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Items: 1 to 50 of 215

1.

Structural basis for centromere maintenance by Drosophila CENP-A chaperone CAL1.

Medina-Pritchard B, Lazou V, Zou J, Byron O, Abad MA, Rappsilber J, Heun P, Jeyaprakash AA.

EMBO J. 2020 Mar 5:e103234. doi: 10.15252/embj.2019103234. [Epub ahead of print]

PMID:
32134144
2.

A protocol for studying structural dynamics of proteins by quantitative crosslinking mass spectrometry and data-independent acquisition.

Müller F, Rappsilber J.

J Proteomics. 2020 Apr 30;218:103721. doi: 10.1016/j.jprot.2020.103721. Epub 2020 Feb 25.

PMID:
32109607
3.

FANCD2-FANCI is a clamp stabilized on DNA by monoubiquitination of FANCD2 during DNA repair.

Alcón P, Shakeel S, Chen ZA, Rappsilber J, Patel KJ, Passmore LA.

Nat Struct Mol Biol. 2020 Mar;27(3):240-248. doi: 10.1038/s41594-020-0380-1. Epub 2020 Feb 17.

PMID:
32066963
4.

The structure of human thyroglobulin.

Coscia F, Taler-Verčič A, Chang VT, Sinn L, O'Reilly FJ, Izoré T, Renko M, Berger I, Rappsilber J, Turk D, Löwe J.

Nature. 2020 Feb;578(7796):627-630. doi: 10.1038/s41586-020-1995-4. Epub 2020 Feb 5.

PMID:
32025030
5.

Assessment of chemical-crosslink-assisted protein structure modeling in CASP13.

Fajardo JE, Shrestha R, Gil N, Belsom A, Crivelli SN, Czaplewski C, Fidelis K, Grudinin S, Karasikov M, Karczyńska AS, Kryshtafovych A, Leitner A, Liwo A, Lubecka EA, Monastyrskyy B, Pagès G, Rappsilber J, Sieradzan AK, Sikorska C, Trabjerg E, Fiser A.

Proteins. 2020 Mar;88(3):540. doi: 10.1002/prot.25867. Epub 2020 Jan 3. No abstract available.

PMID:
31977133
6.

Hap2-Ino80-facilitated transcription promotes de novo establishment of CENP-A chromatin.

Singh PP, Shukla M, White SA, Lafos M, Tong P, Auchynnikava T, Spanos C, Rappsilber J, Pidoux AL, Allshire RC.

Genes Dev. 2020 Feb 1;34(3-4):226-238. doi: 10.1101/gad.332536.119. Epub 2020 Jan 9.

7.

The structure and oxidation of the eye lens chaperone αA-crystallin.

Kaiser CJO, Peters C, Schmid PWN, Stavropoulou M, Zou J, Dahiya V, Mymrikov EV, Rockel B, Asami S, Haslbeck M, Rappsilber J, Reif B, Zacharias M, Buchner J, Weinkauf S.

Nat Struct Mol Biol. 2019 Dec;26(12):1141-1150. doi: 10.1038/s41594-019-0332-9. Epub 2019 Dec 2.

PMID:
31792453
8.

Federating Structural Models and Data: Outcomes from A Workshop on Archiving Integrative Structures.

Berman HM, Adams PD, Bonvin AA, Burley SK, Carragher B, Chiu W, DiMaio F, Ferrin TE, Gabanyi MJ, Goddard TD, Griffin PR, Haas J, Hanke CA, Hoch JC, Hummer G, Kurisu G, Lawson CL, Leitner A, Markley JL, Meiler J, Montelione GT, Phillips GN Jr, Prisner T, Rappsilber J, Schriemer DC, Schwede T, Seidel CAM, Strutzenberg TS, Svergun DI, Tajkhorshid E, Trewhella J, Vallat B, Velankar S, Vuister GW, Webb B, Westbrook JD, White KL, Sali A.

Structure. 2019 Dec 3;27(12):1745-1759. doi: 10.1016/j.str.2019.11.002. Epub 2019 Nov 25.

9.

In Situ Structural Restraints from Cross-Linking Mass Spectrometry in Human Mitochondria.

Ryl PSJ, Bohlke-Schneider M, Lenz S, Fischer L, Budzinski L, Stuiver M, Mendes MML, Sinn L, O'Reilly FJ, Rappsilber J.

J Proteome Res. 2020 Jan 3;19(1):327-336. doi: 10.1021/acs.jproteome.9b00541. Epub 2019 Dec 19.

10.

Co-regulation map of the human proteome enables identification of protein functions.

Kustatscher G, Grabowski P, Schrader TA, Passmore JB, Schrader M, Rappsilber J.

Nat Biotechnol. 2019 Nov;37(11):1361-1371. doi: 10.1038/s41587-019-0298-5. Epub 2019 Nov 4.

PMID:
31690884
11.

Structure of the Fanconi anaemia monoubiquitin ligase complex.

Shakeel S, Rajendra E, Alcón P, O'Reilly F, Chorev DS, Maslen S, Degliesposti G, Russo CJ, He S, Hill CH, Skehel JM, Scheres SHW, Patel KJ, Rappsilber J, Robinson CV, Passmore LA.

Nature. 2019 Nov;575(7781):234-237. doi: 10.1038/s41586-019-1703-4. Epub 2019 Oct 30.

PMID:
31666700
12.

Borealin-nucleosome interaction secures chromosome association of the chromosomal passenger complex.

Abad MA, Ruppert JG, Buzuk L, Wear M, Zou J, Webb KM, Kelly DA, Voigt P, Rappsilber J, Earnshaw WC, Jeyaprakash AA.

J Cell Biol. 2019 Dec 2;218(12):3912-3925. doi: 10.1083/jcb.201905040. Epub 2019 Sep 30.

13.

Assessment of chemical-crosslink-assisted protein structure modeling in CASP13.

Fajardo JE, Shrestha R, Gil N, Belsom A, Crivelli SN, Czaplewski C, Fidelis K, Grudinin S, Karasikov M, Karczyńska AS, Kryshtafovych A, Leitner A, Liwo A, Lubecka EA, Monastyrskyy B, Pagès G, Rappsilber J, Sieradzan AK, Sikorska C, Trabjerg E, Fiser A.

Proteins. 2019 Dec;87(12):1283-1297. doi: 10.1002/prot.25816. Epub 2019 Oct 7. Erratum in: Proteins. 2020 Mar;88(3):540.

PMID:
31569265
14.

An integrated workflow for crosslinking mass spectrometry.

Mendes ML, Fischer L, Chen ZA, Barbon M, O'Reilly FJ, Giese SH, Bohlke-Schneider M, Belsom A, Dau T, Combe CW, Graham M, Eisele MR, Baumeister W, Speck C, Rappsilber J.

Mol Syst Biol. 2019 Sep;15(9):e8994. doi: 10.15252/msb.20198994.

15.

Lamin A molecular compression and sliding as mechanisms behind nucleoskeleton elasticity.

Makarov AA, Zou J, Houston DR, Spanos C, Solovyova AS, Cardenal-Peralta C, Rappsilber J, Schirmer EC.

Nat Commun. 2019 Jul 11;10(1):3056. doi: 10.1038/s41467-019-11063-6.

16.

Reconstitution of Microtubule Nucleation In Vitro Reveals Novel Roles for Mzt1.

Leong SL, Lynch EM, Zou J, Tay YD, Borek WE, Tuijtel MW, Rappsilber J, Sawin KE.

Curr Biol. 2019 Jul 8;29(13):2199-2207.e10. doi: 10.1016/j.cub.2019.05.058.

17.

Quantitative Photo-crosslinking Mass Spectrometry Revealing Protein Structure Response to Environmental Changes.

Müller F, Graziadei A, Rappsilber J.

Anal Chem. 2019 Jul 16;91(14):9041-9048. doi: 10.1021/acs.analchem.9b01339. Epub 2019 Jul 5.

18.

Loss of 5-methylcytosine alters the biogenesis of vault-derived small RNAs to coordinate epidermal differentiation.

Sajini AA, Choudhury NR, Wagner RE, Bornelöv S, Selmi T, Spanos C, Dietmann S, Rappsilber J, Michlewski G, Frye M.

Nat Commun. 2019 Jun 11;10(1):2550. doi: 10.1038/s41467-019-10020-7.

19.

First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study.

Iacobucci C, Piotrowski C, Aebersold R, Amaral BC, Andrews P, Bernfur K, Borchers C, Brodie NI, Bruce JE, Cao Y, Chaignepain S, Chavez JD, Claverol S, Cox J, Davis T, Degliesposti G, Dong MQ, Edinger N, Emanuelsson C, Gay M, Götze M, Gomes-Neto F, Gozzo FC, Gutierrez C, Haupt C, Heck AJR, Herzog F, Huang L, Hoopmann MR, Kalisman N, Klykov O, Kukačka Z, Liu F, MacCoss MJ, Mechtler K, Mesika R, Moritz RL, Nagaraj N, Nesati V, Neves-Ferreira AGC, Ninnis R, Novák P, O'Reilly FJ, Pelzing M, Petrotchenko E, Piersimoni L, Plasencia M, Pukala T, Rand KD, Rappsilber J, Reichmann D, Sailer C, Sarnowski CP, Scheltema RA, Schmidt C, Schriemer DC, Shi Y, Skehel JM, Slavin M, Sobott F, Solis-Mezarino V, Stephanowitz H, Stengel F, Stieger CE, Trabjerg E, Trnka M, Vilaseca M, Viner R, Xiang Y, Yilmaz S, Zelter A, Ziemianowicz D, Leitner A, Sinz A.

Anal Chem. 2019 Jun 4;91(11):6953-6961. doi: 10.1021/acs.analchem.9b00658. Epub 2019 May 22.

20.

The molecular basis of monopolin recruitment to the kinetochore.

Plowman R, Singh N, Tromer EC, Payan A, Duro E, Spanos C, Rappsilber J, Snel B, Kops GJPL, Corbett KD, Marston AL.

Chromosoma. 2019 Sep;128(3):331-354. doi: 10.1007/s00412-019-00700-0. Epub 2019 Apr 30.

21.

Reductional Meiosis I Chromosome Segregation Is Established by Coordination of Key Meiotic Kinases.

Galander S, Barton RE, Borek WE, Spanos C, Kelly DA, Robertson D, Rappsilber J, Marston AL.

Dev Cell. 2019 May 20;49(4):526-541.e5. doi: 10.1016/j.devcel.2019.04.003. Epub 2019 Apr 25.

22.

Defining the RNA interactome by total RNA-associated protein purification.

Shchepachev V, Bresson S, Spanos C, Petfalski E, Fischer L, Rappsilber J, Tollervey D.

Mol Syst Biol. 2019 Apr 8;15(4):e8689. doi: 10.15252/msb.20188689.

23.

A folded conformation of MukBEF and cohesin.

Bürmann F, Lee BG, Than T, Sinn L, O'Reilly FJ, Yatskevich S, Rappsilber J, Hu B, Nasmyth K, Löwe J.

Nat Struct Mol Biol. 2019 Mar;26(3):227-236. doi: 10.1038/s41594-019-0196-z. Epub 2019 Mar 4.

24.

Sequential Digestion with Trypsin and Elastase in Cross-Linking Mass Spectrometry.

Dau T, Gupta K, Berger I, Rappsilber J.

Anal Chem. 2019 Apr 2;91(7):4472-4478. doi: 10.1021/acs.analchem.8b05222. Epub 2019 Mar 13.

25.

Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.

Tay YD, Leda M, Spanos C, Rappsilber J, Goryachev AB, Sawin KE.

Cell Rep. 2019 Feb 5;26(6):1654-1667.e7. doi: 10.1016/j.celrep.2019.01.027.

26.

Molecular interactions between Hel2 and RNA supporting ribosome-associated quality control.

Winz ML, Peil L, Turowski TW, Rappsilber J, Tollervey D.

Nat Commun. 2019 Feb 4;10(1):563. doi: 10.1038/s41467-019-08382-z.

27.

Posttranscriptional Regulation of 14q32 MicroRNAs by the CIRBP and HADHB during Vascular Regeneration after Ischemia.

Downie Ruiz Velasco A, Welten SMJ, Goossens EAC, Quax PHA, Rappsilber J, Michlewski G, Nossent AY.

Mol Ther Nucleic Acids. 2019 Mar 1;14:329-338. doi: 10.1016/j.omtn.2018.11.017. Epub 2018 Dec 6.

28.

Data-independent Acquisition Improves Quantitative Cross-linking Mass Spectrometry.

Müller F, Kolbowski L, Bernhardt OM, Reiter L, Rappsilber J.

Mol Cell Proteomics. 2019 Apr;18(4):786-795. doi: 10.1074/mcp.TIR118.001276. Epub 2019 Jan 16.

29.

Noncovalently Associated Peptides Observed during Liquid Chromatography-Mass Spectrometry and Their Effect on Cross-Link Analyses.

Giese SH, Belsom A, Sinn L, Fischer L, Rappsilber J.

Anal Chem. 2019 Feb 19;91(4):2678-2685. doi: 10.1021/acs.analchem.8b04037. Epub 2019 Feb 1.

30.

Proteome Analysis of Human Neutrophil Granulocytes From Patients With Monogenic Disease Using Data-independent Acquisition.

Grabowski P, Hesse S, Hollizeck S, Rohlfs M, Behrends U, Sherkat R, Tamary H, Ünal E, Somech R, Patıroğlu T, Canzar S, van der Werff Ten Bosch J, Klein C, Rappsilber J.

Mol Cell Proteomics. 2019 Apr;18(4):760-772. doi: 10.1074/mcp.RA118.001141. Epub 2019 Jan 10.

31.

A programmed wave of uridylation-primed mRNA degradation is essential for meiotic progression and mammalian spermatogenesis.

Morgan M, Kabayama Y, Much C, Ivanova I, Di Giacomo M, Auchynnikava T, Monahan JM, Vitsios DM, Vasiliauskaitė L, Comazzetto S, Rappsilber J, Allshire RC, Porse BT, Enright AJ, O'Carroll D.

Cell Res. 2019 Mar;29(3):221-232. doi: 10.1038/s41422-018-0128-1. Epub 2019 Jan 7.

32.

The depolymerase activity of MCAK shows a graded response to Aurora B kinase phosphorylation through allosteric regulation.

McHugh T, Zou J, Volkov VA, Bertin A, Talapatra SK, Rappsilber J, Dogterom M, Welburn JPI.

J Cell Sci. 2019 Jan 14;132(4). pii: jcs228353. doi: 10.1242/jcs.228353.

33.

Quantitative cross-linking/mass spectrometry to elucidate structural changes in proteins and their complexes.

Chen ZA, Rappsilber J.

Nat Protoc. 2019 Jan;14(1):171-201. doi: 10.1038/s41596-018-0089-3.

PMID:
30559374
34.

A Primer on Data Analytics in Functional Genomics: How to Move from Data to Insight?

Grabowski P, Rappsilber J.

Trends Biochem Sci. 2019 Jan;44(1):21-32. doi: 10.1016/j.tibs.2018.10.010. Epub 2018 Dec 3. Review.

35.

Gain-of-function DNMT3A mutations cause microcephalic dwarfism and hypermethylation of Polycomb-regulated regions.

Heyn P, Logan CV, Fluteau A, Challis RC, Auchynnikava T, Martin CA, Marsh JA, Taglini F, Kilanowski F, Parry DA, Cormier-Daire V, Fong CT, Gibson K, Hwa V, Ibáñez L, Robertson SP, Sebastiani G, Rappsilber J, Allshire RC, Reijns MAM, Dauber A, Sproul D, Jackson AP.

Nat Genet. 2019 Jan;51(1):96-105. doi: 10.1038/s41588-018-0274-x. Epub 2018 Nov 26.

36.

The kinetochore module Okp1CENP-Q/Ame1CENP-U is a reader for N-terminal modifications on the centromeric histone Cse4CENP-A.

Anedchenko EA, Samel-Pommerencke A, Tran Nguyen TM, Shahnejat-Bushehri S, Pöpsel J, Lauster D, Herrmann A, Rappsilber J, Cuomo A, Bonaldi T, Ehrenhofer-Murray AE.

EMBO J. 2019 Jan 3;38(1). pii: e98991. doi: 10.15252/embj.201898991. Epub 2018 Nov 2.

37.

Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology.

O'Reilly FJ, Rappsilber J.

Nat Struct Mol Biol. 2018 Nov;25(11):1000-1008. doi: 10.1038/s41594-018-0147-0. Epub 2018 Oct 29. Review.

PMID:
30374081
38.

Protein Dynamics in Solution by Quantitative Crosslinking/Mass Spectrometry.

Chen ZA, Rappsilber J.

Trends Biochem Sci. 2018 Nov;43(11):908-920. doi: 10.1016/j.tibs.2018.09.003. Epub 2018 Oct 11. Review.

39.

In-Search Assignment of Monoisotopic Peaks Improves the Identification of Cross-Linked Peptides.

Lenz S, Giese SH, Fischer L, Rappsilber J.

J Proteome Res. 2018 Nov 2;17(11):3923-3931. doi: 10.1021/acs.jproteome.8b00600. Epub 2018 Oct 24.

40.

Quantitative Proteomics of the Mitotic Chromosome Scaffold Reveals the Association of BAZ1B with Chromosomal Axes.

Ohta S, Taniguchi T, Sato N, Hamada M, Taniguchi H, Rappsilber J.

Mol Cell Proteomics. 2019 Feb;18(2):169-181. doi: 10.1074/mcp.RA118.000923. Epub 2018 Sep 28.

41.

Heterologous Biosynthesis, Modifications and Structural Characterization of Ruminococcin-A, a Lanthipeptide From the Gut Bacterium Ruminococcus gnavus E1, in Escherichia coli.

Ongey EL, Giessmann RT, Fons M, Rappsilber J, Adrian L, Neubauer P.

Front Microbiol. 2018 Jul 26;9:1688. doi: 10.3389/fmicb.2018.01688. eCollection 2018.

42.

Epigenetic Variability Confounds Transcriptome but Not Proteome Profiling for Coexpression-based Gene Function Prediction.

Grabowski P, Kustatscher G, Rappsilber J.

Mol Cell Proteomics. 2018 Nov;17(11):2082-2090. doi: 10.1074/mcp.RA118.000935. Epub 2018 Jul 24.

43.

Exportin Crm1 is repurposed as a docking protein to generate microtubule organizing centers at the nuclear pore.

Bao XX, Spanos C, Kojidani T, Lynch EM, Rappsilber J, Hiraoka Y, Haraguchi T, Sawin KE.

Elife. 2018 May 29;7. pii: e33465. doi: 10.7554/eLife.33465.

44.

False discovery rate estimation and heterobifunctional cross-linkers.

Fischer L, Rappsilber J.

PLoS One. 2018 May 10;13(5):e0196672. doi: 10.1371/journal.pone.0196672. eCollection 2018.

45.

xiSPEC: web-based visualization, analysis and sharing of proteomics data.

Kolbowski L, Combe C, Rappsilber J.

Nucleic Acids Res. 2018 Jul 2;46(W1):W473-W478. doi: 10.1093/nar/gky353.

46.

JAMI: a Java library for molecular interactions and data interoperability.

Sivade Dumousseau M, Koch M, Shrivastava A, Alonso-López D, De Las Rivas J, Del-Toro N, Combe CW, Meldal BHM, Heimbach J, Rappsilber J, Sullivan J, Yehudi Y, Orchard S.

BMC Bioinformatics. 2018 Apr 11;19(1):133. doi: 10.1186/s12859-018-2119-0.

47.

Peptide Retention in Hydrophilic Strong Anion Exchange Chromatography Is Driven by Charged and Aromatic Residues.

Giese SH, Ishihama Y, Rappsilber J.

Anal Chem. 2018 Apr 3;90(7):4635-4640. doi: 10.1021/acs.analchem.7b05157. Epub 2018 Mar 21.

48.

Protein Tertiary Structure by Crosslinking/Mass Spectrometry.

Schneider M, Belsom A, Rappsilber J.

Trends Biochem Sci. 2018 Mar;43(3):157-169. doi: 10.1016/j.tibs.2017.12.006. Epub 2018 Jan 31. Review.

49.

Small angle X-ray scattering and cross-linking for data assisted protein structure prediction in CASP 12 with prospects for improved accuracy.

Ogorzalek TL, Hura GL, Belsom A, Burnett KH, Kryshtafovych A, Tainer JA, Rappsilber J, Tsutakawa SE, Fidelis K.

Proteins. 2018 Mar;86 Suppl 1:202-214. doi: 10.1002/prot.25452. Epub 2018 Feb 7.

50.

Genes Important for Schizosaccharomyces pombe Meiosis Identified Through a Functional Genomics Screen.

Blyth J, Makrantoni V, Barton RE, Spanos C, Rappsilber J, Marston AL.

Genetics. 2018 Feb;208(2):589-603. doi: 10.1534/genetics.117.300527. Epub 2017 Dec 19.

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