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Items: 1 to 50 of 128

1.

The structural basis for membrane assembly of immunoreceptor signalling complexes.

Dube N, Marzinek JK, Glen RC, Bond PJ.

J Mol Model. 2019 Aug 27;25(9):277. doi: 10.1007/s00894-019-4165-6.

PMID:
31456056
2.

Multiscale modeling of innate immune receptors: Endotoxin recognition and regulation by host defense peptides.

Holdbrook DA, Huber RG, Marzinek JK, Stubbusch A, Schmidtchen A, Bond PJ.

Pharmacol Res. 2019 Sep;147:104372. doi: 10.1016/j.phrs.2019.104372. Epub 2019 Jul 24. Review.

PMID:
31351116
3.

A T164S mutation in the dengue virus NS1 protein is associated with greater disease severity in mice.

Chan KWK, Watanabe S, Jin JY, Pompon J, Teng D, Alonso S, Vijaykrishna D, Halstead SB, Marzinek JK, Bond PJ, Burla B, Torta F, Wenk MR, Ooi EE, Vasudevan SG.

Sci Transl Med. 2019 Jun 26;11(498). pii: eaat7726. doi: 10.1126/scitranslmed.aat7726.

PMID:
31243154
4.

Multiscale Modeling and Simulation Approaches to Lipid-Protein Interactions.

Huber RG, Carpenter TS, Dube N, Holdbrook DA, Ingólfsson HI, Irvine WA, Marzinek JK, Samsudin F, Allison JR, Khalid S, Bond PJ.

Methods Mol Biol. 2019;2003:1-30. doi: 10.1007/978-1-4939-9512-7_1.

PMID:
31218611
5.

Structure and subunit arrangement of Mycobacterial F1FO ATP synthase and novel features of the unique mycobacterial subunit δ.

Kamariah N, Huber RG, Nartey W, Bhushan S, Bond PJ, Grüber G.

J Struct Biol. 2019 Aug 1;207(2):199-208. doi: 10.1016/j.jsb.2019.05.008. Epub 2019 May 24.

PMID:
31132404
6.

Structure mapping of dengue and Zika viruses reveals functional long-range interactions.

Huber RG, Lim XN, Ng WC, Sim AYL, Poh HX, Shen Y, Lim SY, Sundstrom KB, Sun X, Aw JG, Too HK, Boey PH, Wilm A, Chawla T, Choy MM, Jiang L, de Sessions PF, Loh XJ, Alonso S, Hibberd M, Nagarajan N, Ooi EE, Bond PJ, Sessions OM, Wan Y.

Nat Commun. 2019 Mar 29;10(1):1408. doi: 10.1038/s41467-019-09391-8.

7.

Insights into water accessible pathways and the inactivation mechanism of proton translocation by the membrane-embedded domain of V-type ATPases.

Krah A, Marzinek JK, Bond PJ.

Biochim Biophys Acta Biomembr. 2019 May 1;1861(5):1004-1010. doi: 10.1016/j.bbamem.2019.02.010. Epub 2019 Mar 1.

PMID:
30831075
8.

The disordered plant dehydrin Lti30 protects the membrane during water-related stress by cross-linking lipids.

Gupta A, Marzinek JK, Jefferies D, Bond PJ, Harryson P, Wohland T.

J Biol Chem. 2019 Apr 19;294(16):6468-6482. doi: 10.1074/jbc.RA118.007163. Epub 2019 Feb 28.

PMID:
30819802
9.

Infectivity of Dengue Virus Serotypes 1 and 2 Is Correlated with E-Protein Intrinsic Dynamics but Not to Envelope Conformations.

Sharma KK, Lim XX, Tantirimudalige SN, Gupta A, Marzinek JK, Holdbrook D, Lim XYE, Bond PJ, Anand GS, Wohland T.

Structure. 2019 Apr 2;27(4):618-630.e4. doi: 10.1016/j.str.2018.12.006. Epub 2019 Jan 24.

PMID:
30686666
10.

Directing GDNF-mediated neuronal signaling with proactively programmable cell-surface saccharide-free glycosaminoglycan mimetics.

Cai S, Lukamto DH, Toh JKC, Huber RG, Bond PJ, Jee JE, Lim TC, Liu P, Chen L, Qu QV, Lee SS, Lee SG.

Chem Commun (Camb). 2019 Jan 24;55(9):1259-1262. doi: 10.1039/c8cc09253b.

PMID:
30632548
11.

Energetic Fingerprinting of Ligand Binding to Paralogous Proteins: The Case of the Apoptotic Pathway.

Ivanov SM, Huber RG, Alibay I, Warwicker J, Bond PJ.

J Chem Inf Model. 2019 Jan 28;59(1):245-261. doi: 10.1021/acs.jcim.8b00765. Epub 2019 Jan 9.

PMID:
30582811
12.

Engineering an Osmosensor by Pivotal Histidine Positioning within Disordered Helices.

Ghosh M, Wang LC, Huber RG, Gao Y, Morgan LK, Tulsian NK, Bond PJ, Kenney LJ, Anand GS.

Structure. 2019 Feb 5;27(2):302-314.e4. doi: 10.1016/j.str.2018.10.012. Epub 2018 Nov 29.

PMID:
30503779
13.

Mechanism of Enhanced Immature Dengue Virus Attachment to Endosomal Membrane Induced by prM Antibody.

Wirawan M, Fibriansah G, Marzinek JK, Lim XX, Ng TS, Sim AYL, Zhang Q, Kostyuchenko VA, Shi J, Smith SA, Verma CS, Anand G, Crowe JE Jr, Bond PJ, Lok SM.

Structure. 2019 Feb 5;27(2):253-267.e8. doi: 10.1016/j.str.2018.10.009. Epub 2018 Nov 21.

PMID:
30471923
14.

Facile saccharide-free mimetics that recapitulate key features of glycosaminoglycan sulfation patterns.

Lim TC, Cai S, Huber RG, Bond PJ, Siew Chia PX, Khou SL, Gao S, Lee SS, Lee SG.

Chem Sci. 2018 Aug 24;9(41):7940-7947. doi: 10.1039/c8sc02303d. eCollection 2018 Nov 7.

15.

Single-molecule studies of flavivirus envelope dynamics: Experiment and computation.

Sharma KK, Marzinek JK, Tantirimudalige SN, Bond PJ, Wohland T.

Prog Biophys Mol Biol. 2019 May;143:38-51. doi: 10.1016/j.pbiomolbio.2018.09.001. Epub 2018 Sep 14. Review.

PMID:
30223001
16.

Single mutations in the ε subunit from thermophilic Bacillus PS3 generate a high binding affinity site for ATP.

Krah A, Bond PJ.

PeerJ. 2018 Sep 5;6:e5505. doi: 10.7717/peerj.5505. eCollection 2018.

17.

Structural basis for endotoxin neutralisation and anti-inflammatory activity of thrombin-derived C-terminal peptides.

Saravanan R, Holdbrook DA, Petrlova J, Singh S, Berglund NA, Choong YK, Kjellström S, Bond PJ, Malmsten M, Schmidtchen A.

Nat Commun. 2018 Jul 17;9(1):2762. doi: 10.1038/s41467-018-05242-0.

18.

Influence of pH on the activity of thrombin-derived antimicrobial peptides.

Holdbrook DA, Singh S, Choong YK, Petrlova J, Malmsten M, Bond PJ, Verma NK, Schmidtchen A, Saravanan R.

Biochim Biophys Acta Biomembr. 2018 Nov;1860(11):2374-2384. doi: 10.1016/j.bbamem.2018.06.002. Epub 2018 Jun 6.

PMID:
29885294
19.

A Funneled Conformational Landscape Governs Flavivirus Fusion Peptide Interaction with Lipid Membranes.

Marzinek JK, Bag N, Huber RG, Holdbrook DA, Wohland T, Verma CS, Bond PJ.

J Chem Theory Comput. 2018 Jul 10;14(7):3920-3932. doi: 10.1021/acs.jctc.8b00438. Epub 2018 Jun 20.

PMID:
29874075
20.

The architecture of the OmpC-MlaA complex sheds light on the maintenance of outer membrane lipid asymmetry in Escherichia coli.

Yeow J, Tan KW, Holdbrook DA, Chong ZS, Marzinek JK, Bond PJ, Chng SS.

J Biol Chem. 2018 Jul 20;293(29):11325-11340. doi: 10.1074/jbc.RA118.002441. Epub 2018 May 30.

21.

Partial Intrinsic Disorder Governs the Dengue Capsid Protein Conformational Ensemble.

Boon PLS, Saw WG, Lim XX, Raghuvamsi PV, Huber RG, Marzinek JK, Holdbrook DA, Anand GS, Grüber G, Bond PJ.

ACS Chem Biol. 2018 Jun 15;13(6):1621-1630. doi: 10.1021/acschembio.8b00231. Epub 2018 Jun 5.

PMID:
29792674
22.

A Thermodynamic Funnel Drives Bacterial Lipopolysaccharide Transfer in the TLR4 Pathway.

Huber RG, Berglund NA, Kargas V, Marzinek JK, Holdbrook DA, Khalid S, Piggot TJ, Schmidtchen A, Bond PJ.

Structure. 2018 Aug 7;26(8):1151-1161.e4. doi: 10.1016/j.str.2018.04.007. Epub 2018 May 17.

23.

Evidence that TLR4 Is Not a Receptor for Saturated Fatty Acids but Mediates Lipid-Induced Inflammation by Reprogramming Macrophage Metabolism.

Lancaster GI, Langley KG, Berglund NA, Kammoun HL, Reibe S, Estevez E, Weir J, Mellett NA, Pernes G, Conway JRW, Lee MKS, Timpson P, Murphy AJ, Masters SL, Gerondakis S, Bartonicek N, Kaczorowski DC, Dinger ME, Meikle PJ, Bond PJ, Febbraio MA.

Cell Metab. 2018 May 1;27(5):1096-1110.e5. doi: 10.1016/j.cmet.2018.03.014. Epub 2018 Apr 19.

24.

An Optical Technique for Mapping Microviscosity Dynamics in Cellular Organelles.

Chambers JE, Kubánková M, Huber RG, López-Duarte I, Avezov E, Bond PJ, Marciniak SJ, Kuimova MK.

ACS Nano. 2018 May 22;12(5):4398-4407. doi: 10.1021/acsnano.8b00177. Epub 2018 Apr 18.

25.

Activation of Toll-like receptors nucleates assembly of the MyDDosome signaling hub.

Latty SL, Sakai J, Hopkins L, Verstak B, Paramo T, Berglund NA, Cammarota E, Cicuta P, Gay NJ, Bond PJ, Klenerman D, Bryant CE.

Elife. 2018 Jan 24;7. pii: e31377. doi: 10.7554/eLife.31377.

26.

Protein-protein interactions in paralogues: Electrostatics modulates specificity on a conserved steric scaffold.

Ivanov SM, Cawley A, Huber RG, Bond PJ, Warwicker J.

PLoS One. 2017 Oct 10;12(10):e0185928. doi: 10.1371/journal.pone.0185928. eCollection 2017.

27.

Editorial.

Bond PJ, Verma CS.

Prog Biophys Mol Biol. 2017 Sep;128:1-2. doi: 10.1016/j.pbiomolbio.2017.07.005. No abstract available.

PMID:
28743422
28.

A polar SxxS motif drives assembly of the transmembrane domains of Toll-like receptor 4.

Kargas V, Marzinek JK, Holdbrook DA, Yin H, Ford RC, Bond PJ.

Biochim Biophys Acta Biomembr. 2017 Oct;1859(10):2086-2095. doi: 10.1016/j.bbamem.2017.07.010. Epub 2017 Jul 22.

29.

Systematic analysis of protein identity between Zika virus and other arthropod-borne viruses.

Chang HH, Huber RG, Bond PJ, Grad YH, Camerini D, Maurer-Stroh S, Lipsitch M.

Bull World Health Organ. 2017 Jul 1;95(7):517-525I. doi: 10.2471/BLT.16.182105. Epub 2016 Jul 18.

30.

A Spring-Loaded Mechanism Governs the Clamp-like Dynamics of the Skp Chaperone.

Holdbrook DA, Burmann BM, Huber RG, Petoukhov MV, Svergun DI, Hiller S, Bond PJ.

Structure. 2017 Jul 5;25(7):1079-1088.e3. doi: 10.1016/j.str.2017.05.018. Epub 2017 Jun 22.

31.

Aggregation of thrombin-derived C-terminal fragments as a previously undisclosed host defense mechanism.

Petrlova J, Hansen FC, van der Plas MJA, Huber RG, Mörgelin M, Malmsten M, Bond PJ, Schmidtchen A.

Proc Natl Acad Sci U S A. 2017 May 23;114(21):E4213-E4222. doi: 10.1073/pnas.1619609114. Epub 2017 May 4.

32.

Progress in Molecular Dynamics Simulations of Gram-Negative Bacterial Cell Envelopes.

Boags A, Hsu PC, Samsudin F, Bond PJ, Khalid S.

J Phys Chem Lett. 2017 Jun 1;8(11):2513-2518. doi: 10.1021/acs.jpclett.7b00473. Epub 2017 May 22.

PMID:
28467715
33.

Full-length, Oligomeric Structure of Wzz Determined by Cryoelectron Microscopy Reveals Insights into Membrane-Bound States.

Collins RF, Kargas V, Clarke BR, Siebert CA, Clare DK, Bond PJ, Whitfield C, Ford RC.

Structure. 2017 May 2;25(5):806-815.e3. doi: 10.1016/j.str.2017.03.017. Epub 2017 Apr 20.

34.

Polar N-terminal Residues Conserved in Type 2 Secretion Pseudopilins Determine Subunit Targeting and Membrane Extraction Steps during Fibre Assembly.

Santos-Moreno J, East A, Guilvout I, Nadeau N, Bond PJ, Tran Van Nhieu G, Francetic O.

J Mol Biol. 2017 Jun 2;429(11):1746-1765. doi: 10.1016/j.jmb.2017.04.005. Epub 2017 Apr 17.

35.

Bioinformatics and systems biology research update from the 15th International Conference on Bioinformatics (InCoB2016).

Schönbach C, Verma C, Bond PJ, Ranganathan S.

BMC Bioinformatics. 2016 Dec 22;17(Suppl 19):524. doi: 10.1186/s12859-016-1409-7.

36.

2016 update on APBioNet's annual international conference on bioinformatics (InCoB).

Schönbach C, Verma C, Wee LJ, Bond PJ, Ranganathan S.

BMC Genomics. 2016 Dec 22;17(Suppl 13):1036. doi: 10.1186/s12864-016-3362-2.

37.

OmpA: A Flexible Clamp for Bacterial Cell Wall Attachment.

Samsudin F, Ortiz-Suarez ML, Piggot TJ, Bond PJ, Khalid S.

Structure. 2016 Dec 6;24(12):2227-2235. doi: 10.1016/j.str.2016.10.009. Epub 2016 Nov 17.

38.

Energetics and Dynamics Across the Bcl-2-Regulated Apoptotic Pathway Reveal Distinct Evolutionary Determinants of Specificity and Affinity.

Ivanov SM, Huber RG, Warwicker J, Bond PJ.

Structure. 2016 Nov 1;24(11):2024-2033. doi: 10.1016/j.str.2016.09.006. Epub 2016 Oct 20.

39.

Impairing Cohesin Smc1/3 Head Engagement Compensates for the Lack of Eco1 Function.

Huber RG, Kulemzina I, Ang K, Chavda AP, Suranthran S, Teh JT, Kenanov D, Liu G, Rancati G, Szmyd R, Kaldis P, Bond PJ, Ivanov D.

Structure. 2016 Nov 1;24(11):1991-1999. doi: 10.1016/j.str.2016.09.001. Epub 2016 Sep 29.

40.

Multiscale molecular dynamics simulation approaches to the structure and dynamics of viruses.

Huber RG, Marzinek JK, Holdbrook DA, Bond PJ.

Prog Biophys Mol Biol. 2017 Sep;128:121-132. doi: 10.1016/j.pbiomolbio.2016.09.010. Epub 2016 Oct 17. Review.

PMID:
27765545
41.

Full-Length OmpA: Structure, Function, and Membrane Interactions Predicted by Molecular Dynamics Simulations.

Ortiz-Suarez ML, Samsudin F, Piggot TJ, Bond PJ, Khalid S.

Biophys J. 2016 Oct 18;111(8):1692-1702. doi: 10.1016/j.bpj.2016.09.009.

42.

Hydrocarbons Are Essential for Optimal Cell Size, Division, and Growth of Cyanobacteria.

Lea-Smith DJ, Ortiz-Suarez ML, Lenn T, Nürnberg DJ, Baers LL, Davey MP, Parolini L, Huber RG, Cotton CA, Mastroianni G, Bombelli P, Ungerer P, Stevens TJ, Smith AG, Bond PJ, Mullineaux CW, Howe CJ.

Plant Physiol. 2016 Nov;172(3):1928-1940. Epub 2016 Oct 5.

43.

The severity of hereditary porphyria is modulated by the porphyrin exporter and Lan antigen ABCB6.

Fukuda Y, Cheong PL, Lynch J, Brighton C, Frase S, Kargas V, Rampersaud E, Wang Y, Sankaran VG, Yu B, Ney PA, Weiss MJ, Vogel P, Bond PJ, Ford RC, Trent RJ, Schuetz JD.

Nat Commun. 2016 Aug 10;7:12353. doi: 10.1038/ncomms12353.

44.

Pushing the Envelope: Dengue Viral Membrane Coaxed into Shape by Molecular Simulations.

Marzinek JK, Holdbrook DA, Huber RG, Verma C, Bond PJ.

Structure. 2016 Aug 2;24(8):1410-1420. doi: 10.1016/j.str.2016.05.014. Epub 2016 Jul 7.

45.

Dynamics of Crowded Vesicles: Local and Global Responses to Membrane Composition.

Holdbrook DA, Huber RG, Piggot TJ, Bond PJ, Khalid S.

PLoS One. 2016 Jun 16;11(6):e0156963. doi: 10.1371/journal.pone.0156963. eCollection 2016.

46.

Selective inhibitors of trypanosomal uridylyl transferase RET1 establish druggability of RNA post-transcriptional modifications.

Cording A, Gormally M, Bond PJ, Carrington M, Balasubramanian S, Miska EA, Thomas B.

RNA Biol. 2017 May 4;14(5):611-619. doi: 10.1080/15476286.2015.1137422. Epub 2016 Jan 20.

47.

Characterizing the Conformational Landscape of Flavivirus Fusion Peptides via Simulation and Experiment.

Marzinek JK, Lakshminarayanan R, Goh E, Huber RG, Panzade S, Verma C, Bond PJ.

Sci Rep. 2016 Jan 20;6:19160. doi: 10.1038/srep19160.

48.

Structural Basis of Pullulanase Membrane Binding and Secretion Revealed by X-Ray Crystallography, Molecular Dynamics and Biochemical Analysis.

East A, Mechaly AE, Huysmans GHM, Bernarde C, Tello-Manigne D, Nadeau N, Pugsley AP, Buschiazzo A, Alzari PM, Bond PJ, Francetic O.

Structure. 2016 Jan 5;24(1):92-104. doi: 10.1016/j.str.2015.10.023. Epub 2015 Dec 10.

49.

The Structural Basis for Lipid and Endotoxin Binding in RP105-MD-1, and Consequences for Regulation of Host Lipopolysaccharide Sensitivity.

Ortiz-Suarez ML, Bond PJ.

Structure. 2016 Jan 5;24(1):200-211. doi: 10.1016/j.str.2015.10.021. Epub 2015 Dec 3.

50.

Energetics of Endotoxin Recognition in the Toll-Like Receptor 4 Innate Immune Response.

Paramo T, Tomasio SM, Irvine KL, Bryant CE, Bond PJ.

Sci Rep. 2015 Dec 9;5:17997. doi: 10.1038/srep17997.

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