cran: PHENIX | Projects | Ecosyste.ms: Papers

10.1074/jbc.RA118.007285

A low-potential terminal oxidase associated with the iron-only nitrogenase from the nitrogen-fixing bacterium Azotobacter vinelandii
Cited by: 19
Author(s): Febin Varghese, B.V. Kabasakal, Charles A. R. Cotton, Julia Schumacher, A. William Rutherford, Andrea Fantuzzi, James W. Murray
Software Mentions: 2
Published: over 5 years ago

10.1074/jbc.RA119.008610

Alternative folding to a monomer or homopolymer is a common feature of the type 1 pilus subunit FimA from enteroinvasive bacteria
Cited by: 7
Author(s): Dawid Zyla, A.E. Prota, Guido Capitani, Rudi Glockshuber
Software Mentions: 2
Published: over 5 years ago

10.1074/jbc.RA120.014924

Evolving the naturally compromised chorismate mutase from Mycobacterium tuberculosis to top performance
Cited by: 8
Author(s): Jūrate ̇ Fahrig-Kamarauskait≑, Kathrin Würth-Roderer, Helen V. Thorbjørnsrud, Susanne Mailand, Ute Krengel, Peter Kast
Software Mentions: 2
Published: almost 4 years ago

10.1074/jbc.RA120.016295

Antibiotic binding releases autoinhibition of the TipA multidrug-resistance transcriptional regulator
Cited by: 2
Author(s): Xuping Jiang, Linjuan Zhang, Maikun Teng, Li Xu
Software Mentions: 2
Published: almost 4 years ago

10.1074/jbc.RA120.015444

Co-crystal structures of HIV TAR RNA bound to lab-evolved proteins show key roles for arginine relevant to the design of cyclic peptide TAR inhibitors
Cited by: 15
Author(s): Sai Shashank Chavali, Sachitanand M. Mali, Jermaine L. Jenkins, Rudi Fasan, Joseph E. Wedekind
Software Mentions: 2
Published: almost 4 years ago

10.1074/jbc.RA120.013649

Molecular basis for histone H3 “K4me3-K9me3/2” methylation pattern readout by Spindlin1
Cited by: 13
Author(s): Fan Zhao, Yunan Liu, Xuantao Su, Jieun Lee, Yinglin Song, Daliang Wang, Kai Ge, Juntao Gao, Michael Q. Zhang, Haitao Li
Software Mentions: 2
Published: almost 4 years ago

10.1074/jbc.RA120.015050

KPC-2 β-lactamase enables carbapenem antibiotic resistance through fast deacylation of the covalent intermediate
Cited by: 11
Author(s): Shrenik Mehta, I. Furey, O.A. Pemberton, David M. Boragine, Yu Chen, Timothy Palzkill
Software Mentions: 2
Published: almost 4 years ago

10.1074/jbc.RA120.016313

Active site metals mediate an oligomeric equilibrium in Plasmodium M17 aminopeptidases
Cited by: 2
Author(s): Tess R. Malcolm, Matthew J. Belousoff, Hariprasad Venugopal, Natalie A. Borg, N. Drinkwater, Sarah C. Atkinson, Sheena McGowan
Software Mentions: 2
Published: almost 4 years ago

10.1074/jbc.RA120.014005

Structural comparisons of host and African swine fever virus dUTPases reveal new clues for inhibitor development
Cited by: 6
Author(s): Rui Liang, Gang Wang, Ding Zhang, Gang Ye, Mengxia Li, Yuejun Shi, Jiale Shi, Huanchun Chen, Guiqing Peng
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100286

Pantoea stewartii WceF is a glycan biofilm-modifying enzyme with a bacteriophage tailspike-like fold
Cited by: 5
Author(s): Tobias Irmscher, Yvette Roske, Igor Gayk, Valentin Dunsing, Salvatore Chiantia, Udo Heinemann, Stefanie Barbirz
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100321

Structural characterization of HIV-1 matrix mutants implicated in envelope incorporation
Cited by: 5
Author(s): Gunnar N. Eastep, Ruba H. Ghanam, Todd Green, Jamil S. Saad
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100662

The molecular basis of spectral tuning in blue- and red-shifted flavin-binding fluorescent proteins
Cited by: 14
Author(s): Katrin Röllen, Joachim Granzin, Alina Remeeva, Mehdi D. Davari, Thomas Gensch, Vera V. Nazarenko, Kirill Kovalev, Andrey Bogorodskiy, Valentin Borshchevskiy, Stefanie Hemmer, Ulrich Schwaneberg, Valentin Gordeliy, Karl‐Erich Jaeger, Renu Batra‐Safferling, Ivan Gushchin, Ulrich Krauß
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100684

Crystal structure of the catalytic domain of botulinum neurotoxin subtype A3
Cited by: 3
Author(s): Oneda Leka, Yufan Wu, Xiao Dan Li, Richard A. Kammerer
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100713

The mycobacterial proteasomal ATPase Mpa forms a gapped ring to engage the 20S proteasome
Cited by: 3
Author(s): Yuanyuan Yin, Amanda Kovach, Hao-Chi Hsu, K. Heran Darwin, Huilin Li
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100771

Structural basis of KdpD histidine kinase binding to the second messenger c-di-AMP
Cited by: 11
Author(s): Avijit Dutta, Mona Batish, Vijay Parashar
Software Mentions: 2
Published: almost 4 years ago

10.1016/j.jbc.2021.100857

Oxalate decarboxylase uses electron hole hopping for catalysis
Cited by: 5
Author(s): Anthony J. Pastore, Ruijie D. Teo, Alvaro Montoya, M.J. Burg, Umar T. Twahir, Steven D. Bruner, David N. Beratan, Alexander Angerhofer
Software Mentions: 2
Published: over 3 years ago

10.1016/j.jbc.2021.100957

The endopeptidase of the maize-affecting Marafivirus type member maize rayado fino virus doubles as a deubiquitinase
Cited by: 5
Author(s): Ankoor Patel, Jessica A.M. McBride, Brian L. Mark
Software Mentions: 2
Published: over 3 years ago

10.1016/j.jbc.2021.101001

Structural and functional analysis of gum arabic l-rhamnose-α-1,4-d-glucuronate lyase establishes a novel polysaccharide lyase family
Cited by: 3
Author(s): Tatsuya Kondo, Miyu Kichijo, Akiho Maruta, Makoto Nakaya, Shigeo Takenaka, T. Arakawa, Shinya Fushinobu, Tatsuji Sakamoto
Software Mentions: 2
Published: about 3 years ago

10.1016/j.jbc.2021.101043

Catalytic mechanism of ancestral L-lysine oxidase assigned by sequence data mining
Cited by: 8
Author(s): Saiko Sugiura, Shogo Nakano, Masazumi Niwa, Fumihito Hasebe, Daisuke Matsui, Sohei Ito
Software Mentions: 2
Published: about 3 years ago

10.1007/s00775-019-01639-4

Assembly of a heterodinuclear Mn/Fe cofactor is coupled to tyrosine–valine ether cross-link formation in the R2-like ligand-binding oxidase
Cited by: 7
Author(s): Julia J. Griese, Ramona Kositzki, Michael Haumann, Martin Högbom
Software Mentions: 2
Published: almost 6 years ago

10.1186/s12929-019-0589-7

Structural basis of polyethylene glycol recognition by antibody
Cited by: 27
Author(s): Cheng Chung Lee, Yu-Cheng Su, Tzu Ping Ko, Li-Hung Lin, Chih Ya Yang, Shu‐Wen Chang, Steve R. Roffler, Andrew H.‐J. Wang
Software Mentions: 2
Published: almost 5 years ago

10.1083/jcb.201910059

Molecular basis of MKLP2-dependent Aurora B transport from chromatin to the anaphase central spindle
Cited by: 23
Author(s): Michela Serena, Ricardo Bastos, P.R. Elliott, Francis A. Barr
Software Mentions: 2
Published: over 4 years ago

10.1080/14756366.2020.1837123

Crystal structure-guided design of berberine-based novel chitinase inhibitors
Cited by: 13
Author(s): Lei Chen, Ling Zhu, Jinli Chen, Wei Chen, Xuhong Qian, Qing Yang
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.ppat.1000723

Structure of the HCMV UL16-MICB Complex Elucidates Select Binding of a Viral Immunoevasin to Diverse NKG2D Ligands
Cited by: 47
Author(s): Susanne Müller, Georg Zocher, Alexander Steinle, Thilo Stehle
Software Mentions: 2
Published: almost 15 years ago

10.1371/journal.ppat.1001210

The Subtilisin-Like Protease AprV2 Is Required for Virulence and Uses a Novel Disulphide-Tethered Exosite to Bind Substrates
Cited by: 77
Author(s): Ruth M. Kennan, Wilson Wong, Om P. Dhungyel, Xiaoyan Han, D. Wong, Dane Parker, Carlos J. Rosado, Ruby H. P. Law, Sheena McGowan, Shane Reeve, Vita Levina, Glenn A. Powers, Robert N. Pike, Stephen P. Bottomley, A. Ian Smith, Ian Marsh, Richard J. Whittington, James C. Whisstock, Corrine Joy Porter, Julian I. Rood
Software Mentions: 2
Published: almost 14 years ago

10.1371/journal.ppat.1002112

A Structural Model for Binding of the Serine-Rich Repeat Adhesin GspB to Host Carbohydrate Receptors
Cited by: 78
Author(s): Tasia M. Pyburn, Barbara A. Bensing, Yan Q. Xiong, Bruce J. Melancon, Thomas Tomasiak, Nicholas J Ward, Victoria Yankovskaya, Kevin Michael Oliver, Gary Cecchini, Gary A. Sulikowski, Matthew J. Tyska, Paul M. Sullam, T.M. Iverson
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.ppat.1002637

Structural Basis of Cytotoxicity Mediated by the Type III Secretion Toxin ExoU from Pseudomonas aeruginosa
Cited by: 66
Author(s): Claire Gendrin, Carlos Contreras‐Martel, Stéphanie Bouillot, Sylvie Elsen, David Lemaire, Dimitrios A. Skoufias, Philippe Huber, Ina Attrée, Andréa Dessen
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.ppat.1002751

Crystal Structures Reveal the Multi-Ligand Binding Mechanism of Staphylococcus aureus ClfB
Cited by: 51
Author(s): Hua Xiang, Yue Feng, Jiawei Wang, Liu B, Ye-Guang Chen, Lei Liu, Xuming Deng, Maojun Yang
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.ppat.1002832

The Molecular Basis of Drug Resistance against Hepatitis C Virus NS3/4A Protease Inhibitors
Cited by: 179
Author(s): Keith P. Romano, Akbar Ali, Cihan Aydın, Djadé I. Soumana, Ayşegül Özen, Laura M. Deveau, C. N. Silver, Hong Cao, Alicia Newton, Christos J. Petropoulos, Wei Huang, Celia A. Schiffer
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.ppat.1002930

Structural Basis of Differential Neutralization of DENV-1 Genotypes by an Antibody that Recognizes a Cryptic Epitope
Cited by: 103
Author(s): S. Kyle Austin, Kimberly A. Dowd, Bimmi Shrestha, Christopher A. Nelson, Melissa A. Edeling, Syd Johnson, Theodore C. Pierson, Michael S. Diamond, Daved H. Fremont
Software Mentions: 2
Published: about 12 years ago

10.1371/journal.ppat.1003173

Viral Escape from Neutralizing Antibodies in Early Subtype A HIV-1 Infection Drives an Increase in Autologous Neutralization Breadth
Cited by: 48
Author(s): Megan K. Murphy, Ling Yue, Ruimin Pan, Saikat Boliar, Anurag Sethi, Jiang Tian, Katja Pfafferot, Etienne Karita, Susan Allen, Emmanuel Cormier, Paul Goepfert, Persephone Borrow, James E. Robinson, S. Gnanakaran, Eric Hunter, Xiang‐Peng Kong, Cynthia A. Derdeyn
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.ppat.1003376

A Unique Spumavirus Gag N-terminal Domain with Functional Properties of Orthoretroviral Matrix and Capsid
Cited by: 28
Author(s): David C. Goldstone, Thomas G Flower, Neil J. Ball, Marta Sanz-Ramos, Melvyn W. Yap, R.W. Ogrodowicz, Nicole Stanke, Juliane Reh, Dirk Lindemann, Jonathan P. Stoye, Ian A. Taylor
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.ppat.1003549

Crystal Structure of the Full-Length Japanese Encephalitis Virus NS5 Reveals a Conserved Methyltransferase-Polymerase Interface
Cited by: 187
Author(s): Guangquan Lu, Peng Gong
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.ppat.1003624

The Crystal Structure and RNA-Binding of an Orthomyxovirus Nucleoprotein
Cited by: 36
Author(s): Wei Zheng, John S. Olson, Vikram N. Vakharia, Yizhi Jane Tao
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.ppat.1003673

Crystal Structure of the Gamma-2 Herpesvirus LANA DNA Binding Domain Identifies Charged Surface Residues Which Impact Viral Latency
Cited by: 29
Author(s): Bruno E. Correia, Sofia Cerqueira, Chantal Beauchemin, Marta Pires de Miranda, Shijun Li, Rajesh Ponnusamy, Lénia Rodrigues, Thomas R. Schneider, Maria Arménia Carrondo, Kenneth M. Kaye, J. Pedro Simas, Colin E. McVey
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.ppat.1004169

Structural Insights into SraP-Mediated Staphylococcus aureus Adhesion to Host Cells
Cited by: 79
Author(s): Yong Yang, Yong-Liang Jiang, Juan Zhang, Lei Wang, Xiaohui Bai, Shijie Zhang, Yan-Min Ren, Na Li, Yong Hui Zhang, Zhiyong Zhang, Qingguo Gong, Yide Mei, Ting Xue, Jing-Ren Zhang, Yuxing Chen, Cong‐Zhao Zhou
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.ppat.1004334

P. aeruginosa SGNH Hydrolase-Like Proteins AlgJ and AlgX Have Similar Topology but Separate and Distinct Roles in Alginate Acetylation
Cited by: 52
Author(s): Perrin Baker, Tyler Ricer, Patrick J. Moynihan, Elena N. Kitova, Marthe T. C. Walvoort, Dustin J. Little, John C. Whitney, Karen Dawson, Joel T. Weadge, Howard Robinson, Dennis E. Ohman, Jeroen D. C. Codée, John S. Klassen, Anthony J. Clarke, P. Lynne Howell
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.ppat.1004522

Structure and Specificity of the Bacterial Cysteine Methyltransferase Effector NleE Suggests a Novel Substrate in Human DNA Repair Pathway
Cited by: 24
Author(s): Qing Yao, Li Zhang, Xin Wan, Jing Chen, Liyan Hu, Xiaojun Ding, Lin Li, Jayashree Karar, Hongzhuang Peng, She Chen, Niu Huang, Frank J. Rauscher, Feng Shao
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.ppat.1004623

Characterization of the Mycobacterial Acyl-CoA Carboxylase Holo Complexes Reveals Their Functional Expansion into Amino Acid Catabolism
Cited by: 17
Author(s): M.T. Ehebauer, Michael Zimmermann, Arjen J. Jakobi, Elke E. Noens, Daniel Laubitz, B. Cichocki, Hédia Marrakchi, Marie‐Antoinette Lanéelle, Mamadou Daffé, Carsten Sachse, Andrzej Dziembowski, Uwe Sauer, Matthias Wilmanns
Software Mentions: 2
Published: almost 10 years ago

10.1038/s41598-018-25361-4

NADH/NADPH bi-cofactor-utilizing and thermoactive ketol-acid reductoisomerase from Sulfolobus acidocaldarius
Cited by: 12
Author(s): Chin‐Yu Chen, Tzu‐Ping Ko, Kuan-Fu Lin, Bo‐Lin Lin, Chun‐Hsiang Huang, Cheng‐Hung Chiang, Jia‐Cherng Horng
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-27118-5

Structural insights into the stimulation of S. pombe Dnmt2 catalytic efficiency by the tRNA nucleoside queuosine
Cited by: 21
Author(s): Sven Johannsson, Piotr Neumann, Alexander Wulf, Luisa M. Welp, Hans‐Dieter Gerber, Matthias Krüll, Ulf Diederichsen, Henning Urlaub, Ralf Ficner
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-27175-w

An Evolutionarily Conserved Structural Platform for PRC2 Inhibition by a Class of Ezh2 Inhibitors
Cited by: 26
Author(s): Matthew Bratkowski, Xin Yang, Xin Liu
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-28584-7

Structural and functional characterization of suramin-bound MjTX-I from Bothrops moojeni suggests a particular myotoxic mechanism
Cited by: 24
Author(s): Daniela P. Marchi-Salvador, Thiago R. Dreyer, Antoniel Augusto Severo Gomes, Walter Luís Garrido Cavalcante, Jorge M. Santos, César A. Gandin, Mário de Oliveira Neto, Márcia Gallacci, Marcos R.M. Fontes
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-29498-0

Identification, Characterization, and X-ray Crystallographic Analysis of a Novel Type of Lectin AJLec from the Sea Anemone Anthopleura japonica
Cited by: 8
Author(s): Hajime Unno, Azusa Nakamura, Shigeo Mori, Shuichiro Goda, Kensei Yamaguchi, Keiko Hiemori, Hiroaki Tateno, Tomomitsu Hatakeyama
Software Mentions: 2
Published: over 6 years ago

10.1038/s41598-018-31808-5

Copper mediated amyloid-β binding to Transthyretin
Cited by: 24
Author(s): Lidia Ciccone, Carole Fruchart-Gaillard, Gilles Mourier, Martin Savko, Susanna Nencetti, Elisabetta Orlandini, Denis Servent, E.A. Stura, William Shepard
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-018-33366-2

Increasing the distance between two monomers of topoisomerase IIβ under the action of antitumor agent 4β-sulfur-(benzimidazole) 4′-demethylepipodophyllotoxin
Cited by: 2
Author(s): Lin-Yang Sun, Liwen Zhu, Ya‐Jie Tang
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-018-34984-6

Tracing whale myoglobin evolution by resurrecting ancient proteins
Cited by: 21
Author(s): Yasuhiro Isogai, Hiroshi Imamura, S. Nakae, Tetsuya Sumi, Ken Takahashi, Taro Nakagawa, Antonio Tsuneshige, Tomoyuki Shirai
Software Mentions: 2
Published: about 6 years ago

10.1038/s41598-018-36839-6

Search for efficient inhibitors of myotoxic activity induced by ophidian phospholipase A2-like proteins using functional, structural and bioinformatics approaches
Cited by: 23
Author(s): Daniela P. Marchi-Salvador, Filomena Cardoso, Antoniel Augusto Severo Gomes, Walter Luís Garrido Cavalcante, Márcia Gallacci, Marcos R.M. Fontes
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-018-37806-x

Creation of haemoglobin A1c direct oxidase from fructosyl peptide oxidase by combined structure-based site specific mutagenesis and random mutagenesis
Cited by: 8
Author(s): Noriyuki Ogawa, Takehide Kimura, Fumi Umehara, Yuki Katayama, Go Nagai, Keiko Suzuki, Kazuo Aisaka, Yukie Maruyama, Takafumi Itoh, Wataru Hashimoto, Kousaku Murata, Michio Ichimura
Software Mentions: 2
Published: almost 6 years ago

10.1038/s41598-019-39020-9

Polyacrylamide injection matrix for serial femtosecond crystallography
Cited by: 36
Author(s): Jaehyun Park, Sehan Park, Jang Woo Kim, Gisu Park, Yunje Cho, Ki Hyun Nam
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-39484-9

Substituting the catalytic proline of 4-oxalocrotonate tautomerase with non-canonical analogues reveals a finely tuned catalytic system
Cited by: 6
Author(s): Michael Lukesch, Tea Pavkov‐Keller, Karl Gruber, Klaus Zangger, Birgit Wiltschi
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-41300-3

An engineered GH1 β-glucosidase displays enhanced glucose tolerance and increased sugar release from lignocellulosic materials
Cited by: 33
Author(s): Clelton A. Santos, M.A.B. Morais, Oliver M. Terrett, Jan J. Lyczakowski, L.M. Zanphorlin, Jaire A. Ferreira-Filho, C.C.C. Tonoli, Mário Tyago Murakami, Paul Dupree, Anete Pereira de Souza
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-43485-z

Nylon mesh-based sample holder for fixed-target serial femtosecond crystallography
Cited by: 47
Author(s): Donghyeon Lee, Sangwon Baek, Jaehyun Park, Keondo Lee, Jang Woo Kim, Sang Jae Lee, Wan Kyun Chung, Jong‐Lam Lee, Yunje Cho, Ki Hyun Nam
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-44785-0

First crystal structure of an endo-levanase – the BT1760 from a human gut commensal Bacteroides thetaiotaomicron
Cited by: 16
Author(s): Karin Ernits, Priit Eek, T. Lukk, Triinu Visnapuu, Tiina Alamäe
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-46230-8

Structural characterization of life-extending Caenorhabditis elegans Lipid Binding Protein 8
Cited by: 8
Author(s): Matthew Tillman, Manoj Khadka, Jonathon Duffy, Meng C. Wang, Eric A. Ortlund
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-46770-z

Structural and Functional Insights into GluK3-kainate Receptor Desensitization and Recovery
Cited by: 18
Author(s): Jyoti Kumari, Rajesh Vinnakota, Janesh Kumar
Software Mentions: 2
Published: over 5 years ago

10.1038/s41598-019-50671-6

Scribble co-operatively binds multiple α1D-adrenergic receptor C-terminal PDZ ligands
Cited by: 13
Author(s): Eric M. Janezic, Dorathy-Ann Harris, Diana Dinh, Kyung-Soon Lee, Aaron Stewart, Thomas R. Hinds, Peter L. Hsu, Ning Zheng, Chris Hague
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-019-51095-y

The C-terminal region of human plasma fetuin-B is dispensable for the raised-elephant-trunk mechanism of inhibition of astacin metallopeptidases
Cited by: 6
Author(s): Tibisay Guevara, Hagen Körschgen, Anna Cuppari, C. Schmitz, Michael Kuske, Irene Yiallouros, Julia Floehr, Willi Jahnen‐Dechent, Walter Stöcker, F. Xavier Gomis‐Rüth
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-019-52964-2

Structures of GapR reveal a central channel which could accommodate B-DNA
Cited by: 9
Author(s): M.J. Tarry, C. Harmel, James Taylor, Gregory T. Marczynski, T.M. Schmeing
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-019-53755-5

Structural basis for phospholipase A2-like toxin inhibition by the synthetic compound Varespladib (LY315920)
Cited by: 44
Author(s): Daniela P. Marchi-Salvador, Antoniel Augusto Severo Gomes, Wendy Bryan-Quirós, Julián Fernández, Matthew R. Lewin, José Marı́a Gutiérrez, Bruno Lomonte, Marcos R.M. Fontes
Software Mentions: 2
Published: about 5 years ago

10.1038/s41598-019-56557-x

Structure-Guided Design of a Fluorescent Probe for the Visualization of FtsZ in Clinically Important Gram-Positive and Gram-Negative Bacterial Pathogens
Cited by: 20
Author(s): Edgar Ferrer-González, Junnosuke Fujita, Takumi Yoshizawa, Julia M. Nelson, Alyssa Pilch, Elani Hillman, M. Ozawa, Natsuko Kuroda, Hassan Al-Tameemi, Jeffrey M. Boyd, Edmond J. LaVoie, Hideki Matsumura, Daniel S. Pilch
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-019-56257-6

High resolution structural and functional analysis of a hemopexin motif protein from Dolichos
Cited by: 0
Author(s): Sarita Chandan Sharma, Ashish Kumar, Sharad Vashisht, Dinakar M. Salunke
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-019-56135-1

Shortening injection matrix for serial crystallography
Cited by: 29
Author(s): Ki Hyun Nam
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-019-56825-w

Structural insights into the promiscuous DNA binding and broad substrate selectivity of fowlpox virus resolvase
Cited by: 1
Author(s): Na Li, Ke Shi, Timsi Rao, Surajit Banerjee, Hideki Aihara
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-020-57419-7

Conformational changes in Apolipoprotein N-acyltransferase (Lnt)
Cited by: 6
Author(s): B. Wiseman, Martin Högbom
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-020-58316-9

Comparative study of the interactions between fungal transcription factor nuclear localization sequences with mammalian and fungal importin-alpha
Cited by: 7
Author(s): Natália Elisa Bernardes, C.A. Fukuda, Tainá D. da Silva, H.C. Oliveira, Andrea C. de Barros, Thiago R. Dreyer, Maria Célia Bertolini, Marcos R.M. Fontes
Software Mentions: 2
Published: almost 5 years ago

10.1038/s41598-020-60344-4

Distinct surfaces on Cdc5/PLK Polo-box domain orchestrate combinatorial substrate recognition during cell division
Cited by: 8
Author(s): A.W. Almawi, Laurence Langlois-Lemay, Stephen Boulton, Juan José Pulido González, Giuseppe Melacini, Damien D’Amours, Alba Guarné
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-61972-6

Structural analysis of TIFA: Insight into TIFA-dependent signal transduction in innate immunity
Cited by: 4
Author(s): Teruya Nakamura, Chie Hashikawa, Kohtaro Okabe, Yuya Yokote, Mami Chirifu, Sachiko Toma-Fukai, Narushi Nakamura, Mihoko Matsuo, Miho Kamikariya, Yoshinari Okamoto, Jin Gohda, Taishin Akiyama, Kentaro Semba, Shinji Ikemizu, Masami Otsuka, Jun Inoue, Yuriko Yamagata
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-62548-0

Structural basis for substrate and product recognition in human phosphoglucomutase-1 (PGM1) isoform 2, a member of the α-d-phosphohexomutase superfamily
Cited by: 9
Author(s): Paul Hoff Backe, Jon K. Laerdahl, Lene Svendsen Kittelsen, Bjørn Dalhus, Lars Mørkrid, Magnar Bjørås
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-65994-y

S92 phosphorylation induces structural changes in the N-terminus domain of human mitochondrial calcium uniporter
Cited by: 9
Author(s): Youngjin Lee, Jongseo Park, Gihwan Lee, Sanghwa Yoon, Choon Kee Min, Tae Kyun Kim, Toshiharu Yamamoto, Do Han Kim, Keun Woo Lee, Soo Hyun Eom
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-66480-1

Crystal structures of Uso1 membrane tether reveal an alternative conformation in the globular head domain
Cited by: 6
Author(s): Yoonyoung Heo, Hye‐Jin Yoon, Hyunjung Ko, Soonmin Jang, Hyung Ho Lee
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-65993-z

Single atom changes in newly synthesized HIV protease inhibitors reveal structural basis for extreme affinity, high genetic barrier, and adaptation to the HIV protease plasticity
Cited by: 10
Author(s): Haydar Bulut, Shin-ichiro Hattori, Hiromi Aoki-Ogata, Hironori Hayashi, Debananda Das, Manabu Aoki, David A. Davis, Kalapala Venkateswara Rao, Prasanth R. Nyalapatla, Arun K. Ghosh, Hiroaki Mitsuya
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-69637-0

Crystal structure of the Rab33B/Atg16L1 effector complex
Cited by: 8
Author(s): Janina Metje-Sprink, Johannes Groffmann, Piotr Neumann, Brigitte Barg-Kues, Ralf Ficner, Karin Kühnel, Amanda M. Schalk, Beyenech Binotti
Software Mentions: 2
Published: over 4 years ago

10.1038/s41598-020-71347-6

Quantifying drug tissue biodistribution by integrating high content screening with deep-learning analysis
Cited by: 1
Author(s): Zhuyin Li, Youping Xiao, Peng Jia, Darren Locke, Derek Holmes, Lei Li, Shannon Hamilton, Emma N. Cook, Larnie Myer, Dana E. Vanderwall, Normand J. Cloutier, Akbar M. Siddiqui, Paul C. Whitehead, Richard W. Bishop, Lei Zhao, Mary Ellen Cvijic
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-020-71756-7

Catalytic specificity of the Lactobacillus plantarum cystathionine γ-lyase presumed by the crystallographic analysis
Cited by: 12
Author(s): Yasuyuki Matoba, Masafumi Noda, Tomoki Yoshida, Kosuke Oda, Yuka Ezumi, Chiaki Yasutake, Hisae Izuhara-Kihara, Narandarai Danshiitsoodol, Toru Kumagai, Masanori Sugiyama
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-020-72368-x

Divalent cation-induced conformational changes of influenza virus hemagglutinin
Cited by: 5
Author(s): Jong Hyeon Seok, Hyojin Kim, Dan Bi Lee, Jeong Suk An, Eun Jeong Kim, Jihye Lee, Mi Sook Chung, Kyung Hyun Kim
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-020-72644-w

High-resolution crystal structure and biochemical characterization of a GH11 endoxylanase from Nectria haematococca
Cited by: 6
Author(s): Hina Andaleeb, Najeeb Ullah, Sven Falke, Markus Perbandt, H. Brognaro, Christian Betzel
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-020-77706-7

The extracellular juncture domains in the intimin passenger adopt a constitutively extended conformation inducing restraints to its sphere of action
Cited by: 5
Author(s): Julia Weikum, Alina Kulakova, Giulio Tesei, Shogo Yoshimoto, Line Vejby Jægerum, Monika Schütz, Katsutoshi Hori, Marie Skepö, Pernille Harris, Jack C. Leo, J. Preben Morth
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-020-78877-z

Heat induces end to end repetitive association in P. furiosus l-asparaginase which enables its thermophilic property
Cited by: 7
Author(s): Pankaj Sharma, Rachana Tomar, Shivpratap Singh Yadav, Maulik D. Badmalia, Samir K. Nath, . Ashish, Bishwajit Kundu
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-020-78926-7

The structure of SeviL, a GM1b/asialo-GM1 binding R-type lectin from the mussel Mytilisepta virgata
Cited by: 3
Author(s): Kenichi Kamata, Kimihiko Mizutani, Katsuya Takahashi, Roberta Marchetti, Alba Silipo, Christine Addy, Sam-Yong Park, Yuki Fujii, Hideaki Fujita, Tsuyoshi Konuma, Takahisa Ikegami, Yasuhiro Ozeki, J.R.H. Tame
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-021-81251-2

Analysis of insulin glulisine at the molecular level by X-ray crystallography and biophysical techniques
Cited by: 6
Author(s): Richard B. Gillis, H.V. Solomon, Lata Govada, Neil J. Oldham, Vlad Dinu, Shahwar I. Jiwani, Philemon Gyasi-Antwi, Frank Coffey, Andy Meal, Paul S. Morgan, Stephen E. Harding, John R. Helliwell, Naomi E. Chayen, Gary G. Adams
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-021-83196-y

Mechanism of karyopherin-β2 binding and nuclear import of ALS variants FUS(P525L) and FUS(R495X)
Cited by: 27
Author(s): Abner Gonzalez, Taro Mannen, Tolga Çağatay, Ayano Fujiwara, Hideki Matsumura, Ashley Niesman, Chad A. Brautigam, Yuh Min Chook, Takumi Yoshizawa
Software Mentions: 2
Published: almost 4 years ago

10.1038/s41598-021-84373-9

A SPRY1 domain cardiac ryanodine receptor variant associated with short-coupled torsade de pointes
Cited by: 8
Author(s): Zahia Touat-Hamici, Malorie Blancard, Ruijing Ma, Lei Lin, Yasmine Iddir, Isabelle Denjoy, Antoine Leenhardt, Zhiguang Yuchi, Pascale Guicheney
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-021-91090-w

An alternative domain-swapped structure of the Pyrococcus horikoshii PolII mini-intein
Cited by: 1
Author(s): Jennie E. Williams, Mario V. Jaramillo, Li Zhong, Jing Zhao, Qianqian Wang, Hongmin Li, Kenneth V. Mills
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-021-92687-x

Polyimide mesh-based sample holder with irregular crystal mounting holes for fixed-target serial crystallography
Cited by: 15
Author(s): Ki Hyun Nam, Jihan Kim, Yunje Cho
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-021-92604-2

A new non-classical fold of varroa odorant-binding proteins reveals a wide open internal cavity
Cited by: 4
Author(s): Béatrice Amigues, Jianqing Zhu, Anaïs Gaubert, Simona Arena, Giovanni Renzone, Philippe Leone, Isabella Maria Fischer, Harald Paulsen, Wolfgang Knoll, Andrea Scaloni, Alain Roussel, Christian Cambillau, Paolo Pelosi
Software Mentions: 2
Published: over 3 years ago

10.1038/s41598-021-95236-8

Structural insight into host plasma membrane association and assembly of HIV-1 matrix protein
Cited by: 6
Author(s): Halilibrahim Çi̇ftçi̇, Hiroshi Tateishi, Kotaro Koiwai, Ryoko Koga, Kensaku Anraku, Kazuaki Monde, Çağdaş Dağ, Ebru Destan, Büşra Yüksel, Esra Ayan, Günseli Yildirim, Merve Yigin, Fatma Betül Ertem, Alaleh Shafiei, Ömür Güven, Sabri O. Besler, Raymond G. Sierra, Chun Hong Yoon, Zhen Su, Mengling Liang, Burçin Acar, Türkan Haliloǧlu, Masami Otsuka, Fumiaki Yumoto, Mikako Fujita, Toshiya Senda, Hasan DeMi̇rci̇
Software Mentions: 2
Published: over 3 years ago

10.1126/science.abe6230

Structure-guided multivalent nanobodies block SARS-CoV-2 infection and suppress mutational escape
Cited by: 271
Author(s): Paul Koenig, Hrishikesh Das, Hejun Liu, Beate M. Kümmerer, Florian N. Gohr, Lea-Marie Jenster, Lisa Dominica Jacoba Schiffelers, Yonas Mehari Tesfamariam, Miki Uchima, Jennifer Deborah Wuerth, Karl Gatterdam, Natalia Ruétalo, Maria H Christensen, Caroline I. Fandrey, Sabine Normann, Jan M. P. Tödtmann, Steffen Pritzl, Leo Hanke, Jannik Boos, Meng Yuan, Xueyong Zhu, Jonathan L. Schmid-Burgk, Hiroki Kato, Michael Schindler, Ian A. Wilson, Matthias Geyer, Kerstin U. Ludwig, Bengt Hållberg, Nicholas C. Wu, Florian I. Schmidt
Software Mentions: 2
Published: almost 4 years ago

10.1063/1.4948539

Structural dynamics of a methionine γ-lyase for calicheamicin biosynthesis: Rotation of the conserved tyrosine stacking with pyridoxal phosphate
Cited by: 4
Author(s): Heidi B. Cao, Kemin Tan, Fengbin Wang, L. Bigelow, Ragothaman M. Yennamalli, R. Jedrzejczak, G. Babnigg, C.A. Bingman, A. Joachimiak, Madan K. Kharel, Shanteri Singh, Jon S. Thorson, George N. Phillips
Software Mentions: 2
Published: over 8 years ago

10.1063/1.5086436

Time-resolved x-ray crystallography capture of a slow reaction tetrahydrofolate intermediate
Cited by: 4
Author(s): Heidi B. Cao, Jeffrey Skolnick
Software Mentions: 2
Published: over 5 years ago

10.1016/j.str.2012.04.012

Structural Insights into the Role of Domain Flexibility in Human DNA Ligase IV
Cited by: 43
Author(s): Takashi Ochi, Qian Wu, Dimitri Y. Chirgadze, J. Günter Grossmann, Victor M. Bolaños-García, Tom L. Blundell
Software Mentions: 2
Published: over 12 years ago

10.1016/j.str.2013.06.028

A Structure of a Collagen VI VWA Domain Displays N and C Termini at Opposite Sides of the Protein
Cited by: 18
Author(s): Ann-Kathrin A. Becker, Halina Mikolajek, Mats Paulsson, Raimund Wagener, Jörn M. Werner
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.str.2014.04.015

Structure of the LdcB LD-Carboxypeptidase Reveals the Molecular Basis of Peptidoglycan Recognition
Cited by: 31
Author(s): C.N. Hoyland, Christine Aldridge, Robert M. Cleverley, Marie Clémence Duchêne, G. Minasov, O. Onopriyenko, Karzan R. Sidiq, P.J. Stogios, W.F. Anderson, Richard A. Daniel, Alexei Savchenko, Waldemar Vollmer, Richard J. Lewis
Software Mentions: 2
Published: over 10 years ago

10.1016/j.jfluchem.2021.109804

Fluorinated derivatives of pyridine-2,4-dicarboxylate are potent inhibitors of human 2-oxoglutarate dependent oxygenases
Cited by: 7
Author(s): Lennart Brewitz, Yu Nakashima, Anthony Tumber, E. Salah, Christopher J. Schofield
Software Mentions: 2
Published: over 3 years ago

10.1021/acs.jmedchem.1c00048

Sustainable Drug Discovery of Multi-Target-Directed Ligands for Alzheimer’s Disease
Cited by: 53
Author(s): Michele Rossi, Michela Freschi, Luciana de Camargo Nascente, Alessandra Salerno, Sarah de Melo Viana Teixeira, Florian Nachon, Fabien Chantegreil, Ondřej Soukup, Lukáš Prchal, Marco Malaguti, Christian Bergamini, Manuela Bartolini, Cristina Angeloni, Silvana Hrelia, Luiz Antônio Soares Romeiro, María Laura Bolognesi
Software Mentions: 2
Published: over 3 years ago

10.1021/acs.jmedchem.0c02207

Targeting the FtsZ Allosteric Binding Site with a Novel Fluorescence Polarization Screen, Cytological and Structural Approaches for Antibacterial Discovery
Cited by: 10
Author(s): Sonia Huecas, Lidia Araújo‐Bazán, Federico M. Ruiz, Laura B. Ruíz-Avila, R. Fernando Martínez, Andrea Escobar-Peña, Marta Artola, Henar Vázquez-Villa, Mar Martín‐Fontecha, Carlos Fernández‐Tornero, María L. López‐Rodríguez, José Manuel Andreu
Software Mentions: 2
Published: over 3 years ago

10.1021/acs.jmedchem.1c00663

Xanthine Derivatives Reveal an Allosteric Binding Site in Methylenetetrahydrofolate Dehydrogenase 2 (MTHFD2)
Cited by: 7
Author(s): Lung-Chun Lee, Yi-Hui Peng, Hsin-Huei Chang, Tsu Hsu, Chih Heng Lu, Chiung‐Shiann Huang, Ching-Cheng Hsueh, Fang-Chun Kung, Ching‐Chuan Kuo, Weir‐Torn Jiaang, Su-Ying Wu
Software Mentions: 2
Published: over 3 years ago

10.1016/j.jmb.2013.03.019

Structure of the Tubulin/FtsZ-Like Protein TubZ from Pseudomonas Bacteriophage ΦKZ
Cited by: 30
Author(s): C.H.S. Aylett, Thierry Izoré, Linda Amos, Jan Löwe
Software Mentions: 2
Published: over 11 years ago

10.1016/j.jmb.2018.08.027

Molecular Basis for Immunity Protein Recognition of a Type VII Secretion System Exported Antibacterial Toxin
Cited by: 24
Author(s): Timothy A. Klein, Manuel Pazos, Michael G. Surette, Waldemar Vollmer, John C. Whitney
Software Mentions: 2
Published: about 6 years ago

10.1016/j.jmb.2011.11.007

Structure and Kinetic Stability of the p63 Tetramerization Domain
Cited by: 26
Author(s): Eviatar Natan, A.C. Joerger
Software Mentions: 2
Published: almost 13 years ago

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