structural modeling of a novel CAPN5 mutation that causes uveitis and neovascular retinal detachment.

Bassuk AG, Yeh S, Wu S, Martin DF, Tsang SH, Gakhar L, Mahajan VB.

PLoS One. 2015 Apr 9;10(4):e0122352. doi: 10.1371/journal.pone.0122352. eCollection 2015.

15.

Opposing orientations of the anti-psychotic drug trifluoperazine selected by alternate conformations of M144 in calmodulin.

Feldkamp MD, Gakhar L, Pandey N, Shea MA.

Proteins. 2015 May;83(5):989-96. doi: 10.1002/prot.24781. Epub 2015 Mar 25.

16.

Role of the nuclease of nontypeable Haemophilus influenzae in dispersal of organisms from biofilms.

Cho C, Chande A, Gakhar L, Bakaletz LO, Jurcisek JA, Ketterer M, Shao J, Gotoh K, Foster E, Hunt J, O'Brien E, Apicella MA.

Infect Immun. 2015 Mar;83(3):950-7. doi: 10.1128/IAI.02601-14. Epub 2014 Dec 29.

17.

The solution structure of the transducin-α-uncoordinated 119 protein complex suggests occlusion of the Gβ₁γ₁-binding sites.

Cheguru P, Majumder A, Yadav R, Gopalakrishna KN, Gakhar L, Artemyev NO.

FEBS J. 2015 Feb;282(3):550-61. doi: 10.1111/febs.13161. Epub 2014 Dec 12.

18.

Free energy simulations of active-site mutants of dihydrofolate reductase.

Doron D, Stojković V, Gakhar L, Vardi-Kilshtain A, Kohen A, Major DT.

J Phys Chem B. 2015 Jan 22;119(3):906-16. doi: 10.1021/jp5059963. Epub 2014 Nov 21.

PMID:
25382260
19.

Phosphorylation of Nox1 regulates association with NoxA1 activation domain.

Streeter J, Schickling BM, Jiang S, Stanic B, Thiel WH, Gakhar L, Houtman JC, Miller FJ Jr.

Circ Res. 2014 Nov 7;115(11):911-8. doi: 10.1161/CIRCRESAHA.115.304267. Epub 2014 Sep 16.

20.

Crystal structure of a complex of NOD1 CARD and ubiquitin.

Ver Heul AM, Gakhar L, Piper RC, Subramanian R.

PLoS One. 2014 Aug 15;9(8):e104017. doi: 10.1371/journal.pone.0104017. eCollection 2014.

21.

High-resolution structure of the Tiam1 PHn-CC-Ex domain.

Joshi M, Gakhar L, Fuentes EJ.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2013 Jul;69(Pt 7):744-52. doi: 10.1107/S1744309113014206. Epub 2013 Jun 27.

22.

Interaction of aryl hydrocarbon receptor-interacting protein-like 1 with the farnesyl moiety.

Majumder A, Gopalakrishna KN, Cheguru P, Gakhar L, Artemyev NO.

J Biol Chem. 2013 Jul 19;288(29):21320-8. doi: 10.1074/jbc.M113.476242. Epub 2013 Jun 4.

23.

The yeast Alix homolog Bro1 functions as a ubiquitin receptor for protein sorting into multivesicular endosomes.

Pashkova N, Gakhar L, Winistorfer SC, Sunshine AB, Rich M, Dunham MJ, Yu L, Piper RC.

Dev Cell. 2013 Jun 10;25(5):520-33. doi: 10.1016/j.devcel.2013.04.007. Epub 2013 May 30.

24.

Mutations in extracellular matrix genes NID1 and LAMC1 cause autosomal dominant Dandy-Walker malformation and occipital cephaloceles.

Darbro BW, Mahajan VB, Gakhar L, Skeie JM, Campbell E, Wu S, Bing X, Millen KJ, Dobyns WB, Kessler JA, Jalali A, Cremer J, Segre A, Manak JR, Aldinger KA, Suzuki S, Natsume N, Ono M, Hai HD, Viet le T, Loddo S, Valente EM, Bernardini L, Ghonge N, Ferguson PJ, Bassuk AG.

Hum Mutat. 2013 Aug;34(8):1075-9. doi: 10.1002/humu.22351. Epub 2013 May 28.

25.

SPLUNC1/BPIFA1 contributes to pulmonary host defense against Klebsiella pneumoniae respiratory infection.

Liu Y, Bartlett JA, Di ME, Bomberger JM, Chan YR, Gakhar L, Mallampalli RK, McCray PB Jr, Di YP.

Am J Pathol. 2013 May;182(5):1519-31. doi: 10.1016/j.ajpath.2013.01.050. Epub 2013 Mar 15.

26.

Structure and functional analysis of the BRCT domain of translesion synthesis DNA polymerase Rev1.

Pryor JM, Gakhar L, Washington MT.

Biochemistry. 2013 Jan 8;52(1):254-63. doi: 10.1021/bi301572z. Epub 2012 Dec 20.

27.

Delineation of the caffeine C-8 oxidation pathway in Pseudomonas sp. strain CBB1 via characterization of a new trimethyluric acid monooxygenase and genes involved in trimethyluric acid metabolism.

Mohanty SK, Yu CL, Das S, Louie TM, Gakhar L, Subramanian M.

J Bacteriol. 2012 Aug;194(15):3872-82. doi: 10.1128/JB.00597-12. Epub 2012 May 18.

28.

Novel, highly specific N-demethylases enable bacteria to live on caffeine and related purine alkaloids.

Summers RM, Louie TM, Yu CL, Gakhar L, Louie KC, Subramanian M.

J Bacteriol. 2012 Apr;194(8):2041-9. doi: 10.1128/JB.06637-11. Epub 2012 Feb 10.

29.

The structure of LsrB from Yersinia pestis complexed with autoinducer-2.

Kavanaugh JS, Gakhar L, Horswill AR.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2011 Dec 1;67(Pt 12):1501-5. doi: 10.1107/S1744309111042953. Epub 2011 Nov 29.

30.

Solution X-ray scattering combined with computational modeling reveals multiple conformations of covalently bound ubiquitin on PCNA.

Tsutakawa SE, Van Wynsberghe AW, Freudenthal BD, Weinacht CP, Gakhar L, Washington MT, Zhuang Z, Tainer JA, Ivanov I.

Proc Natl Acad Sci U S A. 2011 Oct 25;108(43):17672-7. doi: 10.1073/pnas.1110480108. Epub 2011 Oct 17.

31.

Quantitation of SPLUNC1 in saliva with an xMAP particle-based antibody capture and detection immunoassay.

Kohlgraf KG, Ackermann AR, Burnell KK, Srikantha RN, Joly SA, Bartlett JA, Gakhar L, Johnson GK, McCray PB Jr, Guthmiller JM, Brogden KA.

Arch Oral Biol. 2012 Feb;57(2):197-204. doi: 10.1016/j.archoralbio.2011.08.013. Epub 2011 Sep 16.

32.

PLUNC: a multifunctional surfactant of the airways.

Bartlett JA, Gakhar L, Penterman J, Singh PK, Mallampalli RK, Porter E, McCray PB Jr.

Biochem Soc Trans. 2011 Aug;39(4):1012-6. doi: 10.1042/BST0391012. Erratum in: Biochem Soc Trans. 2011 Oct;39(5):1549. Bartlett, Jennifer [corrected to Bartlett, Jennifer A]; Singh, Pradeep [corrected to Singh, Pradeep K].

33.

Crystal structure of SUMO-modified proliferating cell nuclear antigen.

Freudenthal BD, Brogie JE, Gakhar L, Kondratick CM, Washington MT.

J Mol Biol. 2011 Feb 11;406(1):9-17. doi: 10.1016/j.jmb.2010.12.015. Epub 2010 Dec 15.

34.

WD40 repeat propellers define a ubiquitin-binding domain that regulates turnover of F box proteins.

Pashkova N, Gakhar L, Winistorfer SC, Yu L, Ramaswamy S, Piper RC.

Mol Cell. 2010 Nov 12;40(3):433-43. doi: 10.1016/j.molcel.2010.10.018.

35.

Dynamic regulation of cardiolipin by the lipid pump Atp8b1 determines the severity of lung injury in experimental pneumonia.

Ray NB, Durairaj L, Chen BB, McVerry BJ, Ryan AJ, Donahoe M, Waltenbaugh AK, O'Donnell CP, Henderson FC, Etscheidt CA, McCoy DM, Agassandian M, Hayes-Rowan EC, Coon TA, Butler PL, Gakhar L, Mathur SN, Sieren JC, Tyurina YY, Kagan VE, McLennan G, Mallampalli RK.

Nat Med. 2010 Oct;16(10):1120-1127. doi: 10.1038/nm.2213. Epub 2010 Sep 19.

36.

Functional characterization of a cancer causing mutation in human replication protein A.

Hass CS, Gakhar L, Wold MS.

Mol Cancer Res. 2010 Jul;8(7):1017-26. doi: 10.1158/1541-7786.MCR-10-0161. Epub 2010 Jun 29.

37.

Structure of monoubiquitinated PCNA and implications for translesion synthesis and DNA polymerase exchange.

Freudenthal BD, Gakhar L, Ramaswamy S, Washington MT.

Nat Struct Mol Biol. 2010 Apr;17(4):479-84. doi: 10.1038/nsmb.1776. Epub 2010 Mar 21.

38.

PLUNC is a novel airway surfactant protein with anti-biofilm activity.

Gakhar L, Bartlett JA, Penterman J, Mizrachi D, Singh PK, Mallampalli RK, Ramaswamy S, McCray PB Jr.

PLoS One. 2010 Feb 9;5(2):e9098. doi: 10.1371/journal.pone.0009098.

39.

Structural basis of phosphodiesterase 6 inhibition by the C-terminal region of the gamma-subunit.

Barren B, Gakhar L, Muradov H, Boyd KK, Ramaswamy S, Artemyev NO.

EMBO J. 2009 Nov 18;28(22):3613-22. doi: 10.1038/emboj.2009.284. Epub 2009 Oct 1.

40.

A charged residue at the subunit interface of PCNA promotes trimer formation by destabilizing alternate subunit interactions.

Freudenthal BD, Gakhar L, Ramaswamy S, Washington MT.

Acta Crystallogr D Biol Crystallogr. 2009 Jun;65(Pt 6):560-6. doi: 10.1107/S0907444909011329. Epub 2009 May 15.

41.

Ectodomain shedding of angiotensin converting enzyme 2 in human airway epithelia.

Jia HP, Look DC, Tan P, Shi L, Hickey M, Gakhar L, Chappell MC, Wohlford-Lenane C, McCray PB Jr.

Am J Physiol Lung Cell Mol Physiol. 2009 Jul;297(1):L84-96. doi: 10.1152/ajplung.00071.2009. Epub 2009 May 1.

42.

Missense mutations that cause Van der Woude syndrome and popliteal pterygium syndrome affect the DNA-binding and transcriptional activation functions of IRF6.

Little HJ, Rorick NK, Su LI, Baldock C, Malhotra S, Jowitt T, Gakhar L, Subramanian R, Schutte BC, Dixon MJ, Shore P.

Hum Mol Genet. 2009 Feb 1;18(3):535-45. doi: 10.1093/hmg/ddn381. Epub 2008 Nov 26. Erratum in: Hum Mol Genet.2009 Apr 15;18(8):1544.

43.
44.

Structure and increased thermostability of Rhodococcus sp. naphthalene 1,2-dioxygenase.

Gakhar L, Malik ZA, Allen CC, Lipscomb DA, Larkin MJ, Ramaswamy S.

J Bacteriol. 2005 Nov;187(21):7222-31.

45.

Rieske business: structure-function of Rieske non-heme oxygenases.

Ferraro DJ, Gakhar L, Ramaswamy S.

Biochem Biophys Res Commun. 2005 Dec 9;338(1):175-90. Epub 2005 Sep 8. Review.

PMID:
16168954
46.

Crystallization and preliminary X-ray diffraction analysis of naphthalene dioxygenase from Rhodococcus sp. strain NCIMB 12038.

Malik ZA, Allen CC, Gakhar L, Lipscomb DA, Larkin MJ, Ramaswamy S.

Acta Crystallogr D Biol Crystallogr. 2002 Dec;58(Pt 12):2173-4. Epub 2002 Nov 23.

PMID:
12454491

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