cran: PHENIX | Projects | Ecosyste.ms: Papers

10.1016/j.cell.2018.10.037

Structures of DPAGT1 Explain Glycosylation Disease Mechanisms and Advance TB Antibiotic Design
Cited by: 52
Author(s): Yin Dong, Hua Wang, A.C.W. Pike, Stephen A. Cochrane, Sadra Hamedzadeh, Filip J. Wyszyński, S.R. Bushell, Sylvain Royer, David A. Widdick, Andaleeb Sajid, Helena I. Boshoff, Yumi Park, Ricardo Dantas de Lucas, Weimin Liu, Seung Seo Lee, Takuya Machida, Leanne Minall, Shahid Mehmood, Katsiaryna Belaya, Weiwei Liu, Amy Chu, L. Shrestha, Shubhashish M.M. Mukhopadhyay, Claire Strain-Damerell, R. Chalk, N. Burgess-Brown, Mervyn J. Bibb, Clifton E. Barry, Carol V. Robinson, David Beeson, Benjamin G. Davis, E.P. Carpenter
Software Mentions: 2
Published: about 6 years ago

10.1016/j.cell.2013.09.050

CtpB Assembles a Gated Protease Tunnel Regulating Cell-Cell Signaling during Spore Formation in Bacillus subtilis
Cited by: 31
Author(s): M. Mastny, Alexander Heuck, R Kurzbauer, Anja Heiduk, Prisca Boisguérin, Rudolf Volkmer, Michael Ehrmann, Christopher D. A. Rodrigues, David Z. Rudner, Tim Clausen
Software Mentions: 2
Published: about 11 years ago

10.1016/j.cell.2021.03.055

Antibody evasion by the P.1 strain of SARS-CoV-2
Cited by: 480
Author(s): Wanwisa Dejnirattisai, Daming Zhou, Piyada Supasa, C Liu, Alexander J. Mentzer, H. Ginn, Yuguang Zhao, Duyvesteyn Hme., Aekkachai Tuekprakhon, Rungtiwa Nutalai, Beibei Wang, César López-Camacho, J Slon-Campos, Thomas S. Walter, Donal Skelly, Sue Ann Costa Clemens, Felipe Gomes Naveca, Valdinete Alves do Nascimento, Felipe Franco Nascimento, Cristiano Fernandes da Costa, Paola Cristina Resende, Alex Pauvolid‐Corrêa, Marilda Mendonça Siqueira, Christina Dold, Robert H. Levin, Tao Dong, Andrew J. Pollard, Julian C. Knight, Derrick W. Crook, Teresa Lambe, Elizabeth A. Clutterbuck, Sagida Bibi, Amy Flaxman, Mustapha Bittaye, Sandra Belij‐Rammerstorfer, Sarah C. Gilbert, Miles W. Carroll, Paul Klenerman, Eleanor Barnes, Susanna Dunachie, Neil G. Paterson, Mark A. Williams, ' Hall, Ruben J.G. Hulswit, Thomas A. Bowden, Elizabeth E. Fry, Juthathip Mongkolsapaya, Jingshan Ren, D.I. Stuart, Gavin Screaton
Software Mentions: 2
Published: over 3 years ago

10.1016/j.cell.2021.06.020

Reduced neutralization of SARS-CoV-2 B.1.617 by vaccine and convalescent serum
Cited by: 571
Author(s): C Liu, H. Ginn, Wanwisa Dejnirattisai, Piyada Supasa, Beibei Wang, Aekkachai Tuekprakhon, Rungtiwa Nutalai, Daming Zhou, Alexander J. Mentzer, Yuguang Zhao, Duyvesteyn Hme., César López-Camacho, J Slon-Campos, T S Walter, Donal Skelly, Síle A. Johnson, Thomas G. Ritter, Chris Mason, Sue Ann Costa Clemens, Felipe Gomes Naveca, Valdinete Alves do Nascimento, Fernanda Nascimento, Cristiano Fernandes da Costa, Paola Cristina Resende, Alex Pauvolid‐Corrêa, Marilda Mendonça Siqueira, Christina Dold, Nigel Temperton, Tao Dong, Andrew J. Pollard, Julian C. Knight, Derrick W. Crook, Teresa Lambe, Elizabeth A. Clutterbuck, Sagida Bibi, Amy Flaxman, Mustapha Bittaye, Sandra Belij‐Rammerstorfer, Sarah C. Gilbert, Tariq Malik, Miles W. Carroll, Paul Klenerman, Eleanor Barnes, Susanna Dunachie, Vicky L. Baillie, Natali Serafin, Zanele Ditse, K Da Silva, Neil G. Paterson, Mark A. Williams, David R. Hall, Shabir A. Madhi, Marta C Nunes, Philip Goulder, Elizabeth E. Fry, Juthathip Mongkolsapaya, Jingshan Ren, D.I. Stuart, Gavin Screaton
Software Mentions: 2
Published: over 3 years ago

10.1016/j.cell.2013.05.014

OTULIN Antagonizes LUBAC Signaling by Specifically Hydrolyzing Met1-Linked Polyubiquitin
Cited by: 381
Author(s): Kirstin Keusekotten, P.R. Elliott, Laura Glockner, Berthe Katrine Fiil, Rune Busk Damgaard, Yogesh Kulathu, Tobias Wauer, Manuela K. Hospenthal, Mads Gyrd‐Hansen, Daniel Krappmann, Kay Hofmann, David Komander
Software Mentions: 2
Published: over 11 years ago

10.1016/j.cell.2019.12.017

FAMIN Is a Multifunctional Purine Enzyme Enabling the Purine Nucleotide Cycle
Cited by: 33
Author(s): M Zaeem Cader, Rubens Lombardi Rodrigues, James A. West, Gavin W. Sewell, Muhammad N Md-Ibrahim, Stephanie Reikine, Giuseppe Sirago, Lukas Unger, Ana Belén Iglesias-Romero, Katharina Ramshorn, Lea-Maxie Haag, Svetlana Saveljeva, Jana‐Fabienne Ebel, Philip Rosenstiel, Nicole C. Kaneider, James C. Lee, Trevor D. Lawley, Allan Bradley, Gordon Dougan, Yorgo Modis, Julian L. Griffin, Arthur Kaser
Software Mentions: 2
Published: almost 5 years ago

10.1038/celldisc.2016.44

A unified molecular mechanism for the regulation of acetyl-CoA carboxylase by phosphorylation
Cited by: 27
Author(s): Wei Jia, Yixiao Zhang, Tai-Yuan Yu, Kianoush Sadre-Bazzaz, M. Rudolph, Gabriele A. Amodeo, Lorraine S. Symington, Thomas Walz, Liang Tong
Software Mentions: 2
Published: almost 8 years ago

10.1002/cbic.201300136

The Structure of Glycerol Trinitrate Reductase NerA fromAgrobacterium radiobacterReveals the Molecular Reason for Nitro‐ and Ene‐Reductase Activity in OYE Homologues
Cited by: 10
Author(s): Gustav Oberdorfer, Alexandra Binter, Silvia Wallner, Katharina Durchschein, Mélanie Hall, Kurt Faber, Peter Macheroux, Karl Gruber
Software Mentions: 2
Published: over 11 years ago

10.1080/10717544.2018.1428245

HSA-based multi-target combination therapy: regulating drugs’ release from HSA and overcoming single drug resistance in a breast cancer model
Cited by: 31
Author(s): Yanzi Gou, Zhenlei Zhang, Dongyang Li, Lei Zhao, Meiling Cai, Zhigang Sun, Yongping Li, Yao Zhang, Hina Khan, Hongbing Sun, Tao Wang, Hong Liang, Feng Yang
Software Mentions: 2
Published: almost 7 years ago

10.1107/S1399004713030149

Identification of the first small-molecule ligand of the neuronal receptor sortilin and structure determination of the receptor–ligand complex
Cited by: 29
Author(s): Jacob Lauwring Andersen, Tenna Juul Schrøder, Søren Christensen, Dorthe Strandbygård, Lone Tjener Pallesen, María García-Alai, Samsa Lindberg, Morten Langgård, Jørgen Eskildsen, Laurent David, Lena Tagmose, Klaus B. Simonsen, Philip Maltas, Lars Christian B. Rønn, Inge E.M. de Jong, Ibrahim Malik, Jan Egebjerg, Jens-Jacob Karlsson, U. Srinivas, Durga Rao Sakumudi, Pradheep Eradi, Steven P. Watson, Søren Thirup
Software Mentions: 2
Published: almost 11 years ago

10.1007/s00401-021-02336-w

Structure of Tau filaments in Prion protein amyloidoses
Cited by: 41
Author(s): Grace I. Hallinan, Md Rejaul Hoq, Manali Ghosh, Frank S. Vago, Anllely Fernández, Holly J. Garringer, Rubén Vidal, Wen Jiang, Bernardino Ghetti
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0224689

Structural analysis of the manganese transport regulator MntR from Bacillus halodurans in apo and manganese bound forms
Cited by: 2
Author(s): Myeong Yeon Lee, Jun Young Lee, Hyun Kyu Joo, Kang Hwa Jeong, Jae Young Lee
Software Mentions: 2
Published: about 5 years ago

10.1107/S2059798316007907

Structural basis for acyl-group discrimination by human Gcn5L2
Cited by: 44
Author(s): Alison E. Ringel, Cynthia Wolberger
Software Mentions: 2
Published: over 8 years ago

10.1107/S1744309111019312

Conservation of a crystallographic interface suggests a role for β-sheet augmentation in influenza virus NS1 multifunctionality
Cited by: 9
Author(s): Philip S. Kerry, Eric C. Long, Margaret Taylor, Rosemary Russell
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pone.0074788

The Structural Basis of Erwinia rhapontici Isomaltulose Synthase
Cited by: 17
Author(s): Zheng Xu, Sha Li, Jie Li, Yan Li, Xiaohai Feng, Renxiao Wang, Hong Xu, Jiahai Zhou
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0034918

Insights into the Mechanism of Bovine CD38/NAD+Glycohydrolase from the X-Ray Structures of Its Michaelis Complex and Covalently-Trapped Intermediates
Cited by: 20
Author(s): Pascal F. Egea, Hélène Muller-Steffner, Isabelle Kuhn, Céline Cakir-Kiefer, Norman J. Oppenheimer, Robert M. Stroud, Esther Kellenberger, Francis Schuber
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0071835

Functional Mapping of Human Dynamin-1-Like GTPase Domain Based on X-ray Structure Analyses
Cited by: 60
Author(s): Julia Wenger, Eva Klinglmayr, Chris Fröhlich, Clarissa Eibl, Ana Gimeno, Manuel Hessenberger, Sandra Puehringer, Oliver Daumke, Peter Goettig
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0231513

Crystal structure of β-L-arabinobiosidase belonging to glycoside hydrolase family 121
Cited by: 8
Author(s): Keita Saito, Alexander Holm Viborg, Shiho Sakamoto, T. Arakawa, Chihaya Yamada, Kiyotaka Fujita, Shinya Fushinobu
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0020950

Conformational Changes of rBTI from Buckwheat upon Binding to Trypsin: Implications for the Role of the P8′ Residue in the Potato Inhibitor I Family
Cited by: 13
Author(s): Long Wang, Fei Zhao, Mei Li, Hongmei Zhang, Yu Gao, Peng Cao, Xiaowei Pan, Zhuanhua Wang, Wenrui Chang
Software Mentions: 2
Published: over 13 years ago

10.1371/journal.pntd.0004132

Structural and Functional Characterization of the Enantiomers of the Antischistosomal Drug Oxamniquine
Cited by: 18
Author(s): Alexander B. Taylor, Livia Pica‐Mattoccia, C. Polcaro, Enrica Donati, Xiaoguang Cao, Annalisa Basso, Алессандра Гуиди, Anastasia R. Rugel, S. Holloway, Timothy J. Anderson, P. John Hart, Donato Cioli, Philip T. LoVerde
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0191610

Crystal structure of a UDP-GlcNAc epimerase for surface polysaccharide biosynthesis in Acinetobacter baumannii
Cited by: 1
Author(s): Bhumika S. Shah, Heather E. Ashwood, S.J. Harrop, Daniel N. Farrugia, Ian T. Paulsen, Bridget C. Mabbutt
Software Mentions: 2
Published: almost 7 years ago

10.1371/journal.pone.0178752

Structural basis for 5'-ETS recognition by Utp4 at the early stages of ribosome biogenesis
Cited by: 3
Author(s): Fabiola R. Calviño, Markus Kornprobst, Géza Schermann, Fabienne Birkle, Klemens Wild, Tamás Fischer, Ed Hurt, Yasar Luqman Ahmed, Irmgard Sinning
Software Mentions: 2
Published: over 7 years ago

10.1107/S1399004715002916

The role of monovalent cations in the ATPase reaction of DNA gyrase
Cited by: 15
Author(s): S.J. Hearnshaw, T.T. Chung, C.E.M. Stevenson, Anthony Maxwell, David M. Lawson
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0090915

Crystal Structures of the Novel Cytosolic 5′-Nucleotidase IIIB Explain Its Preference for m7GMP
Cited by: 13
Author(s): Thomas Monecke, Juliane Buschmann, Piotr Neumann, Elmar Wahle, Ralf Ficner
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0239702

SAXS studies of X-ray induced disulfide bond damage: Engineering high-resolution insight from a low-resolution technique
Cited by: 7
Author(s): Timothy R. Stachowski, M. Elizabeth Snell, Edward H. Snell
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0064901

Conserved Inhibitory Mechanism and Competent ATP Binding Mode for Adenylyltransferases with Fic Fold
Cited by: 33
Author(s): A. Goepfert, Frédéric V. Stanger, Christoph Dehio, Tilman Schirmer
Software Mentions: 2
Published: over 11 years ago

10.1107/S1744309112044739

The AEROPATH project targetingPseudomonas aeruginosa: crystallographic studies for assessment of potential targets in early-stage drug discovery
Cited by: 30
Author(s): L. Moynié, R. Schnell, S.A. McMahon, T. Sandalova, Wassila Abdelli Boulkerou, J.W. Schmidberger, M.S. Alphey, C.D. Cukier, F.G. Duthie, J. Kopec, Huanting Liu, Agata Jacewicz, William N. Hunter, James H. Naismith, Günter Schneider
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pone.0064426

Crystal Structure of Crataeva tapia Bark Protein (CrataBL) and Its Effect in Human Prostate Cancer Cell Lines
Cited by: 19
Author(s): Rodrigo S. Ferreira, Dongwen Zhou, Joana Gasperazzo Ferreira, Mariana Cristina Cabral Silva, Rosemeire A. Silva-Lucca, Reinhard Mentele, Edgar Julian Paredes‐Gamero, Thiago Carlos Bertolin, Maria Tereza dos Santos Correia, Patrícia Maria Guedes Paiva, Alla Gustchina, Alexander Wlodawer, Maria Luíza Vilela Oliva
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pone.0062021

Structure of the Non-Catalytic Domain of the Protein Disulfide Isomerase-Related Protein (PDIR) Reveals Function in Protein Binding
Cited by: 20
Author(s): R. Vinaik, Guennadi Kozlov, Kalle Gehring
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pntd.0005374

Structure of SALO, a leishmaniasis vaccine candidate from the sand fly Lutzomyia longipalpis
Cited by: 10
Author(s): Oluwatoyin A. Asojo, Alan Kelleher, Zhuyun Liu, Jeroen Pollet, Elissa M. Hudspeth, Wanderson Rezende, Mallory Jo Groen, Christopher A. Seid, Maha Abdeladhim, Shannon E. Townsend, Waldionê de Castro, Antonio Ferreira Mendes-Sousa, Daniella Castanheira Bartholomeu, Ricardo Toshio Fujiwara, María Elena Bottazzi, Peter J. Hotez, Bin Zhan, Fabiano Oliveira, Shaden Kamhawi, Jesús G. Valenzuela
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0033524

Carbohydrate Recognition by an Architecturally Complex α-N-Acetylglucosaminidase from Clostridium perfringens
Cited by: 42
Author(s): E. Ficko-Blean, C.P. Stuart, M.D.L. Suits, Melissa Cid, Matthew B. Tessier, Robert J. Woods, A.B. Boraston
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0081904

New Conformational State of NHERF1-CXCR2 Signaling Complex Captured by Crystal Lattice Trapping
Cited by: 10
Author(s): Yuanyuan Jiang, Guorong Lu, Laura Trescott, Yuning Hou, Xiaoqing Guan, Shuo Wang, Angelique Stamenkovich, J.S. Brunzelle, Nualpun Sirinupong, Chunying Li, Zhe Yang
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0004656

Unusual Armadillo Fold in the Human General Vesicular Transport Factor p115
Cited by: 25
Author(s): Harald Striegl, Yvette Roske, Daniel Kümmel, Udo Heinemann
Software Mentions: 2
Published: over 15 years ago

10.1371/journal.pone.0080298

Diversification of Fungal Specific Class A Glutathione Transferases in Saprotrophic Fungi
Cited by: 37
Author(s): Yann Mathieu, P. Prosper, F. Favier, Luc Harvengt, Claude Didierjean, Jean‐Pierre Jacquot, Mélanie Morel‐Rouhier, Éric Gelhaye
Software Mentions: 2
Published: about 11 years ago

10.1107/S090744491200251X

JLigand: a graphical tool for the CCP4 template-restraint library
Cited by: 353
Author(s): А. А. Лебедев, Paul G. Young, Michail N. Isupov, Olga V. Moroz, A.A. Vagin, Garib N. Murshudov
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0097015

Structural Studies of an Anti-Inflammatory Lectin from Canavalia boliviana Seeds in Complex with Dimannosides
Cited by: 22
Author(s): G.A. Bezerra, Roland Viertlmayr, Tales Rocha de Moura, P. Delatorre, B.A.M. Rocha, Kyria S. Nascimento, Jozi Godoy Figueiredo, Ingrid Gonçalves Bezerra, C.S. Teixeira, Rafael Conceição Simões, Celso Shiniti Nagano, Nylane Maria Nunes de Alencar, Karl Gruber, Benildo S. Cavada
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0242383

The crystal structure of mouse IRG1 suggests that cis-aconitate decarboxylase has an open and closed conformation
Cited by: 4
Author(s): Hye Lin Chun, So Yeon Lee, Ki-Hwa Kim, Chang Sup Lee, Tae‐Jin Oh, Hyun Ho Park
Software Mentions: 2
Published: almost 4 years ago

10.1007/s00401-021-02294-3

Cryo-EM structures of tau filaments from Alzheimer’s disease with PET ligand APN-1607
Cited by: 94
Author(s): Yang Shi, Alexey G. Murzin, Benjamin Falcon, A. Epstein, Jonathan Machin, Paul Tempest, Kathy L. Newell, Rubén Vidal, Holly J. Garringer, Naruhiko Sahara, Makoto Higuchi, Bernardino Ghetti, Ming‐Kuei Jang, S.H.W. Scheres, Michel Goedert
Software Mentions: 2
Published: over 3 years ago

10.1107/S2053230X14003793

1.55 Å resolution X-ray crystal structure of Rv3902c fromMycobacterium tuberculosis
Cited by: 1
Author(s): Bharat Reddy, Derek Moates, Heung-Bok Kim, Todd Green, Chang-Yub Kim, Thomas C. Terwilliger, Lawrence J. DeLucas
Software Mentions: 2
Published: over 10 years ago

10.1107/S0907444913021811

SCEDS: protein fragments for molecular replacement inPhaser
Cited by: 16
Author(s): Airlie J. McCoy, Robert A. Nicholls, Thomas R. Schneider
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0026021

Structural and Biochemical Studies of Human 4-hydroxy-2-oxoglutarate Aldolase: Implications for Hydroxyproline Metabolism in Primary Hyperoxaluria
Cited by: 49
Author(s): Travis J. Riedel, Lynnette C. Johnson, John Knight, Roy R. Hantgan, Ross P. Holmes, W. Todd Lowther
Software Mentions: 2
Published: about 13 years ago

10.1107/S0907444913000462

Bulk-solvent and overall scaling revisited: faster calculations, improved results
Cited by: 70
Author(s): Pavel V. Afonine, Ralf W. Grosse‐Kunstleve, Paul D. Adams, Alexandre Urzhumtsev
Software Mentions: 2
Published: over 11 years ago

10.1371/journal.pgen.1002484

Structural Basis of Transcriptional Gene Silencing Mediated by Arabidopsis MOM1
Cited by: 22
Author(s): Takehiro Nishimura, Guillaume Molinard, Tom J. Petty, Larissa Broger, Caroline Gabus, Thanos D. Halazonetis, Stéphane Thore, Jerzy Paszkowski
Software Mentions: 2
Published: almost 13 years ago

10.1371/journal.pone.0167763

Crystal Structure of the Streptomyces coelicolor Sortase E1 Transpeptidase Provides Insight into the Binding Mode of the Novel Class E Sorting Signal
Cited by: 21
Author(s): Michele D. Kattke, Albert H. Chan, Andrew Duong, Danielle L. Sexton, M.R. Sawaya, Duilio Cascio, Marie A. Elliot, Robert T. Clubb
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0069833

An Activating Mutation Reveals a Second Binding Mode of the Integrin α2 I Domain to the GFOGER Motif in Collagens
Cited by: 29
Author(s): Federico Carafoli, Samir Hamaia, Dominique Bihan, Erhard Hohenester, Richard W. Farndale
Software Mentions: 2
Published: over 11 years ago

10.1016/j.cell.2021.02.032

The antigenic anatomy of SARS-CoV-2 receptor binding domain
Cited by: 294
Author(s): Wanwisa Dejnirattisai, Daming Zhou, H. Ginn, Duyvesteyn Hme., Piyada Supasa, William James, Yuguang Zhao, Thomas S. Walter, Alexander J. Mentzer, Chang Liu, Beibei Wang, Guido C. Paesen, J Slon-Campos, César López-Camacho, Natasha M. Kafai, Adam L. Bailey, Rita E. Chen, Ying Bai, Craig Thompson, Jai S Bolton, Alex Fyfe, Sunetra Gupta, Tiong Kit Tan, Javier Gilbert‐Jaramillo, Michael Knight, Miles W. Carroll, Donal Skelly, Christina Dold, Yanchun Peng, Robert H. Levin, Tao Dong, Andrew J. Pollard, Julian C. Knight, Paul Klenerman, Nigel Temperton, David R. Hall, Mark A. Williams, Neil G. Paterson, Felicity K.R. Bertram, C. Alistair Siebert, Daniel K. Clare, Andrew Howe, Julika Radecke, Yun Song, Alain Townsend, Kuan Ying A. Huang, Elizabeth E. Fry, Juthathip Mongkolsapaya, Michael S. Diamond, Jingshan Ren, D.I. Stuart, Gavin Screaton
Software Mentions: 2
Published: over 3 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 4 years ago

10.1107/S139900471402776X

Structures of the human Pals1 PDZ domain with and without ligand suggest gated access of Crb to the PDZ peptide-binding groove
Cited by: 24
Author(s): Marina E. Ivanova, Georgina Fletcher, Nicola O’Reilly, A. Purkiss, B. J. Thompson, Neil Q. McDonald
Software Mentions: 2
Published: over 9 years ago

10.1371/journal.pone.0096198

Structural Basis for the Site-Specific Incorporation of Lysine Derivatives into Proteins
Cited by: 16
Author(s): Veronika Flügel, Milan Vrábel, Sabine Schneider
Software Mentions: 2
Published: over 10 years ago

10.1107/S1399004713029040

Towards accurate structural characterization of metal centres in protein crystals: the structures of Ni and Cu T6bovine insulin derivatives
Cited by: 17
Author(s): Christian Grundahl Frankær, Susanne Mossin, Kenny Ståhl, Pernille Harris
Software Mentions: 2
Published: almost 11 years ago

10.1107/S1399004714010311

Structures of the NLRP14 pyrin domain reveal a conformational switch mechanism regulating its molecular interactions
Cited by: 18
Author(s): Clarissa Eibl, Manuel Hessenberger, Julia Wenger, Hans Brandstetter
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0196642

Structure of frequency-interacting RNA helicase from Neurospora crassa reveals high flexibility in a domain critical for circadian rhythm and RNA surveillance
Cited by: 9
Author(s): Yalemi Morales, Keith J. Olsen, Jacqueline M. Bulcher, Sean Johnson
Software Mentions: 2
Published: over 6 years ago

10.1128/AAC.00681-18

Structure-Based Drug Design and Characterization of Sulfonyl-Piperazine Benzothiazinone Inhibitors of DprE1 from Mycobacterium tuberculosis
Cited by: 41
Author(s): Jéremie Piton, Anthony Vocat, Andréanne Lupien, Caroline S. Foo, Olga Riabova, Vadim Makarov, Stewart T. Cole
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0032070

Recognition of Anesthetic Barbiturates by a Protein Binding Site: A High Resolution Structural Analysis
Cited by: 13
Author(s): Simon Oakley, L.S. Vedula, Weiming Bu, Qing Cheng Meng, Xi Jin, Renyu Liu, Roderic G. Eckenhoff, Patrick J. Loll
Software Mentions: 2
Published: almost 13 years ago

10.1371/journal.pone.0140984

Improving the pH-stability of Versatile Peroxidase by Comparative Structural Analysis with a Naturally-Stable Manganese Peroxidase
Cited by: 40
Author(s): Verónica Sáez-Jiménez, Elena Fernández‐Fueyo, F.J. Medrano, Antonio Romero, Ángel T. Martínez, Francisco J. Ruíz-Dueñas
Software Mentions: 2
Published: about 9 years ago

10.1371/journal.pone.0052066

Structural and Functional Insights into (S)-Ureidoglycolate Dehydrogenase, a Metabolic Branch Point Enzyme in Nitrogen Utilization
Cited by: 4
Author(s): Myungil Kim, Inchul Shin, Suhee Cho, Jee Hyun Lee, Sangkee Rhee
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pgen.1004533

The TRIM-NHL Protein LIN-41 Controls the Onset of Developmental Plasticity in Caenorhabditis elegans
Cited by: 59
Author(s): Cristina Tocchini, J.J. Keusch, Sarah Miller, Susanne Finger, H. Gut, Michael Stadler, Rafal Ciosk
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0206260

Crystal structure and functional characterization of a cold-active acetyl xylan esterase (PbAcE) from psychrophilic soil microbe Paenibacillus sp.
Cited by: 21
Author(s): Sunha Park, Woo-Kyoung Yoo, Chang Woo Lee, Chang-Sung Jeong, Seung Chul Shin, Han-Woo Kim, Hyun Park, Kyeong Kyu Kim, T. Doohun Kim, Jun Hyuck Lee
Software Mentions: 2
Published: about 6 years ago

10.1128/AAC.01636-16

Active-Site Protonation States in an Acyl-Enzyme Intermediate of a Class A β-Lactamase with a Monobactam Substrate
Cited by: 27
Author(s): Venu Gopal Vandavasi, Patricia S. Langan, Kevin L. Weiss, Jerry M. Parks, J.B. Cooper, Stephan L. Ginell, Leighton Coates
Software Mentions: 2
Published: almost 8 years ago

10.1371/journal.pone.0098551

Identification of NAD(P)H Quinone Oxidoreductase Activity in Azoreductases from P. aeruginosa: Azoreductases and NAD(P)H Quinone Oxidoreductases Belong to the Same FMN-Dependent Superfamily of Enzymes
Cited by: 50
Author(s): Ali Ryan, Elise Kaplan, Jean‐Christophe Nebel, Elena Polycarpou, Vincenzo Crescente, E.D. Lowe, Gail M. Preston, Edith Sim
Software Mentions: 2
Published: over 10 years ago

10.1107/S2053230X15024437

Crystal structure of the flavoenzyme PA4991 fromPseudomonas aeruginosa
Cited by: 0
Author(s): Agata Jacewicz, R. Schnell, Ylva Lindqvist, Günter Schneider
Software Mentions: 2
Published: almost 9 years ago

10.1371/journal.pone.0175317

Differential CLE peptide perception by plant receptors implicated from structural and functional analyses of TDIF-TDR interactions
Cited by: 15
Author(s): Zhijie Li, Sayan Chakraborty, Gang Xu
Software Mentions: 2
Published: over 7 years ago

10.1107/S2059798315024110

Data-collection strategy for challenging native SAD phasing
Cited by: 40
Author(s): V. Oliéric, T. Weinert, Aaron D. Finke, Carolin Anders, Dianfan Li, Natacha Olieric, Camelia N. Borca, Michel O. Steinmetz, Martin Caffrey, Martin Jinek, Meitian Wang
Software Mentions: 2
Published: over 8 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 11 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: about 6 years ago

10.1016/j.celrep.2018.05.046

Co-evolution of HIV Envelope and Apex-Targeting Neutralizing Antibody Lineage Provides Benchmarks for Vaccine Design
Cited by: 52
Author(s): Kimmo Rantalainen, Zachary T. Berndsen, Sasha Murrell, Liwei Cao, Oluwarotimi Omorodion, Jonathan L. Torres, Mengyu Wu, Jeffrey C. Umotoy, Jeffrey Copps, Pascal Poignard, Elise Landais, James C. Paulson, Ian A. Wilson, Andrew B. Ward
Software Mentions: 2
Published: over 6 years ago

10.1107/S1399004715002928

Structures of the hydrolase domain of zebrafish 10-formyltetrahydrofolate dehydrogenase and its complexes reveal a complete set of key residues for hydrolysis and product inhibition
Cited by: 6
Author(s): Chi‐Chang Lin, Phimonphan Chuankhayan, Wei-Ju Chang, Tseng Ting Kao, Hongbing Guan, Hoong Kun Fun, Atsushi Nakagawa, Tzu Fun Fu, Chun‐Jung Chen
Software Mentions: 2
Published: over 9 years ago

10.1038/s41422-020-0363-0

CryoEM structure of the tegumented capsid of Epstein-Barr virus
Cited by: 17
Author(s): Zhihai Li, Xiao Zhang, Lili Dong, Jingjing Pang, Miao Xu, Qian Zhong, Mu‐Sheng Zeng, Xuekui Yu
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0042473

Crystal Structures of the Network-Forming Short-Arm Tips of the Laminin β1 and γ1 Chains
Cited by: 51
Author(s): Federico Carafoli, Sadaf-Ahmahni Hussain, Erhard Hohenester
Software Mentions: 2
Published: over 12 years ago

10.1038/s41422-020-0319-4

Structure of the cytoplasmic ring of the Xenopus laevis nuclear pore complex by cryo-electron microscopy single particle analysis
Cited by: 48
Author(s): Guangli Huang, Yanqing Zhang, Xinhui Zhu, Chao Zeng, Qifan Wang, Qiang Zhou, Qinghua Tao, Minhao Liu, Jianlin Lei, Chuangye Yan, Yigong Shi
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0215555

Heavy-atom labeling of RNA by PLOR for de novo crystallographic phasing
Cited by: 6
Author(s): Jason R. Stagno, Ping Yü, Marcin Dyba, Yun‐Xing Wang, Yu Liu
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0094166

Biochemical Properties and Atomic Resolution Structure of a Proteolytically Processed β-Mannanase from Cellulolytic Streptomyces sp. SirexAA-E
Cited by: 16
Author(s): Taichi E. Takasuka, Justin Acheson, C.M. Bianchetti, Ben M. Prom, Lai F. Bergeman, Adam J. Book, Cameron R. Currie, Brian G. Fox
Software Mentions: 2
Published: over 10 years ago

10.1107/S2053230X18012992

Crystal structures and kinetics ofN-acetylneuraminate lyase fromFusobacterium nucleatum
Cited by: 5
Author(s): J. Kumar, Harshvardhan Rao, Vinod Nayak, S. Ramaswamy
Software Mentions: 2
Published: about 6 years ago

10.1371/journal.pone.0018413

Co-Crystal Structures of PKG Iβ (92–227) with cGMP and cAMP Reveal the Molecular Details of Cyclic-Nucleotide Binding
Cited by: 51
Author(s): Jeong Joo Kim, Darren E. Casteel, Gary B. Huang, Tai Hun Kwon, Ronnie Kuo Ren, Peter H. Zwart, Jeffrey J. Headd, Nicholas G. Brown, Dar Chone Chow, Timothy Palzkill, Choel Kim
Software Mentions: 2
Published: over 13 years ago

10.1107/S1399004715016429

Structure of AadA fromSalmonella enterica: a monomeric aminoglycoside (3′′)(9) adenyltransferase
Cited by: 14
Author(s): Yang Chen, Joakim Näsvall, Shiying Wu, Dan I. Andersson, M. Selmer
Software Mentions: 2
Published: about 9 years ago

10.1128/AEM.01692-19

Crystal Structure of the Catalytic and Cytochrome b Domains in a Eukaryotic Pyrroloquinoline Quinone-Dependent Dehydrogenase
Cited by: 15
Author(s): Kouta Takeda, Takuya Ishida, Makoto Yoshida, Masahiro Samejima, Hiroyuki Ohno, Kiyohiko Igarashi, Nobuhumi Nakamura
Software Mentions: 2
Published: almost 5 years ago

10.1371/journal.pone.0196751

Assigning crystallographic electron densities with free energy calculations—The case of the fluoride channel Fluc
Cited by: 2
Author(s): Igor Ariz-Extreme, Jochen S. Hub
Software Mentions: 2
Published: over 6 years ago

10.1107/S2059798318006356

Crystal structure of the spliceosomal DEAH-box ATPase Prp2
Cited by: 21
Author(s): Andreas Schmitt, Florian Hamann, Piotr Neumann, Ralf Ficner
Software Mentions: 2
Published: over 6 years ago

10.1007/s00253-014-6015-x

Biochemical and structural characterization of a thermostable β-glucosidase from Halothermothrix orenii for galacto-oligosaccharide synthesis
Cited by: 57
Author(s): Noor Hassan, Thu Hà Nguyễn, Montira Intanon, Lokesh D. Kori, Bharat K. C. Patel, Dietmar Haltrich, Christina Divne, T.C. Tan
Software Mentions: 2
Published: about 10 years ago

10.1107/S0907444911047834

Use of knowledge-based restraints in phenix.refine to improve macromolecular refinement at low resolution
Cited by: 213
Author(s): Jeffrey J. Headd, Nathaniel Echols, Pavel V. Afonine, Ralf W. Grosse‐Kunstleve, Vincent B. Chen, Nigel W. Moriarty, David C. Richardson, Jane S. Richardson, Paul D. Adams
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0216979

Crystal structures of Moorella thermoacetica cyanuric acid hydrolase reveal conformational flexibility and asymmetry important for catalysis
Cited by: 2
Author(s): Ke Shi, Chong-Min Kyung, Kelly G. Aukema, Thomas Lee, Asim K. Bera, Jennifer L. Seffernick, Lawrence P. Wackett, Hideki Aihara
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0204703

Structural and biochemical characterization of the Cutibacterium acnes exo-β-1,4-mannosidase that targets the N-glycan core of host glycoproteins
Cited by: 11
Author(s): Tom Reichenbach, Dayanand Kalyani, Rosaria Gandini, Olov Svartström, Henrik Aspeborg, Christina Divne
Software Mentions: 2
Published: about 6 years ago

10.1038/s42003-021-01750-w

The structural basis of function and regulation of neuronal cotransporters NKCC1 and KCC2
Cited by: 43
Author(s): Sensen Zhang, Jun Zhou, Yuebin Zhang, Tianya Liu, Perrine Friedel, Wei Zhuo, Suma Somasekharan, Kasturi Roy, Laixing Zhang, Yang Liu, Xianbin Meng, Haiteng Deng, Wenwen Zeng, Guohui Li, Bliss Forbush, Maojun Yang
Software Mentions: 2
Published: almost 4 years ago

10.1038/s42003-021-02473-8

The structure of an archaeal oligosaccharyltransferase provides insight into the strict exclusion of proline from the N-glycosylation sequon
Cited by: 4
Author(s): Yuya Taguchi, Tomohiro Yamasaki, Marie Ishikawa, Yuki Kawasaki, Ryuji Yukimura, Maki Mitani, Kunio Hirata, Daisuke Kohda
Software Mentions: 2
Published: over 3 years ago

10.1038/s42003-020-01147-1

Molecular basis of the lipid-induced MucA-MucB dissociation in Pseudomonas aeruginosa
Cited by: 6
Author(s): Tao Li, Libang He, Changcheng Li, Mei Kang, Yingjie Song, Yuanfeng Zhu, Yanjiao Shen, Ninglin Zhao, Chang Zhao, Jing Yang, Qin Huang, Xingyu Mou, Aiping Tong, Jinliang Yang, Zhenling Wang, Chengjie Ji, Hong Li, Hong Tang, Rui Bao
Software Mentions: 2
Published: over 4 years ago

10.1038/s42003-021-02326-4

Structure-based insights into evolution of rhodopsins
Cited by: 13
Author(s): Dmitrii Zabelskii, Natalia I. Dmitrieva, Oleksandr Volkov, Vitaly Shevchenko, Kirill Kovalev, Taras Balandin, Dmytro Soloviov, Roman Astashkin, Egor V. Zinovev, Alexey Alekseev, Ekaterina Round, Vitaly Polovinkin, Igor Chizhov, Andrey Rogachev, Ivan Okhrimenko, Valentin Borshchevskiy, Vladimir Chupin, Georg Büldt, Natalia Yutin, Ernst Bamberg, Eugene V. Koonin, Valentin Gordeliy
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0024227

Get Phases from Arsenic Anomalous Scattering: de novo SAD Phasing of Two Protein Structures Crystallized in Cacodylate Buffer
Cited by: 22
Author(s): Xiang Liu, Heng Zhang, Wang Xiao-jun, Lanfen Li, Xiao‐Dong Su
Software Mentions: 2
Published: about 13 years ago

10.1038/s42003-020-01223-6

Sequence specificity analysis of the SETD2 protein lysine methyltransferase and discovery of a SETD2 super-substrate
Cited by: 10
Author(s): Maren Kirstin Schuhmacher, Serap Beldar, Mina S Khella, Alexander Bröhm, Jan Ludwig, W. Tempel, Sara Weirich, Jinrong Min, Albert Jeltsch
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0085940

Crystal Structures of HIV-1 gp120 Envelope Glycoprotein in Complex with NBD Analogues That Target the CD4-Binding Site
Cited by: 47
Author(s): Young Do Kwon, Judith M. LaLonde, Yongping Yang, Mark A. Elban, Akihiro Sugawara, Joel R. Courter, David M. Jones, Amos B. Smith, Asim K. Debnath, Peter D. Kwong
Software Mentions: 2
Published: almost 11 years ago

10.1371/journal.pone.0107000

Crystal Structure of the Mineralocorticoid Receptor DNA Binding Domain in Complex with DNA
Cited by: 39
Author(s): William Henry Hudson, Christine Youn, Eric A. Ortlund
Software Mentions: 2
Published: about 10 years ago

10.1371/journal.pone.0122512

Crystal Structure of a Two-Subunit TrkA Octameric Gating Ring Assembly
Cited by: 2
Author(s): Marc C. Deller, Hope A. Johnson, Mitchell D. Miller, Glen Spraggon, Marc‐André Elsliger, Ian A. Wilson, Scott A. Lesley
Software Mentions: 2
Published: over 9 years ago

10.3390/cancers12061412

A H-REV107 Peptide Inhibits Tumor Growth and Interacts Directly with Oncogenic KRAS Mutants
Cited by: 10
Author(s): Chang Woo Han, Mi Suk Jeong, Soonhoi Ha, Se Bok Jang
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0133033

Identification of Interactions between Abscisic Acid and Ribulose-1,5-Bisphosphate Carboxylase/Oxygenase
Cited by: 16
Author(s): Marek Gałka, Nandhakishore Rajagopalan, Leann Buhrow, Ken M. Nelson, Jacek Switala, Adrian J. Cutler, David R. J. Palmer, P.C. Loewen, Suzanne R. Abrams, Michèle C. Loewen
Software Mentions: 2
Published: over 9 years ago

10.1186/s12915-016-0303-0

Structure of the catalytic domain of the colistin resistance enzyme MCR-1
Cited by: 90
Author(s): V. Stojanoski, Banumathi Sankaran, B. V. Venkataram Prasad, Laurent Poirel, Patrice Nordmann, Timothy Palzkill
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pbio.3001209

Structural basis for SARS-CoV-2 neutralizing antibodies with novel binding epitopes
Cited by: 31
Author(s): Dan Fu, Guangshun Zhang, Yuhui Wang, Zheng Zhang, Hengrui Hu, Shū Shěn, Jun Wu, Bo Li, Xin Li, Yaohui Fang, Jia Liu, Qiao Wang, Yunjiao Zhou, Wei Wang, Yufeng Li, Zhonghua Lu, Xiaoxiao Wang, Cui Nie, Yujie Tian, Da Chen, Yuan Wang, Xuan Zhou, Qisheng Wang, Feng Yu, Chen Zhang, Changjing Deng, Liang Zhou, Guang-kuo Guan, Ningsheng Shao, Zhiyong Lou, Fei Deng, Hongkai Zhang, Xinwen Chen, Manli Wang, Louis Liu, Zihe Rao, Yu Guo
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pbio.2005160

DENR–MCTS1 heterodimerization and tRNA recruitment are required for translation reinitiation
Cited by: 30
Author(s): Yasar Luqman Ahmed, Sibylle Schleich, Jonathan Bohlen, Nicolas Mandel, Bernd Simon, Irmgard Sinning, Aurelio A. Teleman
Software Mentions: 2
Published: over 6 years ago

10.1107/S2053230X14017725

The structure of alanine racemase fromAcinetobacter baumannii
Cited by: 4
Author(s): Emily Davis, Emma Rose Scaletti, Helen K. Opel-Reading, Yoshio Nakatani, Kurt L. Krause
Software Mentions: 2
Published: about 10 years ago

10.1186/s12915-017-0372-8

Ion- and water-binding sites inside an occluded hourglass pore of a trimeric intracellular cation (TRIC) channel
Cited by: 4
Author(s): Xiaomin Ou, Jing Guo, Long Wang, Hongxin Yang, Xiuying Liu, Jianyuan Sun, Zhongfan Liu
Software Mentions: 2
Published: over 7 years ago

10.1107/S2059798318018442

The atypical thiol–disulfide exchange protein α-DsbA2 fromWolbachia pipientisis a homotrimeric disulfide isomerase
Cited by: 4
Author(s): Patricia Walden, Andrew E. Whitten, Lakshmanane Premkumar, Maria A. Halili, Begoña Heras, G. J. King, Jennifer L. Martin
Software Mentions: 2
Published: over 5 years ago

10.1371/journal.pone.0184627

Structure-based design, synthesis and crystallization of 2-arylquinazolines as lipid pocket ligands of p38α MAPK
Cited by: 10
Author(s): Mike Bührmann, Bianca Wiedemann, Matthias Müller, Julia Hardick, Mary Ecke, Daniel Rauh
Software Mentions: 2
Published: about 7 years ago

Projects: cran: PHENIX

Papers Mentioning PHENIX 2,287