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Items: 1 to 50 of 335

1.

SignalP 5.0 improves signal peptide predictions using deep neural networks.

Almagro Armenteros JJ, Tsirigos KD, Sønderby CK, Petersen TN, Winther O, Brunak S, von Heijne G, Nielsen H.

Nat Biotechnol. 2019 Feb 18. doi: 10.1038/s41587-019-0036-z. [Epub ahead of print]

PMID:
30778233
2.

Force-Profile Analysis of the Cotranslational Folding of HemK and Filamin Domains: Comparison of Biochemical and Biophysical Folding Assays.

Kemp G, Kudva R, de la Rosa A, von Heijne G.

J Mol Biol. 2019 Mar 15;431(6):1308-1314. doi: 10.1016/j.jmb.2019.01.043. Epub 2019 Feb 7.

PMID:
30738895
3.

Murine astrotactins 1 and 2 have similar membrane topology and mature via endoproteolytic cleavage catalyzed by signal peptidase.

Lara P, Tellgren-Roth Å Jr, Behesti H, Horn Z, Schiller N, Enquist K, Cammenberg M, Liljenström A, Hatten ME, von Heijne G, Nilsson I.

J Biol Chem. 2019 Jan 29. pii: jbc.RA118.007093. doi: 10.1074/jbc.RA118.007093. [Epub ahead of print]

4.

Cotranslational Folding of a Pentarepeat β-Helix Protein.

Notari L, Martínez-Carranza M, Farías-Rico JA, Stenmark P, von Heijne G.

J Mol Biol. 2018 Dec 7;430(24):5196-5206. doi: 10.1016/j.jmb.2018.10.016. Epub 2018 Oct 27.

PMID:
30539762
5.

Transmembrane but not soluble helices fold inside the ribosome tunnel.

Bañó-Polo M, Baeza-Delgado C, Tamborero S, Hazel A, Grau B, Nilsson I, Whitley P, Gumbart JC, von Heijne G, Mingarro I.

Nat Commun. 2018 Dec 7;9(1):5246. doi: 10.1038/s41467-018-07554-7.

6.

The shape of the bacterial ribosome exit tunnel affects cotranslational protein folding.

Kudva R, Tian P, Pardo-Avila F, Carroni M, Best RB, Bernstein HD, von Heijne G.

Elife. 2018 Nov 26;7. pii: e36326. doi: 10.7554/eLife.36326.

7.

Folding pathway of an Ig domain is conserved on and off the ribosome.

Tian P, Steward A, Kudva R, Su T, Shilling PJ, Nickson AA, Hollins JJ, Beckmann R, von Heijne G, Clarke J, Best RB.

Proc Natl Acad Sci U S A. 2018 Nov 27;115(48):E11284-E11293. doi: 10.1073/pnas.1810523115. Epub 2018 Nov 9.

8.

Forces on Nascent Polypeptides during Membrane Insertion and Translocation via the Sec Translocon.

Niesen MJM, Müller-Lucks A, Hedman R, von Heijne G, Miller TF 3rd.

Biophys J. 2018 Nov 20;115(10):1885-1894. doi: 10.1016/j.bpj.2018.10.002. Epub 2018 Oct 10.

PMID:
30366631
9.

Effects of protein size, thermodynamic stability, and net charge on cotranslational folding on the ribosome.

Farías-Rico JA, Ruud Selin F, Myronidi I, Frühauf M, von Heijne G.

Proc Natl Acad Sci U S A. 2018 Oct 2;115(40):E9280-E9287. doi: 10.1073/pnas.1812756115. Epub 2018 Sep 17.

PMID:
30224455
10.

Direct Detection of Membrane-Inserting Fragments Defines the Translocation Pores of a Family of Pathogenic Toxins.

Orrell KE, Tellgren-Roth Å, Di Bernardo M, Zhang Z, Cuviello F, Lundqvist J, von Heijne G, Nilsson I, Melnyk RA.

J Mol Biol. 2018 Sep 14;430(18 Pt B):3190-3199. doi: 10.1016/j.jmb.2018.07.001. Epub 2018 Jul 7.

PMID:
29990469
11.

Protein Evolution and Design.

von Heijne G.

Annu Rev Biochem. 2018 Jun 20;87:101-103. doi: 10.1146/annurev-biochem-062917-012013.

PMID:
29925266
12.

Membrane protein serendipity.

von Heijne G.

J Biol Chem. 2018 Mar 9;293(10):3470-3476. doi: 10.1074/jbc.X118.001958.

13.

Structure and topology around the cleavage site regulate post-translational cleavage of the HIV-1 gp160 signal peptide.

Snapp EL, McCaul N, Quandte M, Cabartova Z, Bontjer I, Källgren C, Nilsson I, Land A, von Heijne G, Sanders RW, Braakman I.

Elife. 2017 Jul 28;6. pii: e26067. doi: 10.7554/eLife.26067.

14.

Stable membrane orientations of small dual-topology membrane proteins.

Fluman N, Tobiasson V, von Heijne G.

Proc Natl Acad Sci U S A. 2017 Jul 25;114(30):7987-7992. doi: 10.1073/pnas.1706905114. Epub 2017 Jul 11.

15.

The force-sensing peptide VemP employs extreme compaction and secondary structure formation to induce ribosomal stalling.

Su T, Cheng J, Sohmen D, Hedman R, Berninghausen O, von Heijne G, Wilson DN, Beckmann R.

Elife. 2017 May 30;6. pii: e25642. doi: 10.7554/eLife.25642.

16.

Gene Duplication Leads to Altered Membrane Topology of a Cytochrome P450 Enzyme in Seed Plants.

Renault H, De Marothy M, Jonasson G, Lara P, Nelson DR, Nilsson I, André F, von Heijne G, Werck-Reichhart D.

Mol Biol Evol. 2017 Aug 1;34(8):2041-2056. doi: 10.1093/molbev/msx160.

17.

Transmembrane helices containing a charged arginine are thermodynamically stable.

Ulmschneider MB, Ulmschneider JP, Freites JA, von Heijne G, Tobias DJ, White SH.

Eur Biophys J. 2017 Oct;46(7):627-637. doi: 10.1007/s00249-017-1206-x. Epub 2017 Apr 13.

18.

Cotranslational folding of spectrin domains via partially structured states.

Nilsson OB, Nickson AA, Hollins JJ, Wickles S, Steward A, Beckmann R, von Heijne G, Clarke J.

Nat Struct Mol Biol. 2017 Mar;24(3):221-225. doi: 10.1038/nsmb.3355. Epub 2017 Jan 23.

PMID:
28112730
19.

Mutational analysis of protein folding inside the ribosome exit tunnel.

Farías-Rico JA, Goetz SK, Marino J, von Heijne G.

FEBS Lett. 2017 Jan;591(1):155-163. doi: 10.1002/1873-3468.12504. Epub 2016 Dec 20.

20.

The topogenic function of S4 promotes membrane insertion of the voltage-sensor domain in the KvAP channel.

Mishima E, Sato Y, Nanatani K, Hoshi N, Lee JK, Schiller N, von Heijne G, Sakaguchi M, Uozumi N.

Biochem J. 2016 Dec 1;473(23):4361-4372. Epub 2016 Sep 30.

PMID:
27694387
21.

Hydrophobic Clusters Raise the Threshold Hydrophilicity for Insertion of Transmembrane Sequences in Vivo.

Stone TA, Schiller N, Workewych N, von Heijne G, Deber CM.

Biochemistry. 2016 Oct 11;55(40):5772-5779. Epub 2016 Sep 29.

PMID:
27620701
22.

Energetics of side-chain snorkeling in transmembrane helices probed by nonproteinogenic amino acids.

Öjemalm K, Higuchi T, Lara P, Lindahl E, Suga H, von Heijne G.

Proc Natl Acad Sci U S A. 2016 Sep 20;113(38):10559-64. doi: 10.1073/pnas.1606776113. Epub 2016 Sep 6.

23.

Global profiling of SRP interaction with nascent polypeptides.

Schibich D, Gloge F, Pöhner I, Björkholm P, Wade RC, von Heijne G, Bukau B, Kramer G.

Nature. 2016 Aug 11;536(7615):219-23. Epub 2016 Aug 3.

PMID:
27487212
24.

Coordinated disassembly of the divisome complex in Escherichia coli.

Söderström B, Mirzadeh K, Toddo S, von Heijne G, Skoglund U, Daley DO.

Mol Microbiol. 2016 Aug;101(3):425-38. doi: 10.1111/mmi.13400. Epub 2016 May 23.

25.

Biological insertion of computationally designed short transmembrane segments.

Baeza-Delgado C, von Heijne G, Marti-Renom MA, Mingarro I.

Sci Rep. 2016 Mar 18;6:23397. doi: 10.1038/srep23397.

26.

Trigger Factor Reduces the Force Exerted on the Nascent Chain by a Cotranslationally Folding Protein.

Nilsson OB, Müller-Lucks A, Kramer G, Bukau B, von Heijne G.

J Mol Biol. 2016 Mar 27;428(6):1356-1364. doi: 10.1016/j.jmb.2016.02.014. Epub 2016 Feb 18.

PMID:
26906929
27.

Small protein domains fold inside the ribosome exit tunnel.

Marino J, von Heijne G, Beckmann R.

FEBS Lett. 2016 Mar;590(5):655-60. doi: 10.1002/1873-3468.12098. Epub 2016 Feb 25.

28.

Cotranslational Protein Folding inside the Ribosome Exit Tunnel.

Nilsson OB, Hedman R, Marino J, Wickles S, Bischoff L, Johansson M, Müller-Lucks A, Trovato F, Puglisi JD, O'Brien EP, Beckmann R, von Heijne G.

Cell Rep. 2015 Sep 8;12(10):1533-40. doi: 10.1016/j.celrep.2015.07.065. Epub 2015 Aug 28.

29.

RIFINs are adhesins implicated in severe Plasmodium falciparum malaria.

Goel S, Palmkvist M, Moll K, Joannin N, Lara P, Akhouri RR, Moradi N, Öjemalm K, Westman M, Angeletti D, Kjellin H, Lehtiö J, Blixt O, Ideström L, Gahmberg CG, Storry JR, Hult AK, Olsson ML, von Heijne G, Nilsson I, Wahlgren M.

Nat Med. 2015 Apr;21(4):314-7. doi: 10.1038/nm.3812. Epub 2015 Mar 9.

PMID:
25751816
30.

Exploration of the arrest peptide sequence space reveals arrest-enhanced variants.

Cymer F, Hedman R, Ismail N, von Heijne G.

J Biol Chem. 2015 Apr 17;290(16):10208-15. doi: 10.1074/jbc.M115.641555. Epub 2015 Feb 24.

31.

Hydrophobic blocks facilitate lipid compatibility and translocon recognition of transmembrane protein sequences.

Stone TA, Schiller N, von Heijne G, Deber CM.

Biochemistry. 2015 Feb 24;54(7):1465-73. doi: 10.1021/bi5014886. Epub 2015 Feb 12.

32.

Proteomics. Tissue-based map of the human proteome.

Uhlén M, Fagerberg L, Hallström BM, Lindskog C, Oksvold P, Mardinoglu A, Sivertsson Å, Kampf C, Sjöstedt E, Asplund A, Olsson I, Edlund K, Lundberg E, Navani S, Szigyarto CA, Odeberg J, Djureinovic D, Takanen JO, Hober S, Alm T, Edqvist PH, Berling H, Tegel H, Mulder J, Rockberg J, Nilsson P, Schwenk JM, Hamsten M, von Feilitzen K, Forsberg M, Persson L, Johansson F, Zwahlen M, von Heijne G, Nielsen J, Pontén F.

Science. 2015 Jan 23;347(6220):1260419. doi: 10.1126/science.1260419.

33.

Charge-driven dynamics of nascent-chain movement through the SecYEG translocon.

Ismail N, Hedman R, Lindén M, von Heijne G.

Nat Struct Mol Biol. 2015 Feb;22(2):145-149. doi: 10.1038/nsmb.2940. Epub 2015 Jan 5.

34.

Differential repositioning of the second transmembrane helices from E. coli Tar and EnvZ upon moving the flanking aromatic residues.

Botelho SC, Enquist K, von Heijne G, Draheim RR.

Biochim Biophys Acta. 2015 Feb;1848(2):615-21. doi: 10.1016/j.bbamem.2014.11.017. Epub 2014 Nov 21.

35.

Thermodynamics of Membrane Insertion and Refolding of the Diphtheria Toxin T-Domain.

Vargas-Uribe M, Rodnin MV, Öjemalm K, Holgado A, Kyrychenko A, Nilsson I, Posokhov YO, Makhatadze G, von Heijne G, Ladokhin AS.

J Membr Biol. 2015 Jun;248(3):383-94. doi: 10.1007/s00232-014-9734-0. Epub 2014 Oct 4.

36.

Mechanisms of integral membrane protein insertion and folding.

Cymer F, von Heijne G, White SH.

J Mol Biol. 2015 Mar 13;427(5):999-1022. doi: 10.1016/j.jmb.2014.09.014. Epub 2014 Sep 30. Review.

37.

Spontaneous transmembrane helix insertion thermodynamically mimics translocon-guided insertion.

Ulmschneider MB, Ulmschneider JP, Schiller N, Wallace BA, von Heijne G, White SH.

Nat Commun. 2014 Sep 10;5:4863. doi: 10.1038/ncomms5863.

38.

Forcing the issue: aromatic tuning facilitates stimulus-independent modulation of a two-component signaling circuit.

Nørholm MH, von Heijne G, Draheim RR.

ACS Synth Biol. 2015 Apr 17;4(4):474-81. doi: 10.1021/sb500261t. Epub 2014 Sep 9.

39.

The code for directing proteins for translocation across ER membrane: SRP cotranslationally recognizes specific features of a signal sequence.

Nilsson I, Lara P, Hessa T, Johnson AE, von Heijne G, Karamyshev AL.

J Mol Biol. 2015 Mar 27;427(6 Pt A):1191-201. doi: 10.1016/j.jmb.2014.06.014. Epub 2014 Jun 28.

40.

Identification of novel sphingolipid-binding motifs in mammalian membrane proteins.

Björkholm P, Ernst AM, Hacke M, Wieland F, Brügger B, von Heijne G.

Biochim Biophys Acta. 2014 Aug;1838(8):2066-70. doi: 10.1016/j.bbamem.2014.04.026. Epub 2014 May 2.

41.

Large tilts in transmembrane helices can be induced during tertiary structure formation.

Virkki M, Boekel C, Illergård K, Peters C, Shu N, Tsirigos KD, Elofsson A, von Heijne G, Nilsson I.

J Mol Biol. 2014 Jun 26;426(13):2529-38. doi: 10.1016/j.jmb.2014.04.020. Epub 2014 Apr 30.

PMID:
24793448
42.

Weak pulling forces exerted on Nin-orientated transmembrane segments during co-translational insertion into the inner membrane of Escherichia coli.

Cymer F, Ismail N, von Heijne G.

FEBS Lett. 2014 May 21;588(10):1930-4. doi: 10.1016/j.febslet.2014.03.050. Epub 2014 Apr 12.

43.

Why have small multidrug resistance proteins not evolved into fused, internally duplicated structures?

Lloris-Garcerá P, Seppälä S, Slusky JS, Rapp M, von Heijne G.

J Mol Biol. 2014 May 29;426(11):2246-54. doi: 10.1016/j.jmb.2014.03.012. Epub 2014 Mar 30.

PMID:
24690367
44.

Disassembly of the divisome in Escherichia coli: evidence that FtsZ dissociates before compartmentalization.

Söderström B, Skoog K, Blom H, Weiss DS, von Heijne G, Daley DO.

Mol Microbiol. 2014 Apr;92(1):1-9. doi: 10.1111/mmi.12534. Epub 2014 Feb 20.

45.

Inefficient SRP interaction with a nascent chain triggers a mRNA quality control pathway.

Karamyshev AL, Patrick AE, Karamysheva ZN, Griesemer DS, Hudson H, Tjon-Kon-Sang S, Nilsson I, Otto H, Liu Q, Rospert S, von Heijne G, Johnson AE, Thomas PJ.

Cell. 2014 Jan 16;156(1-2):146-57. doi: 10.1016/j.cell.2013.12.017.

46.

A short C-terminal tail prevents mis-targeting of hydrophobic mitochondrial membrane proteins to the ER.

Reithinger JH, Yim C, Park K, Björkholm P, von Heijne G, Kim H.

FEBS Lett. 2013 Nov 1;587(21):3480-6. doi: 10.1016/j.febslet.2013.08.041. Epub 2013 Sep 18.

47.

Cotranslational folding of membrane proteins probed by arrest-peptide-mediated force measurements.

Cymer F, von Heijne G.

Proc Natl Acad Sci U S A. 2013 Sep 3;110(36):14640-5. doi: 10.1073/pnas.1306787110. Epub 2013 Aug 19.

48.

In vivo trp scanning of the small multidrug resistance protein EmrE confirms 3D structure models'.

Lloris-Garcerá P, Slusky JS, Seppälä S, Prieß M, Schäfer LV, von Heijne G.

J Mol Biol. 2013 Nov 15;425(22):4642-51. doi: 10.1016/j.jmb.2013.07.039. Epub 2013 Aug 3.

49.

Improved production of membrane proteins in Escherichia coli by selective codon substitutions.

Nørholm MH, Toddo S, Virkki MT, Light S, von Heijne G, Daley DO.

FEBS Lett. 2013 Aug 2;587(15):2352-8. doi: 10.1016/j.febslet.2013.05.063. Epub 2013 Jun 12.

50.

Quantitative analysis of SecYEG-mediated insertion of transmembrane α-helices into the bacterial inner membrane.

Ojemalm K, Botelho SC, Stüdle C, von Heijne G.

J Mol Biol. 2013 Aug 9;425(15):2813-22. doi: 10.1016/j.jmb.2013.04.025. Epub 2013 May 7.

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