Wolfgang P. Baumeister - Related publications

Molecular Structural Biology Max Planck Institute of Biochemistry 
Cryo-Electron Tomography, Electron Microscopical Structure Research, Protein and Cell Structure, Protein Degradation
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Zweckstetter M. NMR hawk-eyed view of AlphaFold2 structures. Protein Science : a Publication of the Protein Society. PMID 34469019 DOI: 10.1002/pro.4175   
2021 Jia Z, Liu C, Chen Y, Jiang H, Wang Z, Yao J, Yang J, Zhu J, Zhang B, Yuchi Z. Crystal structures of the SARS-CoV-2 nucleocapsid protein C-terminal domain and development of nucleocapsid-targeting nanobodies. The Febs Journal. PMID 34665939 DOI: 10.1111/febs.16239   
2021 Kryshtafovych A, Schwede T, Topf M, Fidelis K, Moult J. Critical Assessment of Methods of Protein Structure Prediction (CASP) - Round XIV. Proteins. PMID 34533838 DOI: 10.1002/prot.26237   
2021 Asthana P, Singh D, Pedersen JS, Hynönen MJ, Sulu R, Murthy AV, Laitaoja M, Jänis J, Riley LW, Venkatesan R. Structural insights into the substrate-binding proteins Mce1A and Mce4A from . Iucrj. 8: 757-774. PMID 34584737 DOI: 10.1107/S2052252521006199   
2021 Quadir F, Roy RS, Soltanikazemi E, Cheng J. DeepComplex: A Web Server of Predicting Protein Complex Structures by Deep Learning Inter-chain Contact Prediction and Distance-Based Modelling. Frontiers in Molecular Biosciences. 8: 716973. PMID 34497831 DOI: 10.3389/fmolb.2021.716973   
2021 Sheikh AY, Mattei A, Miglani Bhardwaj R, Hong RS, Abraham NS, Schneider-Rauber G, Engstrom KM, Diwan M, Henry RF, Gao Y, Juarez V, Jordan E, DeGoey DA, Hutchins CW. Implications of the Conformationally Flexible, Macrocyclic Structure of the First-Generation, Direct-Acting Anti-Viral Paritaprevir on Its Solid Form Complexity and Chameleonic Behavior. Journal of the American Chemical Society. PMID 34637297 DOI: 10.1021/jacs.1c06837   
2021 Dunce JM, Salmon LJ, Davies OR. Structural basis of meiotic chromosome synaptic elongation through hierarchical fibrous assembly of SYCE2-TEX12. Nature Structural & Molecular Biology. 28: 681-693. PMID 34373646 DOI: 10.1038/s41594-021-00636-z   
2021 Miao Z, Wang Q, Xiao X, Kamal GM, Song L, Zhang X, Li C, Zhou X, Jiang B, Liu M. CSI-LSTM: a web server to predict protein secondary structure using bidirectional long short term memory and NMR chemical shifts. Journal of Biomolecular Nmr. PMID 34510297 DOI: 10.1007/s10858-021-00383-9   
2021 Wong SWK, Liu Z. Conformational variability of loops in the SARS-CoV-2 spike protein. Proteins. PMID 34661307 DOI: 10.1002/prot.26266   
2021 Li S, Hsieh KY, Su SC, Pintilie GD, Zhang K, Chang CI. Molecular basis for ATPase-powered substrate translocation by the Lon AAA+ protease. The Journal of Biological Chemistry. 101239. PMID 34563541 DOI: 10.1016/j.jbc.2021.101239   
2021 Mikkelsen MD, Cao HTT, Roret T, Rhein-Knudsen N, Holck J, Tran VTT, Nguyen TT, Tran VHN, Lezyk MJ, Muschiol J, Pham TD, Czjzek M, Meyer AS. A novel thermostable prokaryotic fucoidan active sulfatase PsFucS1 with an unusual quaternary hexameric structure. Scientific Reports. 11: 19523. PMID 34593864 DOI: 10.1038/s41598-021-98588-3   
2021 Zagotta WN, Sim BS, Nhim AK, Raza MM, Evans EG, Venkatesh Y, Jones CM, Mehl RA, Petersson EJ, Gordon SE. An improved fluorescent noncanonical amino acid for measuring conformational distributions using time-resolved transition metal ion FRET. Elife. 10. PMID 34623258 DOI: 10.7554/eLife.70236   
2021 Gao B, Ji R, Li Z, Su X, Li H, Sun Y, Ji C, Gan J, Li J. Structural analysis and functional study of phosphofructokinase B (PfkB) from Mycobacterium marinum. Biochemical and Biophysical Research Communications. 579: 129-135. PMID 34597996 DOI: 10.1016/j.bbrc.2021.09.051   
2021 Mule SN, Rosa-Fernandes L, Coutinho JVP, Gomes VM, Macedo-da-Silva J, Santiago VF, Quina D, de Oliveira GS, Thaysen-Andersen M, Larsen MR, Labriola L, Palmisano G. Systems-wide analysis of glycoprotein conformational changes by limited deglycosylation assay. Journal of Proteomics. 248: 104355. PMID 34450331 DOI: 10.1016/j.jprot.2021.104355   
2021 Kryshtafovych A, Moult J, Billings WM, Della Corte D, Fidelis K, Kwon S, Olechnovič K, Seok C, Venclovas Č, Won J. Modeling SARS-CoV2 proteins in the CASP-commons experiment. Proteins. PMID 34462960 DOI: 10.1002/prot.26231   
2021 Skolnick J, Gao M, Zhou H, Singh S. AlphaFold 2: Why It Works and Its Implications for Understanding the Relationships of Protein Sequence, Structure, and Function. Journal of Chemical Information and Modeling. PMID 34586808 DOI: 10.1021/acs.jcim.1c01114   
2021 Nakamura T, Yokaichiya T, Fedorov DG. Quantum-Mechanical Structure Optimization of Protein Crystals and Analysis of Interactions in Periodic Systems. The Journal of Physical Chemistry Letters. 8757-8762. PMID 34478310 DOI: 10.1021/acs.jpclett.1c02510   
2021 Peterson TA, Piper RC. Deconvolution of Multiple Rab Binding Domains Using the Batch Yeast 2-Hybrid Method DEEPN. Methods in Molecular Biology (Clifton, N.J.). 2293: 117-141. PMID 34453714 DOI: 10.1007/978-1-0716-1346-7_9   
2021 Blundell TL. The first resolution revolution in protein structure analysis: X-ray diffraction of polypeptide conformations and globular protein folds in 1950s and 1960s. Progress in Biophysics and Molecular Biology. PMID 34520786 DOI: 10.1016/j.pbiomolbio.2021.09.002   
2021 Qian P, Croll TI, Hitchcock A, Jackson PJ, Salisbury JH, Castro-Hartmann P, Sader K, Swainsbury DJ, Hunter CN. Cryo-EM structure of the dimeric Rhodobacter sphaeroides RC-LH1 core complex at 2.9 Å: the structural basis for dimerisation. The Biochemical Journal. PMID 34622934 DOI: 10.1042/BCJ20210696   
2021 Yuan B, Portaliou AG, Parakra R, Smit JH, Wald J, Li Y, Srinivasu B, Loos MS, Singh Dhupar H, Fahrenkamp D, Kalodimos CG, Duong van Hoa F, Cordes T, Karamanou S, Marlovits TC, et al. Structural dynamics of the functional nonameric Type III translocase export gate. Journal of Molecular Biology. 167188. PMID 34454944 DOI: 10.1016/j.jmb.2021.167188   
2021 Liu W, Chen J, Jin L, Liu ZY, Lu M, Jiang G, Yang Q, Quan C, Nam KH, Xu Y. Functional and structural analysis of catabolite control protein C that responds to citrate. Scientific Reports. 11: 20285. PMID 34645869 DOI: 10.1038/s41598-021-99552-x   
2021 Tanramluk D*, Pakotiprapha D, Phoochaijaroen S, Chantravisut P, Thampradid S, Vanichtanankul J, Narupiyakul L, Akavipat R, Yuvaniyama J. MANORAA: A machine learning platform to guide protein-ligand design by anchors and influential distances. Structure. PMID 34614393 DOI: 10.1016/j.str.2021.09.004   
2021 Maben Z, Arya R, Georgiadis D, Stratikos E, Stern LJ. Conformational dynamics linked to domain closure and substrate binding explain the ERAP1 allosteric regulation mechanism. Nature Communications. 12: 5302. PMID 34489420 DOI: 10.1038/s41467-021-25564-w   
2021 Bustamante A, Rivera R, Floor M, Babul J, Baez M. Single-molecule optical tweezers reveals folding steps of the domain swapping mechanism of a protein. Biophysical Journal. PMID 34555362 DOI: 10.1016/j.bpj.2021.09.026   
2021 Koelmel W, Kuper J, Kisker C. Cesium based phasing of macromolecules: a general easy to use approach for solving the phase problem. Scientific Reports. 11: 17038. PMID 34426585 DOI: 10.1038/s41598-021-95186-1   
2021 Feng N, Feng H, Wang S, Punekar AS, Ladenstein R, Wang DC, Zhang Q, Ding J, Liu W. Structures of heat shock factor trimers bound to DNA. Iscience. 24: 102951. PMID 34458700 DOI: 10.1016/j.isci.2021.102951   
2021 Dreydoppel M, Dorn B, Modig K, Akke M, Weininger U. Transition-State Compressibility and Activation Volume of Transient Protein Conformational Fluctuations. Jacs Au. 1: 833-842. PMID 34467336 DOI: 10.1021/jacsau.1c00062   
2021 de C Bittencourt DM, Oliveira PF, Souto BM, de Freitas SM, Silva LP, Murad AM, Michalczechen-Lacerda VA, Lewis RV, Rech EL. Molecular Dynamics of Synthetic Flagelliform Silk Fiber Assembly. Macromolecular Materials and Engineering. 306. PMID 34539237 DOI: 10.1002/mame.202000530   
2021 Baucom DR, Furr M, Kumar VG, Okoto P, Losey JL, Henry RL, Moradi M, Suresh Kumar TK, Heyes CD. Transient Local Secondary Structure in the Intrinsically Disordered C-Term of the Albino3 Insertase. Biophysical Journal. PMID 34662559 DOI: 10.1016/j.bpj.2021.10.013   
2021 Sun Z, Gu M, Li Q, Liu X, Liu B, Zhang J, Huang S, Ni C. Performance of a CsI(Tl) scintillation screen with a dual-periodic structure based on an oxidized silicon micropore array template in X-ray imaging. Optics Express. 29: 23752-23763. PMID 34614634 DOI: 10.1364/OE.428145   
2021 Sun Z, Zheng S, Zhao H, Niu Z, Lu Y, Pan Y, Yang Y. To improve the predictions of binding residues with DNA, RNA, carbohydrate, and peptide via multi-task deep neural networks. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34637380 DOI: 10.1109/TCBB.2021.3118916   
2021 Bevacqua A, Bakshi S, Xia Y. Principal component analysis of alpha-helix deformations in transmembrane proteins. Plos One. 16: e0257318. PMID 34525125 DOI: 10.1371/journal.pone.0257318   
2021 Liu Y, Shao X, Wang T, Wang X, Li N, Zhao Y, Xia W, Sun L. [Structure prediction and biological activity analysis of dybowskin-1ST antimicrobial peptide in Rana dybowskii]. Sheng Wu Gong Cheng Xue Bao = Chinese Journal of Biotechnology. 37: 2890-2902. PMID 34472306 DOI: 10.13345/j.cjb.200564   
2021 Hassankalhori M, Bolcato G, Bissaro M, Sturlese M, Moro S. Shedding Light on the Molecular Recognition of Sub-Kilodalton Macrocyclic Peptides on Thrombin by Supervised Molecular Dynamics. Frontiers in Molecular Biosciences. 8: 707661. PMID 34532343 DOI: 10.3389/fmolb.2021.707661   
2021 Xu Q, Sun N, Xiao Q, Huang CY, Xu M, Zhang W, Li L, Wang Q, Olieric V, Wang W, He J, Sun B. The crystal structure of MreC provides insights into polymer formation. Febs Open Bio. PMID 34510818 DOI: 10.1002/2211-5463.13296   
2021 Anchal, Kaushik V, Goel M. Distribution of Peptidyl-Prolyl Isomerase (PPIase) in the Archaea. Frontiers in Microbiology. 12: 751049. PMID 34691003 DOI: 10.3389/fmicb.2021.751049   
2021 Ahammad T, Khan RH, Sahu ID, Drew DL, Faul E, Li T, McCarrick RM, Lorigan GA. Pinholin S mutations induce structural topology and conformational changes. Biochimica Et Biophysica Acta. Biomembranes. 183771. PMID 34499883 DOI: 10.1016/j.bbamem.2021.183771   
2021 Hassan M, Coutsias EA. Kinematic Reconstruction of Cyclic Peptides and Protein Backbones from Partial Data. Journal of Chemical Information and Modeling. PMID 34570494 DOI: 10.1021/acs.jcim.1c00453   
2021 Tušar L, Usenik A, Turk B, Turk D. Mechanisms Applied by Protein Inhibitors to Inhibit Cysteine Proteases. International Journal of Molecular Sciences. 22. PMID 33498210 DOI: 10.3390/ijms22030997   
2021 Smith SO. Deconstructing the transmembrane core of class A G protein-coupled receptors. Trends in Biochemical Sciences. PMID 34538727 DOI: 10.1016/j.tibs.2021.08.006   
2021 Fernando LD, Dickwella Widanage MC, Penfield J, Lipton AS, Washton N, Latgé JP, Wang P, Zhang L, Wang T. Structural Polymorphism of Chitin and Chitosan in Fungal Cell Walls From Solid-State NMR and Principal Component Analysis. Frontiers in Molecular Biosciences. 8: 727053. PMID 34513930 DOI: 10.3389/fmolb.2021.727053   
2021 Sato Y, Matsugami A, Watanabe S, Hayashi F, Arai M, Kigawa T, Nishimura C. Changes in dynamic and static structures of the HIV-1 p24 capsid protein N-domain caused by amino-acid substitution are associated with its viral viability. Protein Science : a Publication of the Protein Society. PMID 34523753 DOI: 10.1002/pro.4184   
2021 Toyama Y, Harkness RW, Kay LE. Dissecting the role of interprotomer cooperativity in the activation of oligomeric high-temperature requirement A2 protein. Proceedings of the National Academy of Sciences of the United States of America. 118. PMID 34446566 DOI: 10.1073/pnas.2111257118   
2021 Malliavin TE. Tandem domain structure determination based on a systematic enumeration of conformations. Scientific Reports. 11: 16925. PMID 34413388 DOI: 10.1038/s41598-021-96370-z   
2021 Zhu Y, Ye F, Zhou Z, Liu W, Liang Z, Hu G. Insights into Conformational Dynamics and Allostery in DNMT1-H3Ub/USP7 Interactions. Molecules (Basel, Switzerland). 26. PMID 34500587 DOI: 10.3390/molecules26175153   
2021 Serpa JJ, Popov KI, Petrotchenko EV, Dokholyan NV, Borchers CH. Structure of prion β-oligomers as determined by short-distance crosslinking constraint-guided discrete molecular dynamics simulations. Proteomics. e2000298. PMID 34482645 DOI: 10.1002/pmic.202000298   
2021 Murata H, Imakawa H, Koga N, Chikenji G. The register shift rules for βαβ-motifs for de novo protein design. Plos One. 16: e0256895. PMID 34460870 DOI: 10.1371/journal.pone.0256895   
2021 Wang X, Liu D, Shen L, Li F, Li Y, Yang L, Xu T, Tao H, Yao D, Wu L, Hirata K, Bohn LM, Makriyannis A, Liu X, Hua T, et al. A Genetically Encoded F-19 NMR Probe Reveals the Allosteric Modulation Mechanism of Cannabinoid Receptor 1. Journal of the American Chemical Society. PMID 34596399 DOI: 10.1021/jacs.1c06847   
2021 Mishra S, Looger LL, Porter LL. A sequence-based method for predicting extant fold switchers that undergo α-helix ↔ β-strand transitions. Biopolymers. e23471. PMID 34498740 DOI: 10.1002/bip.23471