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Items: 1 to 50 of 78

1.

Nanotubes, Plates, and Needles: Pathway-Dependent Self-Assembly of Computationally Designed Peptides.

Tian Y, Polzer FB, Zhang HV, Kiick KL, Saven JG, Pochan DJ.

Biomacromolecules. 2018 Nov 12;19(11):4286-4298. doi: 10.1021/acs.biomac.8b01163. Epub 2018 Oct 9.

PMID:
30299090
2.

A protein-protein host-guest complex: Thermostable ferritin encapsulating positively supercharged green fluorescent protein.

Pulsipher KW, Bulos JA, Villegas JA, Saven JG, Dmochowski IJ.

Protein Sci. 2018 Oct;27(10):1755-1766. doi: 10.1002/pro.3483.

PMID:
30051936
3.

Self-assembly and soluble aggregate behavior of computationally designed coiled-coil peptide bundles.

Haider MJ, Zhang HV, Sinha N, Fagan JA, Kiick KL, Saven JG, Pochan DJ.

Soft Matter. 2018 Jul 4;14(26):5488-5496. doi: 10.1039/c8sm00435h.

PMID:
29923575
4.

All-Electronic Quantification of Neuropeptide-Receptor Interaction Using a Bias-Free Functionalized Graphene Microelectrode.

Ping J, Vishnubhotla R, Xi J, Ducos P, Saven JG, Liu R, Johnson ATC.

ACS Nano. 2018 May 22;12(5):4218-4223. doi: 10.1021/acsnano.7b07474. Epub 2018 Apr 17.

5.

Controlling Association and Separation of Gold Nanoparticles with Computationally Designed Zinc-Coordinating Proteins.

Eibling MJ, MacDermaid CM, Qian Z, Lanci CJ, Park SJ, Saven JG.

J Am Chem Soc. 2017 Dec 13;139(49):17811-17823. doi: 10.1021/jacs.7b04786. Epub 2017 Nov 30.

PMID:
29148741
6.

Structural-functional analysis of engineered protein-nanoparticle assemblies using graphene microelectrodes.

Ping J, Pulsipher KW, Vishnubhotla R, Villegas JA, Hicks TL, Honig S, Saven JG, Dmochowski IJ, Johnson ATC.

Chem Sci. 2017 Aug 1;8(8):5329-5334. doi: 10.1039/c7sc01565h. Epub 2017 Jun 13.

7.

Thermophilic Ferritin 24mer Assembly and Nanoparticle Encapsulation Modulated by Interdimer Electrostatic Repulsion.

Pulsipher KW, Villegas JA, Roose BW, Hicks TL, Yoon J, Saven JG, Dmochowski IJ.

Biochemistry. 2017 Jul 18;56(28):3596-3606. doi: 10.1021/acs.biochem.7b00296. Epub 2017 Jul 6.

8.

Transition from disordered aggregates to ordered lattices: kinetic control of the assembly of a computationally designed peptide.

Tian Y, Zhang HV, Kiick KL, Saven JG, Pochan DJ.

Org Biomol Chem. 2017 Aug 7;15(29):6109-6118. doi: 10.1039/c7ob01197k. Epub 2017 Jun 22.

PMID:
28639674
9.

pH Sensing Properties of Flexible, Bias-Free Graphene Microelectrodes in Complex Fluids: From Phosphate Buffer Solution to Human Serum.

Ping J, Blum JE, Vishnubhotla R, Vrudhula A, Naylor CH, Gao Z, Saven JG, Johnson ATC.

Small. 2017 Aug;13(30). doi: 10.1002/smll.201700564. Epub 2017 Jun 14.

10.

Improving target amino acid selectivity in a permissive aminoacyl tRNA synthetase through counter-selection.

Sungwienwong I, Hostetler ZM, Blizzard RJ, Porter JJ, Driggers CM, Mbengi LZ, Villegas JA, Speight LC, Saven JG, Perona JJ, Kohli RM, Mehl RA, Petersson EJ.

Org Biomol Chem. 2017 May 3;15(17):3603-3610. doi: 10.1039/c7ob00582b.

11.

Computationally designed peptides for self-assembly of nanostructured lattices.

Zhang HV, Polzer F, Haider MJ, Tian Y, Villegas JA, Kiick KL, Pochan DJ, Saven JG.

Sci Adv. 2016 Sep 9;2(9):e1600307. doi: 10.1126/sciadv.1600307. eCollection 2016 Sep.

12.

Scalable Production of Molybdenum Disulfide Based Biosensors.

Naylor CH, Kybert NJ, Schneier C, Xi J, Romero G, Saven JG, Liu R, Johnson AT.

ACS Nano. 2016 Jun 28;10(6):6173-9. doi: 10.1021/acsnano.6b02137. Epub 2016 Jun 15.

13.

Photoinduced Electron Transfer Elicits a Change in the Static Dielectric Constant of a de Novo Designed Protein.

Polizzi NF, Eibling MJ, Perez-Aguilar JM, Rawson J, Lanci CJ, Fry HC, Beratan DN, Saven JG, Therien MJ.

J Am Chem Soc. 2016 Feb 24;138(7):2130-3. doi: 10.1021/jacs.5b13180. Epub 2016 Feb 11.

14.

Quantifying the effect of ionic screening with protein-decorated graphene transistors.

Ping J, Xi J, Saven JG, Liu R, Johnson ATC.

Biosens Bioelectron. 2017 Mar 15;89(Pt 1):689-692. doi: 10.1016/j.bios.2015.11.052. Epub 2015 Nov 19.

15.

Xe affinities of water-soluble cryptophanes and the role of confined water.

Gao L, Liu W, Lee OS, Dmochowski IJ, Saven JG.

Chem Sci. 2015 Dec 1;6(12):7238-7248. doi: 10.1039/c5sc02401c. Epub 2015 Sep 22.

16.

Observing Changes in the Structure and Oligomerization State of a Helical Protein Dimer Using Solid-State Nanopores.

Niedzwiecki DJ, Lanci CJ, Shemer G, Cheng PS, Saven JG, Drndić M.

ACS Nano. 2015 Sep 22;9(9):8907-15. doi: 10.1021/acsnano.5b02714. Epub 2015 Aug 17.

PMID:
26262433
17.

Molecular recognition of ketamine by a subset of olfactory G protein-coupled receptors.

Ho J, Perez-Aguilar JM, Gao L, Saven JG, Matsunami H, Eckenhoff RG.

Sci Signal. 2015 Mar 31;8(370):ra33. doi: 10.1126/scisignal.2005912.

18.

Engineering complementary hydrophobic interactions to control β-hairpin peptide self-assembly, network branching, and hydrogel properties.

Sathaye S, Zhang H, Sonmez C, Schneider JP, MacDermaid CM, Von Bargen CD, Saven JG, Pochan DJ.

Biomacromolecules. 2014 Nov 10;15(11):3891-900. doi: 10.1021/bm500874t. Epub 2014 Oct 17.

PMID:
25251904
19.

Tribute to James L. Skinner.

Corcelli SA, Laird BB, Saven JG, Schmidt JR.

J Phys Chem B. 2014 Jul 17;118(28):7669-70. doi: 10.1021/jp5035486. No abstract available.

PMID:
25031097
20.

Characterization of a computationally designed water-soluble human μ-opioid receptor variant using available structural information.

Zhao X, Perez-Aguilar JM, Matsunaga F, Lerner M, Xi J, Selling B, Johnson AT Jr, Saven JG, Liu R.

Anesthesiology. 2014 Oct;121(4):866-75. doi: 10.1097/ALN.0000000000000308.

21.

Scalable production of highly sensitive nanosensors based on graphene functionalized with a designed G protein-coupled receptor.

Lerner MB, Matsunaga F, Han GH, Hong SJ, Xi J, Crook A, Perez-Aguilar JM, Park YW, Saven JG, Liu R, Johnson AT.

Nano Lett. 2014 May 14;14(5):2709-14. doi: 10.1021/nl5006349. Epub 2014 Apr 21.

22.

Molecular interactions between general anesthetics and the 5HT2B receptor.

Matsunaga F, Gao L, Huang XP, Saven JG, Roth BL, Liu R.

J Biomol Struct Dyn. 2015;33(1):211-8. doi: 10.1080/07391102.2013.869483. Epub 2013 Dec 23.

23.

Single-handed helical wrapping of single-walled carbon nanotubes by chiral, ionic, semiconducting polymers.

Deria P, Von Bargen CD, Olivier JH, Kumbhar AS, Saven JG, Therien MJ.

J Am Chem Soc. 2013 Oct 30;135(43):16220-34. doi: 10.1021/ja408430v. Epub 2013 Oct 21.

PMID:
24070370
24.

Origins of the helical wrapping of phenyleneethynylene polymers about single-walled carbon nanotubes.

Von Bargen CD, MacDermaid CM, Lee OS, Deria P, Therien MJ, Saven JG.

J Phys Chem B. 2013 Oct 24;117(42):12953-65. doi: 10.1021/jp402140t. Epub 2013 Aug 14.

PMID:
23941695
25.

Computational de novo design and characterization of a protein that selectively binds a highly hyperpolarizable abiological chromophore.

Fry HC, Lehmann A, Sinks LE, Asselberghs I, Tronin A, Krishnan V, Blasie JK, Clays K, DeGrado WF, Saven JG, Therien MJ.

J Am Chem Soc. 2013 Sep 18;135(37):13914-26. doi: 10.1021/ja4067404. Epub 2013 Sep 5.

26.

A computationally designed water-soluble variant of a G-protein-coupled receptor: the human mu opioid receptor.

Perez-Aguilar JM, Xi J, Matsunaga F, Cui X, Selling B, Saven JG, Liu R.

PLoS One. 2013 Jun 14;8(6):e66009. doi: 10.1371/journal.pone.0066009. Print 2013.

27.
28.

Knowledge-based potential for positioning membrane-associated structures and assessing residue-specific energetic contributions.

Schramm CA, Hannigan BT, Donald JE, Keasar C, Saven JG, Degrado WF, Samish I.

Structure. 2012 May 9;20(5):924-35. doi: 10.1016/j.str.2012.03.016.

29.

Computational design of a protein crystal.

Lanci CJ, MacDermaid CM, Kang SG, Acharya R, North B, Yang X, Qiu XJ, DeGrado WF, Saven JG.

Proc Natl Acad Sci U S A. 2012 May 8;109(19):7304-9. doi: 10.1073/pnas.1112595109. Epub 2012 Apr 25.

30.

Binding site and affinity prediction of general anesthetics to protein targets using docking.

Liu R, Perez-Aguilar JM, Liang D, Saven JG.

Anesth Analg. 2012 May;114(5):947-55. doi: 10.1213/ANE.0b013e31824c4def. Epub 2012 Mar 5.

31.

Computational design of membrane proteins.

Perez-Aguilar JM, Saven JG.

Structure. 2012 Jan 11;20(1):5-14. doi: 10.1016/j.str.2011.12.003. Review.

32.

NMR structure and dynamics of a designed water-soluble transmembrane domain of nicotinic acetylcholine receptor.

Cui T, Mowrey D, Bondarenko V, Tillman T, Ma D, Landrum E, Perez-Aguilar JM, He J, Wang W, Saven JG, Eckenhoff RG, Tang P, Xu Y.

Biochim Biophys Acta. 2012 Mar;1818(3):617-26. doi: 10.1016/j.bbamem.2011.11.021. Epub 2011 Dec 3.

33.

Opioid binding sites in human serum albumin.

Zhou R, Perez-Aguilar JM, Meng Q, Saven JG, Liu R.

Anesth Analg. 2012 Jan;114(1):122-8. doi: 10.1213/ANE.0b013e318232e922. Epub 2011 Oct 24.

PMID:
22025496
34.

Computational protein design to reengineer stromal cell-derived factor-1α generates an effective and translatable angiogenic polypeptide analog.

Hiesinger W, Perez-Aguilar JM, Atluri P, Marotta NA, Frederick JR, Fitzpatrick JR 3rd, McCormick RC, Muenzer JR, Yang EC, Levit RD, Yuan LJ, Macarthur JW, Saven JG, Woo YJ.

Circulation. 2011 Sep 13;124(11 Suppl):S18-26. doi: 10.1161/CIRCULATIONAHA.110.009431.

35.

Computational design and selections for an engineered, thermostable terpene synthase.

Diaz JE, Lin CS, Kunishiro K, Feld BK, Avrantinis SK, Bronson J, Greaves J, Saven JG, Weiss GA.

Protein Sci. 2011 Sep;20(9):1597-606. doi: 10.1002/pro.691. Epub 2011 Aug 2.

36.
37.

An induced fit mechanism regulates p53 DNA binding kinetics to confer sequence specificity.

Petty TJ, Emamzadah S, Costantino L, Petkova I, Stavridi ES, Saven JG, Vauthey E, Halazonetis TD.

EMBO J. 2011 Jun 1;30(11):2167-76. doi: 10.1038/emboj.2011.127. Epub 2011 Apr 26.

38.

Computational protein design: engineering molecular diversity, nonnatural enzymes, nonbiological cofactor complexes, and membrane proteins.

Saven JG.

Curr Opin Chem Biol. 2011 Jun;15(3):452-7. doi: 10.1016/j.cbpa.2011.03.014. Epub 2011 Apr 12. Review.

39.

Multiple hindered rotators in a gyroscope-inspired tribenzylamine hemicryptophane.

Khan NS, Perez-Aguilar JM, Kaufmann T, Hill PA, Taratula O, Lee OS, Carroll PJ, Saven JG, Dmochowski IJ.

J Org Chem. 2011 Mar 4;76(5):1418-24. doi: 10.1021/jo102480s. Epub 2011 Jan 27.

40.

Theoretical and computational protein design.

Samish I, MacDermaid CM, Perez-Aguilar JM, Saven JG.

Annu Rev Phys Chem. 2011;62:129-49. doi: 10.1146/annurev-physchem-032210-103509. Review.

PMID:
21128762
41.

Highly tunable photoluminescent properties of amphiphilic conjugated block copolymers.

Park SJ, Kang SG, Fryd M, Saven JG, Park SJ.

J Am Chem Soc. 2010 Jul 28;132(29):9931-3. doi: 10.1021/ja1004569.

PMID:
20608674
42.

Computational design and elaboration of a de novo heterotetrameric alpha-helical protein that selectively binds an emissive abiological (porphinato)zinc chromophore.

Fry HC, Lehmann A, Saven JG, DeGrado WF, Therien MJ.

J Am Chem Soc. 2010 Mar 24;132(11):3997-4005. doi: 10.1021/ja907407m.

43.

Identification of the active form of endothelial lipase, a homodimer in a head-to-tail conformation.

Griffon N, Jin W, Petty TJ, Millar J, Badellino KO, Saven JG, Marchadier DH, Kempner ES, Billheimer J, Glick JM, Rader DJ.

J Biol Chem. 2009 Aug 28;284(35):23322-30. doi: 10.1074/jbc.M109.037002. Epub 2009 Jun 30.

44.

Magneto-structural relationships for radical cation and neutral pyridinophane structures with intrabridgehead nitrogen atoms. An integrated experimental and quantum mechanical study.

Williams F, Chen GF, Mattar SM, Scudder PH, Trieber DA, Saven JG, Whritenour DC, Cimino P, Barone V.

J Phys Chem B. 2009 Jul 2;113(26):9026-34. doi: 10.1021/jp902493e.

PMID:
19507811
45.

Evolutionary constraints on structural similarity in orthologs and paralogs.

Peterson ME, Chen F, Saven JG, Roos DS, Babbitt PC, Sali A.

Protein Sci. 2009 Jun;18(6):1306-15. doi: 10.1002/pro.143.

46.

Characterization of the cofactor-induced folding mechanism of a zinc-binding peptide using computationally designed mutants.

Tang J, Kang SG, Saven JG, Gai F.

J Mol Biol. 2009 May 29;389(1):90-102. doi: 10.1016/j.jmb.2009.03.074. Epub 2009 Apr 8.

47.

Helical wrapping of single-walled carbon nanotubes by water soluble poly(p-phenyleneethynylene).

Kang YK, Lee OS, Deria P, Kim SH, Park TH, Bonnell DA, Saven JG, Therien MJ.

Nano Lett. 2009 Apr;9(4):1414-8. doi: 10.1021/nl8032334.

PMID:
19281229
48.

Directing noble metal ion chemistry within a designed ferritin protein.

Butts CA, Swift J, Kang SG, Di Costanzo L, Christianson DW, Saven JG, Dmochowski IJ.

Biochemistry. 2008 Dec 2;47(48):12729-39. doi: 10.1021/bi8016735.

PMID:
18991401
49.

Using alpha-helical coiled-coils to design nanostructured metalloporphyrin arrays.

McAllister KA, Zou H, Cochran FV, Bender GM, Senes A, Fry HC, Nanda V, Keenan PA, Lear JD, Saven JG, Therien MJ, Blasie JK, DeGrado WF.

J Am Chem Soc. 2008 Sep 10;130(36):11921-7. doi: 10.1021/ja800697g. Epub 2008 Aug 19.

50.

Structural coupling between FKBP12 and buried water.

Szep S, Park S, Boder ET, Van Duyne GD, Saven JG.

Proteins. 2009 Feb 15;74(3):603-11. doi: 10.1002/prot.22176.

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