10.1371/journal.ppat.1005574

The Ancient Evolutionary History of Polyomaviruses
Cited by: 168
Author(s): Christopher B. Buck, Koenraad Van Doorslaer, Alberto Peretti, Eileen M. Geoghegan, Michael J. Tisza, Ping An, Joshua P. Katz, James M. Pipas, Alison A. McBride, Alvin C. Camus, Alexa McDermott, Jennifer Dill, Eric Delwart, Terry Fei Fan Ng, Kata Farkas, Charlotte Austin, Simona Kraberger, William Davison, Diana V. Pastrana, Arvind Varsani
Software Mentions: 2
Published: over 10 years ago

10.21203/rs.3.rs-77124/v1

Structure and Drug Binding of the SARS-CoV-2 Envelope Protein in Phospholipid Bilayers
Cited by: 3
Author(s): Venkata S. Mandala, Matthew J. McKay, A. Shcherbakov, Aurelio J. Dregni, Antonios Kolocouris, Mei Hong
Software Mentions: 2
Published: about 6 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 14 years ago

10.1107/S2059798318017047

The crystal structure of the<i>N</i>-acetylglucosamine 2-epimerase from<i>Nostoc</i>sp. KVJ10 reveals the true dimer
Cited by: 5
Author(s): Marie Josée Haglund Halsør, U. Rothweiler, Bjørn Altermark, Inger Lin Uttakleiv Ræder
Software Mentions: 2
Published: almost 8 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: about 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 15 years ago

10.1371/journal.ppat.1000959

Insight into the Mechanisms of Adenovirus Capsid Disassembly from Studies of Defensin Neutralization
Cited by: 109
Author(s): Jason G. Smith, Mariena Silvestry, Steffen Lindert, Wuyuan Lu, Glen R. Nemerow, Phoebe L. Stewart
Software Mentions: 2
Published: over 16 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 14 years ago

10.1371/journal.ppat.1003078

The GM2 Glycan Serves as a Functional Coreceptor for Serotype 1 Reovirus
Cited by: 95
Author(s): Kerstin Reiß, Jennifer Stencel, Yan Liu, Bärbel S. Blaum, Dirk M. Reiter, Ten Feizi, Terence S. Dermody, Thilo Stehle
Software Mentions: 2
Published: almost 14 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: over 7 years ago

10.1107/S2059798319011938

The flavin mononucleotide cofactor in α-hydroxyacid oxidases exerts its electrophilic/nucleophilic duality in control of the substrate-oxidation level
Cited by: 2
Author(s): S.Y. Lyu, Kuan Hung Lin, Hsien‐Wei Yeh, Yi Shan Li, Chun Man Huang, Yung Lin Wang, Hao Wei Shih, N.S. Hsu, Chang Jer Wu, Tsung Lin Li
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.ppat.1000147

The Cysteine-Rich Interdomain Region from the Highly Variable Plasmodium falciparum Erythrocyte Membrane Protein-1 Exhibits a Conserved Structure
Cited by: 50
Author(s): Max M. Klein, Apostolos G. Gittis, Hua-Poo Su, Morris O. Makobongo, Jaime M. Moore, Sanjay Singh, Louis H. Miller, David N. Garboczi
Software Mentions: 2
Published: about 18 years ago

10.3390/antibiotics9030123

A Novel, Integron-Regulated, Class C β-Lactamase
Cited by: 12
Author(s): Maria-Elisabeth Böhm, Mohammad Reza Razavi, Carl-Fredrik Flach, D. G. Joakim Larsson
Software Mentions: 2
Published: over 6 years ago

10.1016/j.jbc.2021.101031

Epistatic interactions promote persistence of NS3-Q80K in HCV infection by compensating for protein folding instability
Cited by: 1
Author(s): G. Dultz, Sanjay Kumar Srikakulam, Michael Konetschnik, Tetsuro Shimakami, Nadezhda T. Doncheva, Julia Dietz, Christoph Sarrazin, Ricardo M. Biondi, Stefan Zeuzem, Robert Tampé, Olga Kalinina, Christoph Welsch
Software Mentions: 2
Published: about 5 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 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: over 16 years ago

10.1371/journal.ppat.1003202

A gp41 MPER-specific Llama VHH Requires a Hydrophobic CDR3 for Neutralization but not for Antigen Recognition
Cited by: 62
Author(s): D. Lutje Hulsik, Yingying Lin, Nika M. Strokappe, Simone Battella, Mohamed El Khattabi, Laura E. McCoy, C. Sabin, Andreas Hinz, M. Benjamin Hock, Pauline Machebœuf, Alexandre M. J. J. Bonvin, Johannes P. M. Langedijk, David A. Davis, Anna Forsman Quigley, Marlén M. I. Aasa-Chapman, Michael S. Seaman, Alejandra Ramos, Pascal Poignard, Adrien Favier, Jean-Pierre Simorre, Robin A. Weiss, C. Theo Verrips, Winfríed Weissenhorn, Lucy Rutten
Software Mentions: 2
Published: over 13 years ago

10.1016/j.jbc.2021.100912

Cryo-EM reveals conformational flexibility in apo DNA polymerase ζ
Cited by: 4
Author(s): Chloe D. Truong, Theodore A. Craig, Gaofeng Cui, Maria Victoria Botuyan, Rachel A. Serkasevich, Kayi Y. Chan, Georges Mer, Po-Lin Chiu, Rajiv Kumar
Software Mentions: 2
Published: about 5 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 6 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 6 years ago

10.1016/j.jbc.2021.100441

Molecular basis of tail-anchored integral membrane protein recognition by the cochaperone Sgt2
Cited by: 14
Author(s): Ku-Feng Lin, Michelle Y. Fry, Shyam Saladi, William M. Clemons
Software Mentions: 2
Published: almost 6 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 6 years ago

10.1016/j.jbc.2021.100506

Structural basis for the DNA-binding activity of human ARID4B Tudor domain
Cited by: 7
Author(s): Jie Ren, Hongwei Yao, Wanhui Hu, Sarah Perrett, Weibin Gong, Yingang Feng
Software Mentions: 2
Published: almost 6 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: about 5 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 6 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 6 years ago

10.1074/jbc.RA120.015951

The bacterial cell division protein fragment EFtsN binds to and activates the major peptidoglycan synthase PBP1b
Cited by: 15
Author(s): Adrien Boes, Frédéric Kerff, R. Herman, Thierry Touzé, Eefjan Breukink, Mohammed Terrak
Software Mentions: 2
Published: almost 6 years ago

10.1074/jbc.RA119.011630

Characterization of the structure and interactions of P450 BM3 using hybrid mass spectrometry approaches
Cited by: 7
Author(s): Laura N. Jeffreys, Kamila J. Pacholarz, Linus O. Johannissen, Hazel M. Girvan, Perdita E. Barran, Michael W. Voice, Andrew W. Munro
Software Mentions: 2
Published: over 6 years ago

10.1074/jbc.RA120.012636

MutT homologue 1 (MTH1) removes N6-methyl-dATP from the dNTP pool
Cited by: 9
Author(s): Emma Rose Scaletti, Karl S. A. Vallin, Lars Bräutigam, Antonio Sarno, Ulrika Warpman Berglund, Thomas Helleday, Pål Stenmark, Ann-Sofie Jemth
Software Mentions: 2
Published: over 6 years ago

10.1074/jbc.RA119.009437

Human leukocyte antigen (HLA) class II peptide flanking residues tune the immunogenicity of a human tumor-derived epitope
Cited by: 7
Author(s): Bruce J. MacLachlan, Garry Dolton, Athanasios Papakyriakou, Alexander Greenshields‐Watson, Georgina H Mason, Andrea J. A. Schauenburg, Matthieu Besneux, Barbara Szomolay, Tim Elliott, Andrew K. Sewell, Awen Gallimore, P.J. Rizkallah, David K. Cole, Andrew Godkin
Software Mentions: 2
Published: almost 7 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 7 years ago

10.1074/jbc.RA119.008817

A knottin scaffold directs the CXC-chemokine–binding specificity of tick evasins
Cited by: 21
Author(s): Angela Lee, Maud Déruaz, Christopher J. Lynch, Graham Davies, Khushboo Singh, Yara Alenazi, James R. O. Eaton, Akane Kawamura, Jeffrey P. Shaw, Amanda E. I. Proudfoot, João Marcos Domingues Dias, Shoumo Bhattacharya
Software Mentions: 2
Published: over 7 years ago

10.1074/jbc.RA119.010486

Moonlighting matrix metalloproteinase substrates: Enhancement of proinflammatory functions of extracellular tyrosyl-tRNA synthetase upon cleavage
Cited by: 14
Author(s): Parker G. Jobin, Nestor Solis, Yoan Machado, Peter A. Bell, K. Simran, Nam Hoon Kwon, Sung Hoon Kim, Christopher M. Overall, Georgina S. Butler
Software Mentions: 2
Published: over 6 years ago

10.1080/19768354.2020.1808529

The immunostimulatory effect of indole-6-carboxaldehyde isolated from <i>Sargassum thunbergii</i> <b>(Mertens) Kuntze</b> in RAW 264.7 macrophages
Cited by: 5
Author(s): Cheol Park, Hyun Hwangbo, Hyesook Lee, Gi‐Young Kim, Hee‐Jae Cha, Sung Hyun Choi, Suhkmann Kim, Heui‐Soo Kim, Seok Joong Yun, Wun-Jae Kim, You‐Jin Jeon, Yung Hyun Choi
Software Mentions: 2
Published: over 6 years ago

10.1107/S0907444913025250

Improvements in the order, isotropy and electron density of glypican-1 crystals by controlled dehydration
Cited by: 13
Author(s): W. Awad, Gabriel Svensson Birkedal, Marjolein M.G.M. Thunnissen, Katrin Mani, D.T. Logan
Software Mentions: 2
Published: almost 13 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 6 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 6 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 6 years ago

10.1074/jbc.REV120.011985

Regulation of translation by one-carbon metabolism in bacteria and eukaryotic organelles
Cited by: 18
Author(s): Sunil Shetty, Umesh Varshney
Software Mentions: 2
Published: almost 6 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 6 years ago

10.1016/j.jbc.2021.100385

Insights into the dual cleavage activity of the GH16 laminarinase enzyme class on β-1,3 and β-1,4 glycosidic bonds
Cited by: 6
Author(s): M.V. Liberato, Érica T. Prates, Thiago Augusto Gonçalves, Amanda Bernardes, Nathália Vilela, Juliana Fattori, Gabriela Cristina Ematsu, Mariana Chinaglia, Emerson Rodrigo Machi Gomes, Ana Carolina Migliorini Figueira, André Damásio, Igor Polikarpov, Munir S. Skaf, Fábio M. Squina
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.jbc.2021.100679

A versatile cis-prenyltransferase from Methanosarcina mazei catalyzes both C- and O-prenylations
Cited by: 2
Author(s): Miyako Okada, Hajime Unno, Koh-ichi Emi, Mayuko Matsumoto, Hisashi Hemmi
Software Mentions: 2
Published: almost 6 years ago

10.1107/S1399004713033634

Multi-PAS domain-mediated protein oligomerization of PpsR from<i>Rhodobacter sphaeroides</i>
Cited by: 11
Author(s): Udo Heintz, Anton Meinhart, Andreas Winkler
Software Mentions: 2
Published: over 12 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 5 years ago

10.3390/antibiotics9040148

Development of Staphylococcus Enzybiotics: The Ph28 Gene of Staphylococcus epidermidis Phage PH15 Is a Two-Domain Endolysin
Cited by: 5
Author(s): Magdy Mohamed Muharram, Ashraf Abulhamd, Mohammed F. Aldawsari, Mohammed H. Alqarni, Nikolaos E. Labrou
Software Mentions: 2
Published: over 6 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 5 years ago

10.1107/S1399004715001443

Structure of the N-terminal domain of the protein Expansion: an `Expansion' to the Smad MH2 fold
Cited by: 8
Author(s): Mads Beich-Frandsen, Eric Aragón, Marta Llimargas, J. Benach, Antoni Riéra, Joan Pous, María J. Macias
Software Mentions: 2
Published: over 11 years ago

10.1074/jbc.RA119.012372

S-Glutathionylation of human inducible Hsp70 reveals a regulatory mechanism involving the C-terminal α-helical lid
Cited by: 20
Author(s): Jie Yang, Hong Zhang, Weibin Gong, Zhenyan Liu, Hui‐Wen Wu, Wanhui Hu, Xinxin Chen, Lei Wang, Si Wu, Chang Chen, Sarah Perrett
Software Mentions: 2
Published: over 6 years ago

10.1107/S2059798321006513

Exploring ligand dynamics in protein crystal structures with ensemble refinement
Cited by: 3
Author(s): Octav Caldararu, Vilhelm Ekberg, D.T. Logan, Esko Oksanen, Ulf Ryde
Software Mentions: 2
Published: about 5 years ago

10.1074/jbc.RA120.015995

Post-translational modification analysis of Saccharomyces cerevisiae histone methylation enzymes reveals phosphorylation sites of regulatory potential
Cited by: 8
Author(s): Ryan J. Separovich, Mandy W.M. Wong, Tyler Chapman, Eve Slavich, Joshua J. Hamey, Marc R. Wilkins
Software Mentions: 2
Published: almost 6 years ago

10.1107/S1399004715018519

Sent packing: protein engineering generates a new crystal form of<i>Pseudomonas aeruginosa</i>DsbA1 with increased catalytic surface accessibility
Cited by: 5
Author(s): Róisín M. McMahon, M. Coincon, Stephanie Tay, Begoña Heras, Craig J. Morton, M.J. Scanlon, Jennifer L. Martin
Software Mentions: 2
Published: almost 11 years ago

10.1107/S2059798315022482

Initiating heavy-atom-based phasing by multi-dimensional molecular replacement
Cited by: 3
Author(s): Bjørn Panyella Pedersen, Pontus Gourdon, Xiangyu Liu, Jesper Lykkegaard Karlsen, Poul Nissen
Software Mentions: 2
Published: over 10 years ago

10.3390/antib9020010

Ion Binding Properties of a Naturally Occurring Metalloantibody
Cited by: 0
Author(s): Elinaz Farokhi, Jonathan K. Fleming, M. Frank Erasmus, Aaron D Ward, Yunjin Wu, Maria Gaby Rivero de Gutiérrez, Jonathan M. Wojciak, Tom Huxford
Software Mentions: 2
Published: over 6 years ago

10.1016/j.jbc.2021.100995

Solution structures of human myeloma IgG3 antibody reveal extended Fab and Fc regions relative to the other IgG subclasses
Cited by: 8
Author(s): Valentina A. Spiteri, Margaret Goodall, James Doutch, Robert P. Rambo, Jayesh Gor, Stephen J. Perkins
Software Mentions: 2
Published: about 5 years ago

10.1107/S0907444913021811

SCEDS: protein fragments for molecular replacement in<i>Phaser</i>
Cited by: 16
Author(s): Airlie J. McCoy, Robert A. Nicholls, Thomas R. Schneider
Software Mentions: 2
Published: about 13 years ago

10.1107/S2059798318009397

High-pressure protein crystal structure analysis of <i>Escherichia coli</i> dihydrofolate reductase complexed with folate and NADP⁺
Cited by: 16
Author(s): T. Nagae, Hiroyuki Yamada, Nobuhisa Watanabe
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.ppat.1003275

Monomeric Nucleoprotein of Influenza A Virus
Cited by: 87
Author(s): Sylvie Chenavas, Leandro F. Estrozi, Anny Slama‐Schwok, Bernard Delmas, Carmelo Di Primo, Florence Baudin, Xinping Li, Thibaut Crépin, Rob W.H. Ruigrok
Software Mentions: 2
Published: over 13 years ago

10.21203/rs.3.rs-40159/v1

Structure of human steroid 5&amp;#x03B1;-reductase 2 with anti-androgen drug finasteride
Cited by: 4
Author(s): Qiuping Xiao, Lei Wang, Shreyas Supekar, Tao Shen, Heng Liu, Fei Ye, Junzhou Huang, Hao Fan, Zhiyi Wei, Cheng Zhang
Software Mentions: 2
Published: about 6 years ago

10.1186/s40104-018-0260-2

Molecular characterization and expression patterns of Nanog gene validating its involvement in the embryonic development and maintenance of spermatogonial stem cells of farmed carp, Labeo rohita
Cited by: 14
Author(s): Swagat Kumar Patra, Vemulawada Chakrapani, Meenati Manjari Soren, Jitendra Kumar Sundaray, Manoj Panda, Hirak Kumar Barman
Software Mentions: 2
Published: over 8 years ago

10.1107/S2059798319009574

Biochemical and structural explorations of α-hydroxyacid oxidases reveal a four-electron oxidative decarboxylation reaction
Cited by: 4
Author(s): Hsien‐Wei Yeh, Kuan Hung Lin, S.Y. Lyu, Yi Shan Li, Chun Man Huang, Yung Lin Wang, Hao Wei Shih, N.S. Hsu, Chang Jer Wu, Tsung Lin Li
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.ppat.1002859

Structural Bases of Coronavirus Attachment to Host Aminopeptidase N and Its Inhibition by Neutralizing Antibodies
Cited by: 156
Author(s): Juan Reguera, César Santiago, Gaurav Mudgal, Desiderio Ordoño, Luis Enjuanes, José M. Casasnovas
Software Mentions: 2
Published: about 14 years ago

10.3390/insects12090827

Identification of Core Genes of Toll-like Receptor Pathway from Lymantria dispar and Induced Expression upon Immune Stimulant
Cited by: 3
Author(s): Long Liu, Yu‐Shan Wei, Dun Wang
Software Mentions: 2
Published: about 5 years ago

10.1172/jci.insight.135459

Intrahepatic heteropolymerization of M and Z alpha-1-antitrypsin
Cited by: 13
Author(s): Mattia Laffranchi, Emma Elliston, Elena Miranda, Juan Pérez, Riccardo Ronzoni, Alistair M. Jagger, Nina Heyer-Chauhan, Mark Brantly, Annamaria Fra, David A. Lomas, James A. Irving
Software Mentions: 2
Published: about 6 years ago

10.1107/S0907444913001479

Robust structural analysis of native biological macromolecules from multi-crystal anomalous diffraction data
Cited by: 79
Author(s): Qun Li, Qinglian Liu, Wayne A. Hendrickson
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.ppat.1003563

Crystal Structure of Vaccinia Viral A27 Protein Reveals a Novel Structure Critical for Its Function and Complex Formation with A26 Protein
Cited by: 25
Author(s): Tang‐Hsien Chang, Shu-Han Chang, Fu-Lien Hsieh, Tzu‐Ping Ko, Cheng-Tse Lin, Meng‐Ru Ho, Iren Wang, Shang-Te Danny Hsu, Rey‐Ting Guo, Wen Chang, Andrew H.-J. Wang
Software Mentions: 2
Published: about 13 years ago

10.1111/1744-7917.12564

Comparative analysis of C‐type lectin domain proteins in the ghost moth, <i>Thitarodes xiaojinensis</i> (Lepidoptera: Hepialidae)
Cited by: 18
Author(s): Qian Meng, Ji‐Hong Zhang, Huan Zhang, Guiling Zhou, Ruoyao Ni, Yanni Zhao, Qilian Qin, Zhen Zou
Software Mentions: 2
Published: over 8 years ago

10.1128/AAC.00123-20

Structure and Molecular Recognition Mechanism of IMP-13 Metallo-β-Lactamase
Cited by: 8
Author(s): Charlotte A Softley, Krzysztof Żak, Mark J. Bostock, Roberto Fino, Richard Xu Zhou, Marta Kolonko, Ramona Mejdi-Nitiu, Hannelore Meyer, Michael Sattler, Grzegorz M. Popowicz
Software Mentions: 2
Published: over 6 years ago

10.1107/S2059798315021683

<i>In meso in situ</i>serial X-ray crystallography of soluble and membrane proteins at cryogenic temperatures
Cited by: 89
Author(s): Chia‐Ying Huang, V. Oliéric, Pikyee Ma, Nicole Howe, Lutz Vogeley, Xiangyu Liu, Rangana Warshamanage, T. Weinert, Ezequiel Panepucci, Brian K. Kobilka, Kay Diederichs, Meitian Wang, Martin Caffrey
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.ppat.1003966

Insights into the Initiation of JC Virus DNA Replication Derived from the Crystal Structure of the T-Antigen Origin Binding Domain
Cited by: 12
Author(s): Gretchen Meinke, Paul J. Phelan, Radha L. Kalekar, Jong Shin, Jacques Archambault, Andrew Bohm, Peter A. Bullock
Software Mentions: 2
Published: over 12 years ago

10.1186/s40203-015-0014-1

Molecular docking studies on InhA, MabA and PanK enzymes from Mycobacterium tuberculosis of ellagic acid derivatives from Ludwigia adscendens and Trewia nudiflora
Cited by: 13
Author(s): Jamil A. Shilpi, Mohammad Tuhin Ali, Sanjib Saha, Shihab Hasan, Alexander I. Gray, Véronique Seidel
Software Mentions: 2
Published: almost 11 years ago

10.3390/insects12090814

Hermetia illucens (L.) (Diptera: Stratiomyidae) Odorant Binding Proteins and Their Interactions with Selected Volatile Organic Compounds: An In Silico Approach
Cited by: 24
Author(s): Carmen Scieuzo, Marisa Nardiello, Donatella Farina, Andrea Scala, Jonathan A. Cammack, Jeffery K. Tomberlin, Heiko Vogel, Rosanna Salvia, Krishna Persaud, Patrizia Falabella
Software Mentions: 2
Published: about 5 years ago

10.3390/antiox10020152

Function and Regulation of Chloroplast Peroxiredoxin IIE
Cited by: 10
Author(s): Anna Dreyer, Patrick Treffon, Daniel Basiry, Anna Maria Józefowicz, Andrea Matros, Hans‐Peter Mock, Karl‐Josef Dietz
Software Mentions: 2
Published: over 5 years ago

10.1107/S2059798316003065

A generic protocol for protein crystal dehydration using the HC1b humidity controller
Cited by: 14
Author(s): C.M.C. Lobley, James Sandy, Juan Sánchez-Weatherby, Marco Mazzorana, T. Krojer, Radosław P. Nowak, Thomas Sørensen
Software Mentions: 2
Published: over 10 years ago

10.3390/antiox7120171

Crystal Structure of Chloroplastic Thioredoxin f2 from Chlamydomonas reinhardtii Reveals Distinct Surface Properties
Cited by: 16
Author(s): Stéphane D. Lemaire, Daniele Tedesco, Pierre Crozet, Laure Michelet, Simona Fermani, Mirko Zaffagnini, Julien Henri
Software Mentions: 2
Published: almost 8 years ago

10.3390/antiox8080240

Phlorotannins with Potential Anti-tyrosinase and Antioxidant Activity Isolated from the Marine Seaweed Ecklonia stolonifera
Cited by: 55
Author(s): Bandana Manandhar, Aditi Wagle, Su Hui Seong, Pradeep Paudel, Hyeung‐Rak Kim, Hyun Ah Jung, Jae Sue Choi
Software Mentions: 2
Published: about 7 years ago

10.1107/S2059798316001212

Structure of a quinolone-stabilized cleavage complex of topoisomerase IV from<i>Klebsiella pneumoniae</i>and comparison with a related<i>Streptococcus pneumoniae</i>complex
Cited by: 25
Author(s): D. A. Veselkov, Ivan Laponogov, Xiao-Su Pan, Jogitha Selvarajah, Galyna B. Skamrova, Arthur Branstrom, Jana Narasimhan, J. V. N. Vara Prasad, L. Mark Fisher, Mark Sanderson
Software Mentions: 2
Published: over 10 years ago

10.3390/antiox9020180

Pharmacological Targets of Kaempferol Within Inflammatory Pathways—A Hint Towards the Central Role of Tryptophan Metabolism
Cited by: 15
Author(s): Stefanie Hofer, Simon Geisler, Rebecca Lisandrelli, Huu Tung Nguyen, Markus Ganzera, Harald Schennach, Dietmar Fuchs, Julian E. Fuchs, Johanna M. Gostner, Katharina Kurz
Software Mentions: 2
Published: over 6 years ago

10.1107/S0907444913028473

Structural basis of SUFU–GLI interaction in human Hedgehog signalling regulation
Cited by: 54
Author(s): Amy L. Cherry, Csaba Finta, Mikael Karlström, Qianren Jin, Thomas Schwend, Juan Astorga‐Wells, Roman A. Zubarev, Mark Del Campo, Angela Criswell, Daniele de Sanctis, Luca Jovine, Rune Toftgård
Software Mentions: 2
Published: almost 13 years ago

10.1371/journal.ppat.1006098

Receptor Activation of HIV-1 Env Leads to Asymmetric Exposure of the gp41 Trimer
Cited by: 31
Author(s): Mukta D. Khasnis, Konstantine Halkidis, Anshul Bhardwaj, Michael J. Root
Software Mentions: 2
Published: almost 10 years ago

10.1107/S2059798321002941

<i>UnityMol</i> prototype for FAIR sharing of molecular-visualization experiences: from pictures in the cloud to collaborative virtual reality exploration in immersive 3D environments
Cited by: 13
Author(s): Xavier Martinez, Marc Baaden
Software Mentions: 2
Published: over 5 years ago

10.3390/antiox8010010

Structural and Biochemical Insights into the Reactivity of Thioredoxin h1 from Chlamydomonas reinhardtii
Cited by: 14
Author(s): Christophe Marchand, Simona Fermani, Jacopo Rossi, Libero Gurrieri, Daniele Tedesco, Julien Henri, Francesca Sparla, Paolo Bernardo Trost, Stéphane D. Lemaire, Mirko Zaffagnini
Software Mentions: 2
Published: almost 8 years ago

10.1107/S0907444913011438

Structure determination of an 11-subunit exosome in complex with RNA by molecular replacement
Cited by: 7
Author(s): Debora L. Makino, Elena Conti
Software Mentions: 2
Published: about 13 years ago

10.1371/journal.ppat.1006552

Structural analysis of P. falciparum KAHRP and PfEMP1 complexes with host erythrocyte spectrin suggests a model for cytoadherent knob protrusions
Cited by: 27
Author(s): Erin E. Cutts, Niklas Laasch, Dirk M. Reiter, Raphael Trenker, Leanne M. Slater, Phillip J. Stansfeld, Ioannis Vakonakis
Software Mentions: 2
Published: about 9 years ago

10.3390/antiox10040624

Natural Chain-Breaking Antioxidants and Their Synthetic Analogs as Modulators of Oxidative Stress
Cited by: 10
Author(s): V. D. Kancheva, Maria Antonietta Dettori, D. Fabbri, Petko Alov, Silvia Angelova, Adriana Slavova-Kazakova, Paola Carta, Valery A. Menshov, Olga I. Yablonskaya, Aleksei V. Trofimov, Ivanka Tsakovska, Luciano Saso
Software Mentions: 2
Published: over 5 years ago

10.3390/antiox10071112

Activation of Adenosine A1 Receptor in Ischemic Stroke: Neuroprotection by Tetrahydroxy Stilbene Glycoside as an Agonist
Cited by: 10
Author(s): Ling-Yu Ruan, Guanghui Li, Wenlong Zhao, Huihui Meng, Qi Zheng, Junsong Wang
Software Mentions: 2
Published: over 5 years ago

10.1107/S1600576715024942

Extension of the sasCIF format and its applications for data processing and deposition
Cited by: 17
Author(s): Michael Kachala, John D. Westbrook, Dmitri I. Svergun
Software Mentions: 2
Published: over 10 years ago

10.1107/S0907444910007493

Features and development of <i>Coot</i>
Cited by: 21,554
Author(s): Paul Emsley, Bernhard Lohkamp, William G. Scott, Kevin Cowtan
Software Mentions: 2
Published: over 16 years ago

10.1107/S2059798315023116

Structures of designed armadillo-repeat proteins show propagation of inter-repeat interface effects
Cited by: 11
Author(s): Christian Reichen, Chaithanya Madhurantakam, Simon Hansen, Markus G. Grütter, Andreas Plückthun, Peer R. E. Mittl
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.ppat.1007476

Structural basis of Toxoplasma gondii perforin-like protein 1 membrane interaction and activity during egress
Cited by: 10
Author(s): Alfredo J. Guerra, Ou Zhang, Constance M. Bahr, My Hang Huynh, James Delproposto, William Clay Brown, Z. Wawrzak, Nicole M. Koropatkin, Vern B. Carruthers
Software Mentions: 2
Published: almost 8 years ago

10.1038/s41438-021-00467-5

Functional conservation of the grapevine candidate gene INNER NO OUTER for ovule development and seed formation
Cited by: 12
Author(s): Valentina di Rienzo, Zahra Imanifard, Isabella Mascio, Charles S. Gasser, Debra J. Skinner, Ciro Leonardo Pierri, Martina Marini, Valentina Fanelli, Wilma Sabetta, Cinzia Montemurro, Diana Bellin
Software Mentions: 2
Published: over 5 years ago

10.3390/biom10010090

Structural and Biophysical Analyses of Human N-Myc Downstream-Regulated Gene 3 (NDRG3) Protein
Cited by: 6
Author(s): Kyung Rok Kim, Kyung A. Kim, Joon Sung Park, Jun Young Jang, Yuri Choi, Hyung Ho Lee, Dong Chul Lee, Kyung Chan Park, Young Il Yeom, Hyun-Jung Kim, Byung Woo Han
Software Mentions: 2
Published: almost 7 years ago

10.1099/acmi.0.000103

First hybrid complete genome of Aeromonas veronii reveals chromosome-mediated novel structural variant mcr-3.30 from a human clinical sample
Cited by: 12
Author(s): Naveen Kumar Devanga Ragupathi, Dhiviya Prabaa Muthuirulandi Sethuvel, Shalini Anandan, Dhivya Murugan, Kalaiarasi Asokan, Ramya Gajaraj Neethi Mohan, Karthick Vasudevan, Thirumal Kumar D, George Priya Doss C, Balaji Veeraraghavan
Software Mentions: 2
Published: over 6 years ago

10.1128/AEM.00449-17

Rational Engineering of a Cold-Adapted α-Amylase from the Antarctic Ciliate Euplotes focardii for Simultaneous Improvement of Thermostability and Catalytic Activity
Cited by: 31
Author(s): Guang Yang, Hua Yang, Matteo Mozzicafreddo, Patrizia Ballarini, Sandra Pucciarelli, Cristina Miceli
Software Mentions: 2
Published: over 9 years ago

10.1016/j.immuni.2020.02.014

Butyrophilin-2A1 Directly Binds Germline-Encoded Regions of the Vγ9Vδ2 TCR and Is Essential for Phosphoantigen Sensing
Cited by: 144
Author(s): Mohindar Murugesh Karunakaran, Carrie R. Willcox, Mahboob Salim, Daniel Paletta, Alina Suzann Fichtner, Angela Noll, Lisa Starick, Anna Nöhren, Charlotte R Begley, Katie A Berwick, Raphaël A. G. Chaleil, Vincent Pitard, Julie Déchanet‐Merville, Paul A. Bates, Brigitte Kimmel, Timothy J. Knowles, Volker Kunzmann, Lutz Walter, Mark Jeeves, Fiyaz Mohammed, Benjamin E. Willcox, Thomas Herrmann
Software Mentions: 2
Published: over 6 years ago

10.1128/AEM.00390-19

Versatile Oxidase and Dehydrogenase Activities of Bacterial Pyranose 2-Oxidase Facilitate Redox Cycling with Manganese Peroxidase <i>In Vitro</i>
Cited by: 18
Author(s): Peter L. Herzog, Leander Sützl, Beate Eisenhut, Daniel Maresch, Dietmar Haltrich, Christian Obinger, Clemens K. Peterbauer
Software Mentions: 2
Published: over 7 years ago

10.1016/j.gpb.2017.03.004

Paralog-divergent Features May Help Reduce Off-target Effects of Drugs: Hints from Glucagon Subfamily Analysis
Cited by: 1
Author(s): Zhining Sa, Jingqi Zhou, Yangyun Zou, Zhixi Su, Xun Gu
Software Mentions: 2
Published: about 9 years ago

10.1107/S1399004715002308

Capture and X-ray diffraction studies of protein microcrystals in a microfluidic trap array
Cited by: 67
Author(s): A.Y. Lyubimov, Thomas D. Murray, Antoine Koehl, Ismail Emre Araci, Monarin Uervirojnangkoorn, Oliver B. Zeldin, Aina E. Cohen, S. Michael Soltis, E.L. Baxter, Aaron S. Brewster, Nicholas K. Sauter, Axel T. Brunger, James M. Berger
Software Mentions: 2
Published: over 11 years ago

10.1107/S2059798318017825

Coping with strong translational noncrystallographic symmetry and extreme anisotropy in molecular replacement with <i>Phaser</i>: human Rab27a
Cited by: 8
Author(s): Mostafa Jamshidiha, Inmaculada Pérez‐Dorado, James W. Murray, Edward W. Tate, Ernesto Cota, Randy J. Read
Software Mentions: 2
Published: over 7 years ago

10.1186/1742-4690-7-21

Response of a simian immunodeficiency virus (SIVmac251) to raltegravir: a basis for a new treatment for simian AIDS and an animal model for studying lentiviral persistence during antiretroviral therapy
Cited by: 38
Author(s): Mark G. Lewis, Sandro Norelli, Matt Collins, Maria Letizia Barreca, Nunzio Iraci, Barbara Chirullo, Jake Yalley-Ogunro, Jack Greenhouse, Fausto Titti, Enrico Garaci, Andrea Savarino
Software Mentions: 2
Published: over 16 years ago

10.1093/gigascience/gix093

Panax ginseng genome examination for ginsenoside biosynthesis
Cited by: 123
Author(s): Jiang Xu, Yang Chu, Baosheng Liao, Shaobo Xiao, Qinggang Yin, Rui Bai, He Su, Lixin Dong, Xiwen Li, Jun Qian, Jingjing Zhang, Yujun Zhang, Xiaoyan Zhang, Mingli Wu, Jie Zhang, Guozheng Li, Lei Zhang, Zhenzhan Chang, Yuebin Zhang, Zhengwei Jia, Zhixiang Liu, Daniel Ntiamoah Afreh, Ruth Nahurira, Lianjuan Zhang, Ruiyang Cheng, Yingjie Zhu, Guangwei Zhu, Wei Rao, Chao Zhou, Lin Qiao, Zhixing Huang, Yung Chi Cheng, Shilin Chen
Software Mentions: 2
Published: about 9 years ago