Cover Image

Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ

Biological processes are regulated by intermolecular interactions and chemical modifications that do not affect protein levels, thus escaping detection in classical proteomic screens. We demonstrate here that a global protein structural readout based on limited proteolysis-mass spectrometry (LiP-MS)...

Full description

Saved in:
Bibliographic Details
Main Authors: Cappelletti, Valentina (Author) , Hauser, Thomas (Author) , Piazza, Ilaria (Author) , Pepelnjak, Monika (Author) , Malinovska, Liliana (Author) , Fuhrer, Tobias (Author) , Li, Yaozong (Author) , Dörig, Christian (Author) , Boersema, Paul (Author) , Gillet, Ludovic (Author) , Grossbach, Jan (Author) , Dugourd, Aurélien (Author) , Sáez Rodríguez, Julio (Author) , Beyer, Andreas (Author) , Zamboni, Nicola (Author) , Caflisch, Amedeo (Author) , de Souza, Natalie (Author) , Picotti, Paola (Author)
Format: Article (Journal)
Language:English
Published: 2021
In: Cell
Year: 2021, Volume: 184, Issue: 2, Pages: 545-559
ISSN:1097-4172
DOI:10.1016/j.cell.2020.12.021
Online Access:Verlag, lizenzpflichtig, Volltext: https://doi.org/10.1016/j.cell.2020.12.021
Verlag, lizenzpflichtig, Volltext: https://www.sciencedirect.com/science/article/pii/S0092867420316913
Get full text
Author Notes:Valentina Cappelletti, Thomas Hauser, Ilaria Piazza, Monika Pepelnjak, Liliana Malinovska, Tobias Fuhrer, Yaozong Li, Christian Dörig, Paul Boersema, Ludovic Gillet, Jan Grossbach, Aurelien Dugourd, Julio Saez-Rodriguez, Andreas Beyer, Nicola Zamboni, Amedeo Caflisch, Natalie de Souza, and Paola Picotti

MARC

LEADER 00000caa a2200000 c 4500
001 1753322758
003 DE-627
005 20240413193251.0
007 cr uuu---uuuuu
008 210408s2021 xx |||||o 00| ||eng c
024 7 |a 10.1016/j.cell.2020.12.021  |2 doi 
035 |a (DE-627)1753322758 
035 |a (DE-599)KXP1753322758 
035 |a (OCoLC)1341403780 
040 |a DE-627  |b ger  |c DE-627  |e rda 
041 |a eng 
084 |a 33  |2 sdnb 
100 1 |a Cappelletti, Valentina  |e VerfasserIn  |0 (DE-588)1240767420  |0 (DE-627)1769653309  |4 aut 
245 1 0 |a Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ  |c Valentina Cappelletti, Thomas Hauser, Ilaria Piazza, Monika Pepelnjak, Liliana Malinovska, Tobias Fuhrer, Yaozong Li, Christian Dörig, Paul Boersema, Ludovic Gillet, Jan Grossbach, Aurelien Dugourd, Julio Saez-Rodriguez, Andreas Beyer, Nicola Zamboni, Amedeo Caflisch, Natalie de Souza, and Paola Picotti 
246 3 0 |a three 
264 1 |c 2021 
300 |a 15 
336 |a Text  |b txt  |2 rdacontent 
337 |a Computermedien  |b c  |2 rdamedia 
338 |a Online-Ressource  |b cr  |2 rdacarrier 
500 |a Das PDF enthält zusätzlich einen Anhang von 13 Seiten 
500 |a Available online 23 December 2020 
500 |a Gesehen am 08.09.2021 
520 |a Biological processes are regulated by intermolecular interactions and chemical modifications that do not affect protein levels, thus escaping detection in classical proteomic screens. We demonstrate here that a global protein structural readout based on limited proteolysis-mass spectrometry (LiP-MS) detects many such functional alterations, simultaneously and in situ, in bacteria undergoing nutrient adaptation and in yeast responding to acute stress. The structural readout, visualized as structural barcodes, captured enzyme activity changes, phosphorylation, protein aggregation, and complex formation, with the resolution of individual regulated functional sites such as binding and active sites. Comparison with prior knowledge, including other ‘omics data, showed that LiP-MS detects many known functional alterations within well-studied pathways. It suggested distinct metabolite-protein interactions and enabled identification of a fructose-1,6-bisphosphate-based regulatory mechanism of glucose uptake in E. coli. The structural readout dramatically increases classical proteomics coverage, generates mechanistic hypotheses, and paves the way for in situ structural systems biology. 
650 4 |a E. coli 
650 4 |a functional proteomics 
650 4 |a limited proteolysis 
650 4 |a mass spectrometry 
650 4 |a metabolism 
650 4 |a protein aggregation 
650 4 |a structural biology 
650 4 |a structural proteomics 
650 4 |a structural systems biology 
650 4 |a yeast 
700 1 |a Hauser, Thomas  |e VerfasserIn  |4 aut 
700 1 |a Piazza, Ilaria  |e VerfasserIn  |4 aut 
700 1 |a Pepelnjak, Monika  |e VerfasserIn  |4 aut 
700 1 |a Malinovska, Liliana  |e VerfasserIn  |4 aut 
700 1 |a Fuhrer, Tobias  |e VerfasserIn  |4 aut 
700 1 |a Li, Yaozong  |e VerfasserIn  |4 aut 
700 1 |a Dörig, Christian  |e VerfasserIn  |4 aut 
700 1 |a Boersema, Paul  |e VerfasserIn  |4 aut 
700 1 |a Gillet, Ludovic  |e VerfasserIn  |4 aut 
700 1 |a Grossbach, Jan  |e VerfasserIn  |4 aut 
700 1 |a Dugourd, Aurélien  |d 1989-  |e VerfasserIn  |0 (DE-588)1219540064  |0 (DE-627)1735481246  |4 aut 
700 1 |a Sáez Rodríguez, Julio  |d 1978-  |e VerfasserIn  |0 (DE-588)133764362  |0 (DE-627)555766632  |0 (DE-576)300083114  |4 aut 
700 1 |a Beyer, Andreas  |e VerfasserIn  |4 aut 
700 1 |a Zamboni, Nicola  |e VerfasserIn  |4 aut 
700 1 |a Caflisch, Amedeo  |e VerfasserIn  |4 aut 
700 1 |a de Souza, Natalie  |e VerfasserIn  |4 aut 
700 1 |a Picotti, Paola  |d 1977-  |e VerfasserIn  |0 (DE-588)1089687249  |0 (DE-627)853447357  |0 (DE-576)460066099  |4 aut 
773 0 8 |i Enthalten in  |t Cell  |d [Cambridge, Mass.] : Cell Press, 1974  |g 184(2021), 2, Seite 545-559  |h Online-Ressource  |w (DE-627)320416127  |w (DE-600)2001951-8  |w (DE-576)090881370  |x 1097-4172  |7 nnas  |a Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ 
773 1 8 |g volume:184  |g year:2021  |g number:2  |g pages:545-559  |g extent:15  |a Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ 
856 4 0 |u https://doi.org/10.1016/j.cell.2020.12.021  |x Verlag  |x Resolving-System  |z lizenzpflichtig  |3 Volltext 
856 4 0 |u https://www.sciencedirect.com/science/article/pii/S0092867420316913  |x Verlag  |z lizenzpflichtig  |3 Volltext 
951 |a AR 
992 |a 20210408 
993 |a Article 
994 |a 2021 
998 |g 133764362  |a Sáez Rodríguez, Julio  |m 133764362:Sáez Rodríguez, Julio  |d 910000  |d 912900  |e 910000PS133764362  |e 912900PS133764362  |k 0/910000/  |k 1/910000/912900/  |p 13 
998 |g 1219540064  |a Dugourd, Aurélien  |m 1219540064:Dugourd, Aurélien  |d 910000  |d 912900  |e 910000PD1219540064  |e 912900PD1219540064  |k 0/910000/  |k 1/910000/912900/  |p 12 
999 |a KXP-PPN1753322758  |e 3903257400 
BIB |a Y 
SER |a journal 
JSO |a {"id":{"doi":["10.1016/j.cell.2020.12.021"],"eki":["1753322758"]},"recId":"1753322758","name":{"displayForm":["Valentina Cappelletti, Thomas Hauser, Ilaria Piazza, Monika Pepelnjak, Liliana Malinovska, Tobias Fuhrer, Yaozong Li, Christian Dörig, Paul Boersema, Ludovic Gillet, Jan Grossbach, Aurelien Dugourd, Julio Saez-Rodriguez, Andreas Beyer, Nicola Zamboni, Amedeo Caflisch, Natalie de Souza, and Paola Picotti"]},"person":[{"given":"Valentina","family":"Cappelletti","roleDisplay":"VerfasserIn","role":"aut","display":"Cappelletti, Valentina"},{"role":"aut","display":"Hauser, Thomas","roleDisplay":"VerfasserIn","family":"Hauser","given":"Thomas"},{"family":"Piazza","given":"Ilaria","role":"aut","display":"Piazza, Ilaria","roleDisplay":"VerfasserIn"},{"family":"Pepelnjak","given":"Monika","roleDisplay":"VerfasserIn","display":"Pepelnjak, Monika","role":"aut"},{"roleDisplay":"VerfasserIn","role":"aut","display":"Malinovska, Liliana","family":"Malinovska","given":"Liliana"},{"given":"Tobias","family":"Fuhrer","roleDisplay":"VerfasserIn","display":"Fuhrer, Tobias","role":"aut"},{"role":"aut","display":"Li, Yaozong","roleDisplay":"VerfasserIn","given":"Yaozong","family":"Li"},{"given":"Christian","family":"Dörig","roleDisplay":"VerfasserIn","display":"Dörig, Christian","role":"aut"},{"display":"Boersema, Paul","role":"aut","roleDisplay":"VerfasserIn","given":"Paul","family":"Boersema"},{"role":"aut","display":"Gillet, Ludovic","roleDisplay":"VerfasserIn","family":"Gillet","given":"Ludovic"},{"role":"aut","display":"Grossbach, Jan","roleDisplay":"VerfasserIn","family":"Grossbach","given":"Jan"},{"role":"aut","display":"Dugourd, Aurélien","roleDisplay":"VerfasserIn","given":"Aurélien","family":"Dugourd"},{"family":"Sáez Rodríguez","given":"Julio","roleDisplay":"VerfasserIn","display":"Sáez Rodríguez, Julio","role":"aut"},{"roleDisplay":"VerfasserIn","role":"aut","display":"Beyer, Andreas","family":"Beyer","given":"Andreas"},{"family":"Zamboni","given":"Nicola","role":"aut","display":"Zamboni, Nicola","roleDisplay":"VerfasserIn"},{"roleDisplay":"VerfasserIn","display":"Caflisch, Amedeo","role":"aut","given":"Amedeo","family":"Caflisch"},{"roleDisplay":"VerfasserIn","display":"de Souza, Natalie","role":"aut","family":"de Souza","given":"Natalie"},{"roleDisplay":"VerfasserIn","display":"Picotti, Paola","role":"aut","family":"Picotti","given":"Paola"}],"physDesc":[{"extent":"15 S."}],"note":["Das PDF enthält zusätzlich einen Anhang von 13 Seiten","Available online 23 December 2020","Gesehen am 08.09.2021"],"language":["eng"],"title":[{"title_sort":"Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ","title":"Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ"}],"relHost":[{"id":{"issn":["1097-4172"],"zdb":["2001951-8"],"eki":["320416127"]},"recId":"320416127","physDesc":[{"extent":"Online-Ressource"}],"note":["Gesehen am 11.03.24"],"pubHistory":["1.1974 -"],"title":[{"title":"Cell","title_sort":"Cell"}],"origin":[{"publisher":"Cell Press ; Elsevier","dateIssuedKey":"1974","publisherPlace":"[Cambridge, Mass.] ; New York, NY","dateIssuedDisp":"1974-"}],"disp":"Dynamic 3D proteomes reveal protein functional alterations at high resolution in situCell","part":{"year":"2021","issue":"2","text":"184(2021), 2, Seite 545-559","volume":"184","extent":"15","pages":"545-559"},"language":["eng"],"type":{"bibl":"periodical","media":"Online-Ressource"}}],"origin":[{"dateIssuedDisp":"2021","dateIssuedKey":"2021"}],"type":{"media":"Online-Ressource","bibl":"article-journal"}} 
SRT |a CAPPELLETTDYNAMIC3DP2021 

Similar Items