cran: PHENIX | Projects | Ecosyste.ms: Papers

10.1038/s42003-020-01283-8

Structural role of essential light chains in the apicomplexan glideosome
Cited by: 8
Author(s): Samuel Pažický, Karthikeyan Dhamotharan, Karol Kaszuba, Haydyn D. T. Mertens, Tim‐Wolf Gilberger, Dmitri I. Svergun, Jan Kosiński, Ulrich Weininger, Christian Löw
Software Mentions: 2
Published: almost 5 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: over 10 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: about 5 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: about 7 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: about 7 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: about 7 years ago

10.1074/jbc.M116.749713

Structural and Kinetic Studies of the Human Nudix Hydrolase MTH1 Reveal the Mechanism for Its Broad Substrate Specificity
Cited by: 27
Author(s): Shaimaa Waz, Teruya Nakamura, Keisuke Hirata, Yukari Koga‐Ogawa, Mami Chirifu, Takao Arimori, Taro Tamada, Shinji Ikemizu, Yusaku Nakabeppu, Yuriko Yamagata
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.62518

Structure of bacterial phospholipid transporter MlaFEDB with substrate bound
Cited by: 42
Author(s): Nicolas Coudray, Georgia L. Isom, M.R. MacRae, Mariyah N. Saiduddin, Gira Bhabha, D.C. Ekiert
Software Mentions: 2
Published: over 4 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: about 7 years ago

10.7554/eLife.51492

Structural basis of substrate recognition by a polypeptide processing and secretion transporter
Cited by: 23
Author(s): Virapat Kieuvongngam, Paul Dominic B. Olinares, Anthony Palillo, Michael L. Oldham, Brian T. Chait, Jue Chen
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.49439

Decoding WW domain tandem-mediated target recognitions in tissue growth and cell polarity
Cited by: 33
Author(s): Zhijie Lin, Yang Zhou, Ruiling Xie, Zeyang Ji, Kun‐Liang Guan, Mingjie Zhang
Software Mentions: 2
Published: almost 6 years ago

10.1074/jbc.M117.781948

Structure of the WipA protein reveals a novel tyrosine protein phosphatase effector from Legionella pneumophila
Cited by: 10
Author(s): Nikos Pinotsis, Gabriel Waksman
Software Mentions: 2
Published: about 8 years ago

10.1074/jbc.M117.780395

The crystal structure of mammalian inositol 1,3,4,5,6-pentakisphosphate 2-kinase reveals a new zinc-binding site and key features for protein function
Cited by: 7
Author(s): Elsa Franco-Echevarría, Julia Sanz‐Aparicio, Charles A. Brearley, Juana María González-Rubio, Beatriz González
Software Mentions: 2
Published: about 8 years ago

10.1002/cbic.201800462

Structure and Catalytic Mechanism of a Bacterial Friedel–Crafts Acylase
Cited by: 23
Author(s): Tea Pavkov‐Keller, Nina G. Schmidt, Anna Żądło‐Dobrowolska, Wolfgang Kroutil, Karl Gruber
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.33442

Decoding the centromeric nucleosome through CENP-N
Cited by: 98
Author(s): Satyakrishna Pentakota, Keda Zhou, Charlotte M. Smith, Stefano Maffini, Arsen Petrovic, Garry Morgan, John R. Weir, Ingrid R. Vetter, Andrea Musacchio, Karolin Luger
Software Mentions: 2
Published: over 7 years ago

10.7554/eLife.06074

Autoinhibition of Bruton's tyrosine kinase (Btk) and activation by soluble inositol hexakisphosphate
Cited by: 74
Author(s): Qi Wang, Erik Vogan, Laura M. Nocka, Connor Rosen, Julie A. Zorn, Stephen C. Harrison, John Kuriyan
Software Mentions: 2
Published: over 10 years ago

10.7554/eLife.52774

Structures of the ATP-fueled ClpXP proteolytic machine bound to protein substrate
Cited by: 94
Author(s): Fei X, Tristan A Bell, Simon Jenni, Benjamin M. Stinson, T.A. Baker, Stephen C. Harrison, Robert T. Sauer
Software Mentions: 2
Published: over 5 years ago

10.7554/eLife.02375

AFF4 binding to Tat-P-TEFb indirectly stimulates TAR recognition of super elongation complexes at the HIV promoter
Cited by: 44
Author(s): Ursula Schulze‐Gahmen, Huasong Lu, Qiang Zhou, Tom Alber
Software Mentions: 2
Published: over 11 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: almost 7 years ago

10.7554/eLife.43229

Structural basis of Ca2+-dependent activation and lipid transport by a TMEM16 scramblase
Cited by: 81
Author(s): Maria Falzone, Jan Rheinberger, B.C. Lee, Thasin Peyear, Linda Sasset, Ashleigh M. Raczkowski, Edward T. Eng, Annarita Di Lorenzo, Olaf S. Andersen, Crina M. Nimigean, Alessio Accardi
Software Mentions: 2
Published: over 6 years ago

10.1074/jbc.M117.797811

Discovery of a microbial transglutaminase enabling highly site-specific labeling of proteins
Cited by: 42
Author(s): Wojtek Steffen, Fu Chong Ko, Jigar Patel, Victor I. Lyamichev, Thomas Albert, Jörg Benz, M.G. Rudolph, Frank Bergmann, Thomas Streidl, Peter Kratzsch, Mara Boenitz-Dulat, Tobias Oelschlaegel, Michael Schraeml
Software Mentions: 2
Published: almost 8 years ago

10.7554/eLife.62117

Structural basis for transcription complex disruption by the Mfd translocase
Cited by: 31
Author(s): Jin Young Kang, Eliza Llewellyn, James Chen, Paul Dominic B. Olinares, Joshua Brewer, Brian T. Chait, Elizabeth A. Campbell, Seth A. Darst
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.22679

Evolution of substrate specificity in a retained enzyme driven by gene loss
Cited by: 21
Author(s): Ana Lilia Juárez-Vázquez, Janaka N. Edirisinghe, E.A. Verduzco-Castro, K. Michalska, Chenggang Wu, Lianet Noda-García, G. Babnigg, M. Endres, Sofía Medina-Ruiz, Julián Santoyo-Flores, Mauricio Carrillo‐Tripp, Hung Ton‐That, A. Joachimiak, Christopher S. Henry, Francisco Barona‐Gómez
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.60482

Structure of the bacterial ribosome at 2 Å resolution
Cited by: 125
Author(s): Zoe L Watson, Fred R. Ward, Raphaël Méheust, Omer Ad, Alanna Schepartz, Jillian F. Banfield, Jamie H. D. Cate
Software Mentions: 2
Published: almost 5 years ago

10.7554/eLife.42400

DNA translocation mechanism of an XPD family helicase
Cited by: 32
Author(s): Kaiying Cheng, Dale B. Wigley
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.03579

Structure and substrate ion binding in the sodium/proton antiporter PaNhaP
Cited by: 82
Author(s): David Wöhlert, Werner Kühlbrandt, Özkan Yıldız
Software Mentions: 2
Published: over 10 years ago

10.7554/eLife.21510

Structural insights into the mechanism of the DEAH-box RNA helicase Prp43
Cited by: 75
Author(s): M.J. Tauchert, Jean‐Baptiste Fourmann, Reinhard Lührmann, Ralf Ficner
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.28020

A novel central nervous system-penetrating protease inhibitor overcomes human immunodeficiency virus 1 resistance with unprecedented aM to pM potency
Cited by: 39
Author(s): Manabu Aoki, Hironori Hayashi, Kalapala Venkateswara Rao, Debananda Das, Nobuyo Higashi-Kuwata, Haydar Bulut, Hiromi Aoki-Ogata, Yuki Takamatsu, Ravikiran S. Yedidi, David A. Davis, Shin Hattori, Noriko Nishida, Kazuya Hasegawa, Nobutoki Takamune, Prasanth R. Nyalapatla, Heather L. Osswald, Hirofumi Jono, Hideyuki Saya, Robert Yarchoan, Shogo Misumi, Arun K. Ghosh, Hiroaki Mitsuya
Software Mentions: 2
Published: almost 8 years ago

10.1074/jbc.M117.802587

Phosphorylation of human enhancer filamentation 1 (HEF1) stimulates interaction with Polo-like kinase 1 leading to HEF1 localization to focal adhesions
Cited by: 6
Author(s): Kyung Ho Lee, Jeong Ah Hwang, Sun Ok Kim, Jung Hee Kim, Sang Chul Shin, Eunice Eun Kyeong Kim, Kyung S. Lee, Kunsoo Rhee, Byeong Hwa Jeon, Jeong Kyu Bang, Hyunjoo Cha-Molstad, Nak-Kyun Soung, Jae Hyuk Jang, Sung-Kyun Ko, Hee Gu Lee, Jong Seog Ahn, Yongtae Kwon, Bo Yeon Kim
Software Mentions: 2
Published: over 7 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 12 years ago

10.1074/jbc.M117.809657

Prodomain–growth factor swapping in the structure of pro-TGF-β1
Cited by: 29
Author(s): Bo Zhao, Shutong Xu, Xiao Dong, Chafen Lu, Timothy A. Springer
Software Mentions: 2
Published: over 7 years ago

10.7554/eLife.57887

The architecture of EMC reveals a path for membrane protein insertion
Cited by: 72
Author(s): John P. O’Donnell, Ben P. Phillips, Yuichi Yagita, Szymon Juszkiewicz, Armin Wagner, Duccio Malinverni, Robert J. Keenan, Elizabeth A. Miller, Ramanujan S. Hegde
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms130810010

Effects of a Buried Cysteine-To-Serine Mutation on Yeast Triosephosphate Isomerase Structure and Stability
Cited by: 6
Author(s): Alejandra Hernández-Santoyo, Lenin Domínguez-Ramírez, César A. Reyes-López, Edith González-Mondragón, Andrés Hernández‐Arana, Adela Rodrı́guez-Romero
Software Mentions: 2
Published: almost 13 years ago

10.1074/jbc.RA117.000119

Structural analysis of group II chitinase (ChtII) catalysis completes the puzzle of chitin hydrolysis in insects
Cited by: 45
Author(s): Wei Chen, Mingli Qu, Yong Zhou, Qing Yang
Software Mentions: 2
Published: over 7 years ago

10.1074/jbc.M117.816348

Exceptionally high-affinity Ras binders that remodel its effector domain
Cited by: 33
Author(s): John H. McGee, So Youn Shim, Seung-Joo Lee, Paige Swanson, Sam Y. Jiang, Michael A. Durney, Gregory L. Verdine
Software Mentions: 2
Published: over 7 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: almost 7 years ago

10.3390/ijms17040446

Structure of the PLP-Form of the Human Kynurenine Aminotransferase II in a Novel Spacegroup at 1.83 Å Resolution
Cited by: 13
Author(s): Alireza Nematollahi, Guorong Sun, S.J. Harrop, Jane R. Hanrahan, W. Bret Church
Software Mentions: 2
Published: over 9 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: almost 5 years ago

10.1038/s42003-018-0123-6

In situ serial crystallography for rapid de novo membrane protein structure determination
Cited by: 26
Author(s): Chia-Ying Huang, V. Oliéric, Nicole Howe, Rangana Warshamanage, T. Weinert, Ezequiel Panepucci, Lutz Vogeley, Shibom Basu, Kay Diederichs, Martin Caffrey, Meitian Wang
Software Mentions: 2
Published: almost 7 years ago

10.3390/ijms18071336

Quinolin-6-Yloxyacetamides Are Microtubule Destabilizing Agents That Bind to the Colchicine Site of Tubulin
Cited by: 9
Author(s): Ashwani Sharma, Gonzalo Sáez-Calvo, Natacha Olieric, Francisco de Asís Balaguer, Isabel Barasoaín, Clemens Lamberth, J. Fernando Díaz, Michel O. Steinmetz
Software Mentions: 2
Published: about 8 years ago

10.1074/jbc.RA118.005405

InhA, the enoyl-thioester reductase from Mycobacterium tuberculosis forms a covalent adduct during catalysis
Cited by: 15
Author(s): Bastian Vögeli, Raoul Rosenthal, Gabriele Stoffel, T. Wagner, Patrick Kiefer, Niña Socorro Cortina, Seigo Shima, Tobias J. Erb
Software Mentions: 2
Published: over 6 years ago

10.1074/jbc.RA118.004227

Oxidative cyclization of N-methyl-dopa by a fungal flavoenzyme of the amine oxidase family
Cited by: 3
Author(s): Majd Lahham, Tea Pavkov‐Keller, Michael Fuchs, Johannes Niederhauser, Gabriel Chalhoub, Bastian Daniel, Wolfgang Kroutil, Karl Gruber, Peter Macheroux
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms20061392

Crystal Structure of the Cyclostreptin-Tubulin Adduct: Implications for Tubulin Activation by Taxane-Site Ligands
Cited by: 23
Author(s): Francisco de Asís Balaguer, Tobias Mühlethaler, Juan Estévez-Gallego, Enrique Calvo, Juan F. Giménez-Abián, April L. Risinger, Erik J. Sorensen, Christopher D. Vanderwal, Karl‐Heinz Altmann, Susan L. Mooberry, Michel O. Steinmetz, M.A. Oliva, A.E. Prota, J. Fernando Díaz
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms20071533

The Molecular and Structural Basis of O-methylation Reaction in Coumarin Biosynthesis in Peucedanum praeruptorum Dunn
Cited by: 13
Author(s): Yucheng Zhao, Nana Wang, Ziwei Sui, C.H. Huang, Zhixiong Zeng, Ling‐Yi Kong
Software Mentions: 2
Published: over 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: almost 7 years ago

10.1074/jbc.RA118.003857

The structure of the deubiquitinase USP15 reveals a misaligned catalytic triad and an open ubiquitin-binding channel
Cited by: 33
Author(s): Stephanie J. Ward, Hayley E. Gratton, Peni Indrayudha, Camille Michavila, Rishov Mukhopadhyay, Sigrun K. Maurer, Simon G. Caulton, Jonas Emsley, Ingrid Dreveny
Software Mentions: 2
Published: over 6 years ago

10.3390/ijms20205085

Crystal Structure-Based Exploration of Arginine-Containing Peptide Binding in the ADP-Ribosyltransferase Domain of the Type III Effector XopAI Protein
Cited by: 5
Author(s): Jyung-Hurng Liu, Jun-Yi Yang, Duen-Wei Hsu, Yi-Hua Lai, Yun-Pei Li, Yi-Rung Tsai, Ming-Hon Hou
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijms20246279

Structural Insights into the Intracellular Region of the Human Magnesium Transport Mediator CNNM4
Cited by: 13
Author(s): Paula Giménez-Mascarell, Iker Oyenarte, Irene González‐Recio, Carmen Fernández‐Rodríguez, María Ángeles Corral-Rodríguez, Igone Campos-Zarraga, Jorge Simón, Elie Kostantin, Serge Hardy, Antonio Díaz-Quintana, Mara Zubillaga Lizeaga, Nekane Merino, Tammo Diercks, Francisco J. Blanco, Irene Dίaz–Moreno, María Luz Martínez‐Chantar, Michel L. Tremblay, Dominik Müller, Dritan Siliqi, Luis Alfonso Martínez-Cruz
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms21010083

The Structure of Sucrose-Soaked Levansucrase Crystals from Erwinia tasmaniensis reveals a Binding Pocket for Levanbiose
Cited by: 14
Author(s): Ivan Polsinelli, Rosanna Caliandro, Nicola Demitri, Stefano Benini
Software Mentions: 2
Published: over 5 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: about 4 years ago

10.1016/j.csbj.2021.06.006

A fragment-based approach to assess the ligandability of ArgB, ArgC, ArgD and ArgF in the L-arginine biosynthetic pathway of Mycobacterium tuberculosis
Cited by: 13
Author(s): P. Gupta, S.E. Thomas, Shaymaa A. Zaidan, Maria A. Pasillas, J. Cory-Wright, Víctor Sebastián-Pérez, Ailidh Burgess, Emma Cattermole, C. Meghir, Chris Abell, Anthony G. Coyne, William R. Jacobs, Tom L. Blundell, Sangeeta Tiwari, V. Mendes
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms21072600

Structural Characterization of an ACP from Thermotoga maritima: Insights into Hyperthermal Adaptation
Cited by: 8
Author(s): Yeongjoon Lee, Ahjin Jang, Min‐Cheol Jeong, Nuri Park, Jungwoo Park, Woo Cheol Lee, Chaejoon Cheong, Yangmee Kim
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms21093332

Polysaccharide-Based Injection Matrix for Serial Crystallography
Cited by: 25
Author(s): Ki Hyun Nam
Software Mentions: 2
Published: about 5 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: over 6 years ago

10.3390/ijms21155277

Biophysical Characterization of Cancer-Related Carbonic Anhydrase IX
Cited by: 4
Author(s): Katarina Koruza, Akilah B. Murray, Brian P. Mahon, Jesse B. Hopkins, Wolfgang Knecht, Robert McKenna, S.Z. Fisher
Software Mentions: 2
Published: about 5 years ago

10.3390/ijms21165915

Biochemical Characterization and Crystal Structure of a Novel NAD+-Dependent Isocitrate Dehydrogenase from Phaeodactylum tricornutum
Cited by: 5
Author(s): Shiping Huang, Luchun Zhou, Bin Wen, Peng Wang
Software Mentions: 2
Published: almost 5 years ago

10.3390/ijms21197081

Impact of HLA-DR Antigen Binding Cleft Rigidity on T Cell Recognition
Cited by: 5
Author(s): Christopher Szeto, Joseph Bloom, Hannah Sloane, Christian A. Lobos, James Fodor, Dhilshan Jayasinghe, D.S.M. Chatzileontiadou, Emma J. Grant, Ashley M. Buckle, Stéphanie Gras
Software Mentions: 2
Published: almost 5 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: over 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: over 6 years ago

10.1016/j.csbj.2015.08.005

Integrative Modeling of Macromolecular Assemblies from Low to Near-Atomic Resolution
Cited by: 22
Author(s): Xiaojun Xu, Yan Cheng, Robert M. Wohlhueter, Ivaylo Ivanov
Software Mentions: 2
Published: over 10 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 6 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 6 years ago

10.3390/ijms22063219

Crystal Structure of a Phospholipase D from the Plant-Associated Bacteria Serratia plymuthica Strain AS9 Reveals a Unique Arrangement of Catalytic Pocket
Cited by: 7
Author(s): Fanghua Wang, Siyu Liu, Xuejing Mao, Ruiguo Cui, Bo Yang, Yonghua Wang
Software Mentions: 2
Published: over 4 years ago

10.3390/ijms22094769

Crystal Structure of Escherichia coli Agmatinase: Catalytic Mechanism and Residues Relevant for Substrate Specificity
Cited by: 4
Author(s): Pablo Maturana, Marı́a S. Orellana, Sixto M. Herrera, Ignacio Martı́nez, Maximiliano Figueroa, José Martínez‐Oyanedel, Víctor Castro‐Fernández, Elena Uribe
Software Mentions: 2
Published: about 4 years ago

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: about 6 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: about 6 years ago

10.3390/cells8060570

An Emerin LEM-Domain Mutation Impairs Cell Response to Mechanical Stress
Cited by: 12
Author(s): Nada Essawy, Camille Samson, Ambre Petitalot, Sophie Moog, Anne Bigot, Isaline Herrada, Agathe Marcelot, Ana-Andreea Arteni, Catherine Coirault, Sophie Zinn‐Justin
Software Mentions: 2
Published: about 6 years ago

10.3390/ijms22136830

‘All That Glitters Is Not Gold’: High-Resolution Crystal Structures of Ligand-Protein Complexes Need Not Always Represent Confident Binding Poses
Cited by: 6
Author(s): Sohini Chakraborti, Kaushik Hatti, Narayanaswamy Srinivasan
Software Mentions: 2
Published: about 4 years ago

10.3390/ijms22136859

Sub-3 Å Cryo-EM Structures of Necrosis Virus Particles via the Use of Multipurpose TEM with Electron Counting Camera
Cited by: 1
Author(s): Chun-Hsiung Wang, Donghua Chen, Shih-Hsin Huang, Yimin A. Wu, Yiyun Chen, Y. Hwu, David Bushnell, Roger D. Kornberg, Wen Ho Chang
Software Mentions: 2
Published: about 4 years ago

10.3390/ijms22179140

Structural and Functional Characterizations of Cancer Targeting Nanoparticles Based on Hepatitis B Virus Capsid
Cited by: 0
Author(s): Yunseok Heo, Hyomin Jeong, Youngki Yoo, Ji-Hye Yun, Bumhan Ryu, Young-je Cha, Boram Lee, Ye-Eun Jeon, Jongmin Kim, S.-H. Jeong, Eunji Jo, Jae Sung Woo, Jeewon Lee, Hyun-Soo Cho, Weontae Lee
Software Mentions: 2
Published: almost 4 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 6 years ago

10.3390/ijms221910640

Trop2 Forms a Stable Dimer with Significant Structural Differences within the Membrane-Distal Region as Compared to EpCAM
Cited by: 10
Author(s): Miha Pavšič
Software Mentions: 2
Published: almost 4 years ago

10.3390/ijms221910862

Loops around the Heme Pocket Have a Critical Role in the Function and Stability of BsDyP from Bacillus subtilis
Cited by: 7
Author(s): Carolina Rodrigues, Patrícia T. Borges, Magalí F. Scocozza, Diogo Silva, André Taborda, Vânia Brissos, Carlos Frazão, Lı́gia O. Martins
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12951-019-0512-0

Design and site-directed compartmentalization of gold nanoclusters within the intrasubunit interfaces of ferritin nanocage
Cited by: 16
Author(s): Jiachen Zang, Bowen Zheng, Xiuqing Zhang, Paolo Arosio, Guanghua Zhao
Software Mentions: 2
Published: about 6 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: about 6 years ago

10.1016/j.csbj.2021.05.035

Altered APE1 activity on abasic ribonucleotides is mediated by changes in the nucleoside sugar pucker
Cited by: 6
Author(s): N.M. Hoitsma, Timothy H. Click, Pratul K. Agarwal, Bret Freudenthal
Software Mentions: 2
Published: over 4 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: over 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: over 4 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: about 6 years ago

10.18632/oncotarget.21652

Structural basis of the therapeutic anti-PD-L1 antibody atezolizumab
Cited by: 54
Author(s): Fei Zhang, Xiaoqiang Qi, Xiaoxiao Wang, Diyang Wei, Jiawei Wu, Lingling Feng, Haiyan Cai, Yugang Wang, Naiyan Zeng, Ting Xu, Aiwu Zhou, Ying Zheng
Software Mentions: 2
Published: almost 8 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: over 4 years ago

10.1155/2017/4342789

Identification, Characterization, and Structure of Tm16 fromTrichuris muris
Cited by: 10
Author(s): Zhuyun Liu, Alan Kelleher, Shanii Tabb, Junfei Wei, Jeroen Pollet, Peter J. Hotez, María Elena Bottazzi, Bin Zhan, Oluwatoyin A. Asojo
Software Mentions: 2
Published: over 8 years ago

10.1098/rsob.120142

Structure and function of cytidine monophosphate kinase from Yersinia pseudotuberculosis , essential for virulence but not for survival
Cited by: 11
Author(s): Nicola Walker, Elizabeth A. Clark, Donna C. Ford, Helen L. Bullifent, Erin V. McAlister, Melanie Duffield, K. Ravi Acharya, Petra C. F. Oyston
Software Mentions: 2
Published: over 12 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: about 6 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: about 6 years ago

10.1021/acs.cgd.0c01608

Production of Cross-Linked Lipase Crystals at a Preparative Scale
Cited by: 10
Author(s): Raquel Fernández-Penas, Cristóbal Verdugo‐Escamilla, Sergio Martínez‐Rodríguez, José A. Gavira
Software Mentions: 2
Published: over 4 years ago

10.1098/rsob.150128

Influence of DNA methylation on positioning and DNA flexibility of nucleosomes with pericentric satellite DNA
Cited by: 22
Author(s): Akihisa Osakabe, Fumiya Adachi, Yasuhiro Arimura, Kazuhira Maehara, Yasuyuki Ohkawa, Hitoshi Kurumizaka
Software Mentions: 2
Published: almost 10 years ago

10.1098/rsob.160053

Structure of astrotactin-2: a conserved vertebrate-specific and perforin-like membrane protein involved in neuronal development
Cited by: 28
Author(s): Ni Tien, K. Harlos, Robert J.C. Gilbert
Software Mentions: 2
Published: about 9 years ago

10.1098/rsob.160090

Structural and biochemical analyses of monoubiquitinated human histones H2B and H4
Cited by: 32
Author(s): Shuichi Machida, Satoshi Sekine, Yuka Nishiyama, Naoki Horikoshi, Hitoshi Kurumizaka
Software Mentions: 2
Published: about 9 years ago

10.1098/rsob.160127

Crystal structures of heterotypic nucleosomes containing histones H2A.Z and H2A
Cited by: 24
Author(s): Naoki Horikoshi, Yasuhiro Arimura, Hiroyuki Taguchi, Hitoshi Kurumizaka
Software Mentions: 2
Published: about 9 years ago

10.1098/rsob.160157

Exploring the active site of the Streptococcus pneumoniae topoisomerase IV–DNA cleavage complex with novel 7,8-bridged fluoroquinolones
Cited by: 18
Author(s): Ivan Laponogov, Xiao Su Pan, D. A. Veselkov, Ryan T. Cirz, Allan S. Wagman, Heinz Moser, L. Mark Fisher, Mark Sanderson
Software Mentions: 2
Published: almost 9 years ago

10.1016/j.jsb.2015.08.009

Polyhedra structures and the evolution of the insect viruses
Cited by: 23
Author(s): Xiaoyun Ji, Danny Axford, Robin L. Owen, Gwyndaf Evans, H. Ginn, Geoff Sutton, David I. Stuart
Software Mentions: 2
Published: almost 10 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: over 4 years ago

10.1016/j.jsb.2014.12.002

Seeing tobacco mosaic virus through direct electron detectors
Cited by: 82
Author(s): Simon A. Fromm, Tanmay A. M. Bharat, Arjen J. Jakobi, Wim J. H. Hagen, Carsten Sachse
Software Mentions: 2
Published: over 10 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: over 4 years ago

10.1016/j.jsb.2016.08.006

Structures of type IV pilins from Thermus thermophilus demonstrate similarities with type II secretion system pseudopilins
Cited by: 11
Author(s): V. Karuppiah, Angela Thistlethwaite, Jeremy P. Derrick
Software Mentions: 2
Published: over 8 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: almost 6 years ago

10.1016/j.jsb.2016.01.016

Easy mammalian expression and crystallography of maltose-binding protein-fused human proteins
Cited by: 31
Author(s): Marcel Bokhove, Hamed Sadat Al Hosseini, Takako Saitô, Elisa Dioguardi, Katharina Gegenschatz‐Schmid, Kaoru Nishimura, Isha Raj, Daniele de Sanctis, Ling Han, Luca Jovine
Software Mentions: 2
Published: over 9 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: almost 6 years ago

10.1016/j.yjsbx.2020.100028

A complex between the Zika virion and the Fab of a broadly cross-reactive neutralizing monoclonal antibody revealed by cryo-EM and single particle analysis at 4.1 Å resolution
Cited by: 3
Author(s): Anu Tyagi, Tofayel Ahmed, Jing Shi, Shashi Bhushan
Software Mentions: 2
Published: over 5 years ago

Projects: cran: PHENIX

Science Score: 75/100

Penalties:

Papers Mentioning PHENIX 2,287