iNEXT-Discovery: Scientific publications

All publications from iNEXT-Discovery acknowledge the project and appear as Open Access!

 

181-200

 

       

236

Nov 07, 2024

Cryo-EM structure of a lysozyme-derived amyloid fibril from hereditary amyloidosis

doi: 10.1038/s41467-024-54091-7

Karimi-Farsijani S, Sharma K, Ugrina M, Kuhn L, Pfeiffer PB, Haupt C, Wiese S, Hegenbart U, Schönland SO, Schwierz N, Schmidt M,  Fändrich M.

Nat Commun 15, 9648 (2024)

235

Oct 18, 2024

Structural insights into the mechanism of DNA branch migration during homologous recombination in bacteria

doi: 10.1038/s44318-024-00264-5

Rosa LT, Vernhes É, Soulet AL, Polard P, Fronzes R.

EMBO J. 2024 Oct 18. Epub ahead of print.

234

Oct 09, 2024

Annulate Lamellae biogenesis is essential for nuclear pore function

doi: 10.21203/rs.3.rs-5104543

Lin J, Agote-Arán A, Lia Y, Schoch R, Ronchi P, Cochard V, Zhu R, Kleiss C, Ruff M, Chevreux G, Schwab Y, Klaholz BP, Sumara I.

Preprint (Version 1); Research Square

233

Oct 01, 2024

Structural studies of β-glucosidase from the thermophilic bacterium Caldicellulosiruptor saccharolyticus

doi: 10.1107/S2059798324009252

Sotiropoulou AI, Hatzinikolaou DG, Chrysina ED.

Acta Crystallogr D Struct Biol. 2024 Oct 1;80(Pt 10):733-743

232

Oct 20, 2022

A round-robin approach provides a detailed assessment of biomolecular small-angle scattering data reproducibility and yields consensus curves for benchmarking

doi: 10.1107/S2059798322009184

Trewhella J, Vachette P, Bierma J, Blanchet C, Brookes E, Chakravarthy S, Chatzimagas L, Cleveland TE 4th, Cowieson N, Crossett B, Duff AP, Franke D, Gabel F, Gillilan RE, Graewert M, Grishaev A, Guss JM, Hammel M, Hopkins J, Huang Q, Hub JS, Hura GL, Irving TC, Jeffries CM, Jeong C, Kirby N, Krueger S, Martel A, Matsui T, Li N, Pérez J, Porcar L, Prangé T, Rajkovic I, Rocco M, Rosenberg DJ, Ryan TM, Seifert S, Sekiguchi H, Svergun D, Teixeira S, Thureau A, Weiss TM, Whitten AE, Wood K, Zuo X.

Acta Crystallogr D Struct Biol. 2022 Nov 1;78(Pt 11):1315-1336

231

Sep 19, 2024

Kinetic and Structural Studies of the Plastidial Solanum tuberosum
Phosphorylase

doi: 10.1021/acsomega.4c06313

Koulas SM, Kyriakis E, Tsagkarakou AS, Leonidas DD.

ACS Omega 2024

230

Jan 11, 2023

Estimating conformational landscapes from Cryo-EM particles by 3D Zernike polynomials

doi: 10.1038/s41467-023-35791-y

Herreros D, Lederman RR, Krieger JM, Jiménez-Moreno A, Martínez M, Myška D, Strelak D, Filipovic J, Sorzano COS, Carazo JM.

Nat Commun. 2023 Jan 11;14(1):154

229

Aug 01, 2023

Combining Solid-State NMR with Structural and Biophysical Techniques to Design Challenging Protein-Drug Conjugates

doi: 10.1002/anie.202303202

Cerofolini L, Vasa K, Bianconi E, Salobehaj M, Cappelli G, Bonciani A, Licciardi G, Pérez-Ràfols A, Padilla-Cortés L, Antonacci S, Rizzo D, Ravera E, Viglianisi C, Calderone V, Parigi G, Luchinat C, Macchiarulo A, Menichetti S, Fragai M.

Angew Chem Int Ed Engl. 2023 Aug 1;62(31):e202303202

228

Sep 18, 2023

Effects of boron supplementation on dairy calves' health: a metabolomics study

doi: 10.21608/avmj.2023.218730.1157

Adam A, Baspinar N, Vignoli A, Meoni G, Tenori L, Basoglu A, Gulersoy E, Bicici R.

Assiut Vet. Med. J. Vol. 70 No. 180 January 2024, 10-25

227

Apr 03, 2023

Modulation of Aβ42 Aggregation Kinetics and Pathway by Low-Molecular-Weight Inhibitors

doi: 10.1002/cbic.202200760

Hutchison MT, Bellomo G, Cherepanov A, Stirnal E, Fürtig B, Richter C, Linhard V, Gurewitsch E, Lelli M, Morgner N, Schrader T, Schwalbe H.

Chembiochem. 2023 Apr 3;24(7):e202200760

226

Apr 25, 2023

A Fijivirus Major Viroplasm Protein Shows RNA-Stimulated ATPase Activity by Adopting Pentameric and Hexameric Assemblies of Dimers

doi: 10.1128/mbio.00023-23

Llauger G, Melero R, Monti D, Sycz G, Huck-Iriart C, Cerutti ML, Klinke S, Mikkelsen E, Tijman A, Arranz R, Alfonso V, Arellano SM, Goldbaum FA, Sterckx YGJ, Carazo JM, Kaufman SB, Dans PD, Del Vas M, Otero LH.

mBio. 2023 Apr 25;14(2):e0002323

225

Mar 10, 2023

Unraveling the mechanism of [4Fe-4S] cluster assembly on the N-terminal cluster binding site of NUBP1

doi: 10.1002/pro.4625

Bargagna B, Matteucci S, Ciofi-Baffoni S, Camponeschi F, Banci L.

Protein Sci. 2023 May;32(5):e4625

224

Apr 19, 2024

Structural and molecular insights into a bifunctional glycoside hydrolase 30 xylanase specific to glucuronoxylan

doi: 10.1002/bit.28731

Pentari C, Kosinas C, Nikolaivits E, Dimarogona M, Topakas E.

Biotechnol Bioeng. 2024 Jul;121(7):2067-2078

223

Jan 09, 2024

Controlling the incorporation of fluorinated amino acids in human cells and its structural impact

doi: 10.1002/pro.4910

Costantino A, Pham LBT, Barbieri L, Calderone V, Ben-Nissan G, Sharon M, Banci L, Luchinat E.

Protein Sci. 2024 Mar;33(3):e4910

222

Apr 19, 2024

X-ray structure and enzymatic study of a bacterial NADPH oxidase highlight the activation mechanism of eukaryotic NOX

doi: 10.7554/eLife.93759

Petit-Hartlein I, Vermot A, Thepaut M, Humm AS, Dupeux F, Dupuy J, Chaptal V, Marquez JA, Smith SME, Fieschi F.

Elife. 2024 Apr 19;13:RP93759

221

Jul 23, 2024

Controlled pH alteration enables guanine accumulation and drives crystallization within iridosomes

doi: 10.1101/2024.07.20.604036

Eyal Z, Gorelick-Ashkenazi A, Deis R, Barzilay Y, Yonatan Broder Y, Perry Kellum A, Varsano N, Hartstein M, Sorrentino A, Kaplan-Ashiri I, Rechav K, Metzler R, Houben L, Kronik L, Rez P, Gur D.

BioRxiv

220

Aug 11, 2023

Studies of proline conformational dynamics in IDPs by 13C-detected cross-correlated NMR relaxation

doi: 10.1016/j.jmr.2023.107539

Schiavina M, Konrat R, Ceccolini I, Mateos B, Konrat R, Felli IC, Pierattelli R.

J Magn Reson. 2023 Sep;354:107539

 

219

May 13, 2022

Dissociation of β2m from MHC class I triggers formation of noncovalent transient heavy chain dimers

doi: 10.1242/jcs.259498

Dirscherl C, Löchte S, Hein Z, Kopicki JD, Harders AR, Linden N, Karner A, Preiner J, Weghuber J, Garcia-Alai M, Uetrecht C, Zacharias M, Piehler J, Lanzerstorfer P, Springer S.

J Cell Sci. 2022 May 1;135(9):jcs259489

218

Sep 18, 2024

Structural basis of CDNF interaction with the UPR regulator GRP78

doi: 10.1038/s41467-024-52478-0

Graewert MA, Volkova M, Jonasson K, Määttä JAE, Gräwert T, Mamidi S, Kulesskaya N, Evenäs J, Johnsson RE, Svergun D, Bhattacharjee A, Huttunen HJ.

Nat Commun. 2024 Sep 18;15(1):8175

217

Oct 03, 2024

The future of integrated structural biology

doi: 10.1016/j.str.2024.08.014

Schwalbe H, Audergon P, Haley N, Alen Amaro C, Agirre J, Baldus M, Banci L, Baumeister W, Blackledge M, Carazo JM, Djinovic Carugo K, Celie P, Felli I, Hart DJ, Hauß T, Lehtiö L, Lindorff-Larsen K, Márquez J, Matagne A, Pierattelli R, Rosato A, Sobott F, Sreeramulu S, Steyaert J, Sussman JL, Trantirek L, Weiss MS, Wilmanns M.

Structure (2024)

216

Sep 05, 2024

A bitopic agonist bound to the dopamine 3 receptor reveals a selectivity site

doi: 10.1038/s41467-024-51993-4

Arroyo-Urea S, Nazarova AL, Carrión-Antolí Á, Bonifazi A, Battiti FO, Lam JH, Newman AH, Katritch V, García-Nafría J.

Nat Commun. 2024 Sep 5;15(1):7759

215

Aug 24, 2024

Structural and biochemical characterization of the C-terminal region of the human RTEL1 helicase

doi: 10.1002/pro.5093

Cortone G, Graewert MA, Kanade M, Longo A, Hegde R, González-Magaña A, Chaves-Arquero B, Blanco FJ, Napolitano LMR, Onesti S.

Protein Sci. 2024 Sep;33(9):e5093

214

Aug 08, 2024

Optimising in-cell NMR acquisition for nucleic acids

doi: 10.1007/s10858-024-00448-5

Annecke HTP, Eidelpes R, Feyrer H, Ilgen J, Gürdap CO, Dasgupta R, Petzold K.

J Biomol NMR. 2024 Aug 20

213

Aug 16, 2024

Sarbecovirus programmed ribosome frameshift RNA element folding studied by NMR spectroscopy and comparative analyses

doi: 10.1093/nar/gkae704

Hernández-Marín M, Cantero-Camacho Á, Mena I, López-Núñez S, García-Sastre A, Gallego J.

Nucleic Acids Res. 2024 Aug 16:gkae704

212

Aug 08, 2024

An integrative structural study of the human full-length RAD52 at 2.2 Å resolution

doi: 10.1038/s42003-024-06644-1

Balboni B, Marotta R, Rinaldi F, Milordini G, Varignani G, Girotto S, Cavalli A.

Commun Biol. 2024 Aug 8;7(1):956

211

Jun 26, 2024

Molecular basis for transposase activation by a dedicated AAA+ ATPase

doi: 10.1038/s41586-024-07550-6

de la Gándara Á, Spínola-Amilibia M, Araújo-Bazán L, Núñez-Ramírez R, Berger JM, Arias-Palomo E.

Nature. 2024 Jun;630(8018):1003-1011

210

Jun 06, 2024

The structure of the human 80S ribosome at 1.9 Å resolution reveals the molecular role of chemical modifications and ions in RNA

doi: 10.1038/s41594-024-01274-x

Holvec S, Barchet C, Lechner A, Fréchin L, De Silva SNT, Hazemann I, Wolff P, von Loeffelholz O, Klaholz BP.

Nat Struct Mol Biol. 2024 Jun 6

209

May 16, 2024

Improved detection of magnetic interactions in proteins based on long-lived coherences

doi: 10.1038/s42004-024-01195-2

Ianc O, Teleanu F, Ciumeică A, Lupulescu A, Sadet A, Vasos PR.

Commun Chem. 2024 May 16;7(1):112

208

May 10, 2024

Program VUE: analysing distributions of cryo-EM projections using uniform spherical grids

doi: 10.1107/s1600576724002383

Urzhumtseva L, Barchet C, Klaholz BP, Urzhumtsev AG.

J. Appl. Cryst. 57

207

Apr 15, 2024

Progression of herpesvirus infection remodels mitochondrial organization and metabolism

doi: 10.1371/journal.ppat.1011829

Leclerc S, Gupta A, Ruokolainen V, Chen JH, Kunnas K, Ekman AA, Niskanen H, Belevich I, Vihinen H, Turkki P, Perez-Berna AJ, Kapishnikov S, Mäntylä E, Harkiolaki M, Dufour E, Hytönen V, Pereiro E, McEnroe T, Fahy K, Kaikkonen MU, Jokitalo E, Larabell CA, Weinhardt V, Mattola S, Aho V, Vihinen-Ranta M.

PLoS Pathog. 2024 Apr 15;20(4):e1011829

206

Apr 30, 2024

Cryogenic Preparations of Biological Specimens for Cryo-Electron Tomography

doi: 10.1007/978-3-031-51171-4_3

D’Imprima E, Fung HKH, Zagoriy I, Mahamid J.

In: Cryo-Electron Tomography. Focus on Structural Biology, vol 11. Springer, Cham.

205

Apr 23, 2024

UBAP2L ensures homeostasis of nuclear pore complexes at the intact nuclear envelope

doi: 10.1083/jcb.202310006

Liao Y, Andronov L, Liu X, Lin J, Guerber L, Lu L, Agote-Arán A, Pangou E, Ran L, Kleiss C, Qu M, Schmucker S, Cirillo L, Zhang Z, Riveline D, Gotta M, Klaholz BP, Sumara I.

J Cell Biol. 2024 Jul 1;223(7):e202310006

204

Apr 02, 2024

NMR characterization and ligand binding site of the stem loop 2 motif (s2m) from the Delta variant of SARS-CoV-2

doi: 10.1261/rna.079902.123

Matzel T, Wirtz Martin M, Herr A, Wacker A, Richter C, Sreeramulu S, Schwalbe H.

RNA. 2024 Apr 2:rna.079902.123

203

Mar 22, 2024

Inducible protein expression in stably transfected cells paves the way toward in-cell NMR studies in defined physiological states and 3D tissue cultures

doi: 10.26434/chemrxiv-2024-jqd66-v2

Rynes J, Istvankova E, Krafcikova M, Luchinat E, Barbieri L, Banci L, Kamarytova K, Loja T, Fafilek B, Rico-Llanos G, Krejci P, Macurek L, Foldynova-Trantirkova S, Trantirek L.

https://doi.org/10.26434/chemrxiv-2024-jqd66-v2

202

Mar 19, 2024

RAPP-containing arrest peptides induce translational stalling by short circuiting the ribosomal peptidyltransferase activity

doi: 10.1038/s41467-024-46761-3

Morici M, Gabrielli S, Fujiwara K, Paternoga H, Beckert B, Bock LV, Chiba S, Wilson DN.

Nat Commun. 2024 Mar 19;15(1):2432

201

Mar 05, 2024

In-cell NMR suggests that DNA i-motif levels are strongly depleted in living human cells

doi: 10.1038/s41467-024-46221-y

Víšková P, Ištvánková E, Ryneš J, Džatko Š, Loja T, Živković ML, Rigo R, El-Khoury R, Serrano-Chacón I, Damha MJ, González C, Mergny JL, Foldynová-Trantírková S, Trantírek L.

Nat Commun. 2024 Mar 5;15(1):1992

181-200