pypi: PyMOL | Projects | Ecosyste.ms: Papers

10.1038/s41598-019-41582-7

Highly Mutable Linker Regions Regulate HIV-1 Rev Function and Stability
Cited by: 12
Author(s): Bhargavi Jayaraman, Jason D Fernandes, Sen Yang, Cynthia L. Smith, Alan D. Frankel
Software Mentions: 2
Published: over 7 years ago

10.1155/2020/9145626

Methanolic Bark Extract of Abroma augusta (L.) Induces Apoptosis in EAC Cells through Altered Expression of Apoptosis Regulatory Genes
Cited by: 7
Author(s): Masum Miah, Ajmeri Sultana Shimu, Shafi Mahmud, Farjana-Binta Omar, Ratna Khatun, Sumon Chandro Mohanto, Kazi Md. Faisal Hoque, Abu Reza
Software Mentions: 2
Published: about 6 years ago

10.1107/S2053230X21007378

Structures of the Plasmodium falciparum heat-shock protein 70-x ATPase domain in complex with chemical fragments identify conserved and unique binding sites
Cited by: 3
Author(s): Nada Mohamad, Ailsa O’Donoghue, A.L. Kantsadi, Ioannis Vakonakis
Software Mentions: 2
Published: almost 5 years ago

10.1155/2020/1062325

Pharmacological Network Reveals the Active Mechanism of Qi-Replenishing, Spleen-Strengthening, Phlegm-Dispelling, and Blood-Nourishing Fufang on Coronary Heart Disease
Cited by: 2
Author(s): Fan Zhang, Yue Liu, Sicheng Zheng, Boyi Dang, Jianan Wang, Zhe Zhang
Software Mentions: 2
Published: over 5 years ago

10.1016/j.str.2020.01.012

Characterizing Membrane Association and Periplasmic Transfer of Bacterial Lipoproteins through Molecular Dynamics Simulations
Cited by: 13
Author(s): Shanlin Rao, George T. Bates, Callum R. Matthews, Thomas D. Newport, Owen N. Vickery, Phillip J. Stansfeld
Software Mentions: 2
Published: over 6 years ago

10.1107/S2053230X1402425X

The structure of the cyanobactin domain of unknown function from PatG in the patellamide gene cluster
Cited by: 15
Author(s): Greg Mann, Jesko Koehnke, Andrew F. Bent, R. Scott Graham, Wael E. Houssen, Marcel Jaspars, Ulrich Schwarz‐Linek, James H. Naismith
Software Mentions: 2
Published: over 11 years ago

10.1016/j.str.2020.03.013

Interactions of a Bacterial RND Transporter with a Transmembrane Small Protein in a Lipid Environment
Cited by: 45
Author(s): Dijun Du, Arthur Neuberger, Mona W. Orr, Catherine E. Newman, Pin-Chia Hsu, Firdaus Samsudin, Andrzej Harris, Leana M. Ramos, Mekdes Debela, Syma Khalid, Gisela Storz, Ben F. Luisi
Software Mentions: 2
Published: about 6 years ago

10.1155/2020/7151634

Deciphering the Molecular Targets and Mechanisms of HGWD in the Treatment of Rheumatoid Arthritis via Network Pharmacology and Molecular Docking
Cited by: 21
Author(s): Wei Liu, Yihua Fan, Chunying Tian, Yue Jin, Shaopeng Du, Ping Zeng, Aihua Wang
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.str.2020.12.012

A two-site flexible clamp mechanism for RET-GDNF-GFRα1 assembly reveals both conformational adaptation and strict geometric spacing
Cited by: 5
Author(s): Steven Adams, A. Purkiss, Phillip P. Knowles, Andrea Nans, Deg Briggs, Annabel Borg, Christopher Earl, K.M. Goodman, Agata Nawrotek, Annabel Borg, Pauline B. McIntosh, Francesca M. Houghton, Svend Kjær, Neil Q. McDonald
Software Mentions: 2
Published: over 5 years ago

10.3389/fimmu.2019.01485

Key Features Relevant to Select Antigens and TCR From the MHC-Mismatched Repertoire to Treat Cancer
Cited by: 8
Author(s): Stefan Audehm, Manuel Glaser, Matteo Pecoraro, Eva Bräunlein, Sabine Mall, Klar Richard, Manuel Effenberger, Julian J Albers, Henrique Bianchi, Janet Kerstin Peper, Nahid Yusufi, Dirk H. Busch, Stefan Stevanović, Matthias Mann, Iris Antes, Angela M. Krackhardt
Software Mentions: 2
Published: about 7 years ago

10.1186/s12870-019-2136-9

Defining the function of SUMO system in pod development and abiotic stresses in Peanut
Cited by: 11
Author(s): Yiyang Liu, Jianqing Zhu, Sheng Sun, Feng Cui, Han Yan, Zhenying Peng, Xuejie Zhang, Shubo Wan, Guowei Li
Software Mentions: 2
Published: over 6 years ago

10.7150/thno.55574

Saikosaponin D exhibits anti-leukemic activity by targeting FTO/m6A signaling
Cited by: 47
Author(s): Kaiju Sun, Yangyang Du, Yuzhu Hou, Mingyue Zhao, Jiajia Li, Yangyang Du, Lingxiao Zhang, Changbao Chen, Hongmei Yang, Fei Yan, Rui Su
Software Mentions: 2
Published: over 5 years ago

10.1155/2020/4863015

Uncovering the Mechanism of the Effects of Pien-Tze-Huang on Liver Cancer Using Network Pharmacology and Molecular Docking
Cited by: 5
Author(s): Shanghui Liu, Run Wang, Yan Lou, Jia Liu
Software Mentions: 2
Published: almost 6 years ago

10.3390/toxins11110625

The Sequence and a Three-Dimensional Structural Analysis Reveal Substrate Specificity among Snake Venom Phosphodiesterases
Cited by: 14
Author(s): Atta Ullah, Kifayat Ullah, Hamid Ali, Christian Betzel, Shafiq Ur Rehman
Software Mentions: 2
Published: over 6 years ago

10.3390/toxins13050319

Mechanistic Insight into the Peptide Binding Modes to Two M. tb MazF Toxins
Cited by: 2
Author(s): Ran Chen, Jie Zhou, Wei Xie
Software Mentions: 2
Published: about 5 years ago

10.1155/2020/3219840

Screening for a Potential Therapeutic Agent from the Herbal Formula in the 4th Edition of the Chinese National Guidelines for the Initial-Stage Management of COVID-19 via Molecular Docking
Cited by: 13
Author(s): Yue Sun, Angela Wei Hong Yang, Andrew Hung, George Binh Lenon
Software Mentions: 2
Published: over 5 years ago

10.1038/s41398-018-0168-9

Carbamoylated erythropoietin modulates cognitive outcomes of social defeat and differentially regulates gene expression in the dorsal and ventral hippocampus
Cited by: 18
Author(s): Monica Sathyanesan, Michael J. Watt, Jacob M Haiar, Jamie L. Scholl, Shaydel R. Davies, Riley T. Paulsen, Jayme Wiederin, Paweł Ciborowski, Samuel S. Newton
Software Mentions: 2
Published: about 8 years ago

10.1155/2013/487158

Metabonomics Combined with UPLC-MS Chemical Profile for Discovery of Antidepressant Ingredients of a Traditional Chinese Medicines Formula, Chaihu-Shu-Gan-San
Cited by: 10
Author(s): Hongmei Jia, Zhiheng Su, Wei Long, Yuetao Liu, Xing Chang, Hongwu Zhang, Gang Ding, Yun Feng, Duan Cai, Zhong‐Mei Zou
Software Mentions: 2
Published: over 13 years ago

10.1107/S2053230X18005915

Structure of the tandem PX-PH domains of Bem3 fromSaccharomyces cerevisiae
Cited by: 4
Author(s): Imtiaz S. Ali, Sungmin Eu, Daniel Koch, Nathalie Bleimling, Roger S. Goody, Matthias Müller
Software Mentions: 2
Published: about 8 years ago

10.1038/s41431-020-00728-2

NAA10 p.(N101K) disrupts N-terminal acetyltransferase complex NatA and is associated with developmental delay and hemihypertrophy
Cited by: 6
Author(s): Nina McTiernan, Harinder Gill, Carlos E. Prada, Harry Pachajoa, Juliana Lores, Causes Study, Thomas Arnesen
Software Mentions: 2
Published: almost 6 years ago

10.1016/j.ejmech.2018.04.035

Aminobenzothiazole derivatives stabilize the thermolabile p53 cancer mutant Y220C and show anticancer activity in p53-Y220C cell lines
Cited by: 52
Author(s): Matthias G. J. Baud, Matthias R. Bauer, Lorena Verduci, Felix A. Dingler, Ketan Patel, Debmalya Roy, A.C. Joerger, Alan R. Fersht
Software Mentions: 2
Published: about 8 years ago

10.1080/22221751.2019.1707716

Structural characterization of glycinamide-RNase-transformylase T from Mycobacterium tuberculosis
Cited by: 1
Author(s): Chuanbo Cong, Zuliang Liu, Liguo Liu, Jianmin Wang, Qi Jin
Software Mentions: 2
Published: over 6 years ago

10.1080/22221751.2020.1781551

Virus strain from a mild COVID-19 patient in Hangzhou represents a new trend in SARS-CoV-2 evolution potentially related to Furin cleavage site
Cited by: 40
Author(s): Xi Jin, Kangli Xu, Penglei Jiang, Jiangshan Lian, Shaorui Hao, Hang‐Ping Yao, Hongyu Jia, Yimin Zhang, Lin Zheng, Nuoheng zheng, Dong Chen, Jinmei Yao, Jianhua Hu, Gao J, Liang Wen, Jian Shen, Yue Ren, Guodong Yu, Xiaoyan Wang, Yingfeng Lu, Xiaopeng Yu, Liang Yu, Da‐Xiong Xiang, Nanping Wu, Xiangyun Lu, Linfang Cheng, Fumin Liu, Haibo Wu, Changzhong Jin, Xiaofeng Yang, Pengxu Qian, Yunqing Qiu, Jifang Sheng, Tingbo Liang, Lanjuan Li, Yida Yang
Software Mentions: 2
Published: over 6 years ago

10.1080/22221751.2021.1899770

The preclinical inhibitor GS441524 in combination with GC376 efficaciously inhibited the proliferation of SARS-CoV-2 in the mouse respiratory tract
Cited by: 33
Author(s): Yuejun Shi, Lei Shuai, Zhiyuan Wen, Chong Wang, Yuanyuan Yan, Zhe Jiao, Fenglin Guo, Zhen F. Fu, Huanchun Chen, Zhigao Bu, Guiqing Peng
Software Mentions: 2
Published: over 5 years ago

10.1128/mBio.02272-19

Mycobacterial OtsA Structures Unveil Substrate Preference Mechanism and Allosteric Regulation by 2-Oxoglutarate and 2-Phosphoglycerate
Cited by: 5
Author(s): V. Mendes, Marta Acebrón-García-de-Eulate, Nandini Verma, M. Błaszczyk, M.V.B. Dias, Tom L. Blundell
Software Mentions: 2
Published: over 6 years ago

10.15252/embr.201847182

Multiple C2 domains and transmembrane region proteins ( <scp>MCTP</scp> s) tether membranes at plasmodesmata
Cited by: 78
Author(s): Marie Brault, J.P. Petit, Françoise Immel, William J Nicolas, Marie Glavier, Lysiane Brocard, Amèlia Gaston, Mathieu Fouché, Timothy J. Hawkins, Jean-Marc Crowet, Magali Grison, V. Germain, Marion Rocher, Max Kraner, Vikram Alva, Stéphane Claverol, Andrea Paterlini, Yrjö Helariutta, Magali Deleu, Laurence Lins, Jens Tilsner, Emmanuelle Bayer
Software Mentions: 2
Published: almost 7 years ago

10.1080/19768354.2020.1808529

The immunostimulatory effect of indole-6-carboxaldehyde isolated from Sargassum thunbergii (Mertens) Kuntze 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: about 6 years ago

10.15252/embr.201847183

Structural basis of <scp>HEAT</scp> ‐kleisin interactions in the human condensin I subcomplex
Cited by: 18
Author(s): Kodai Hara, Kazuhisa Kinoshita, Tomoko Migita, Kei Murakami, Kenichiro Shimizu, K. Takeuchi, Takeshi Hirano, Hiroshi Hashimoto
Software Mentions: 2
Published: over 7 years ago

10.1186/1756-0500-5-391

BetaSearch: a new method for querying β-residue motifs
Cited by: 1
Author(s): Hui Kian Ho, Graeme Gange, Michael J. Kuiper, Kotagiri Ramamohanarao
Software Mentions: 2
Published: almost 14 years ago

10.1002/ece3.7582

The complete mitogenome of Phymorhynchus sp. (Neogastropoda, Conoidea, Raphitomidae) provides insights into the deep‐sea adaptive evolution of Conoidea
Cited by: 7
Author(s): Mei Yang, Dong Dong, Xinzheng Li
Software Mentions: 2
Published: about 5 years ago

10.1186/1756-0500-5-626

Crystal structures of wild-type and mutated cyclophilin B that causes hyperelastosis cutis in the American quarter horse
Cited by: 8
Author(s): Sergei P. Boudko, Yoshihiro Ishikawa, Thomas F. Lerch, Jay C. Nix, Michael S. Chapman, Hans Peter Bächinger
Software Mentions: 2
Published: over 13 years ago

10.1002/ana.24073

GRIN2B mutations in west syndrome and intellectual disability with focal epilepsy
Cited by: 176
Author(s): Johannes R. Lemke, Rik Hendrickx, Kirsten Geider, Bodo Laube, Michael Schwake, Robert J. Harvey, Victoria M. James, Alex Pepler, Isabelle Steiner, Konstanze Hörtnagel, John Neidhardt, Susanne Ruf, Markus Wolff, Deborah Bartholdi, Roberto Caraballo, Konrad Platzer, Arvid Suls, Peter De Jonghe, Saskia Biskup, Sarah Weckhuysen
Software Mentions: 2
Published: over 12 years ago

10.1016/j.jmb.2011.11.007

Structure and Kinetic Stability of the p63 Tetramerization Domain
Cited by: 26
Author(s): Eviatar Natan, A.C. Joerger
Software Mentions: 2
Published: over 14 years ago

10.1289/ehp.1306902

Mimicking of Estradiol Binding by Flame Retardants and Their Metabolites: A Crystallographic Analysis
Cited by: 79
Author(s): R.A. Gosavi, Gabriel A. Knudsen, Linda S. Birnbaum, Lars C. Pedersen
Software Mentions: 2
Published: almost 13 years ago

10.1186/s12915-015-0167-8

Role of electrostatic interactions for ligand recognition and specificity of peptide transporters
Cited by: 47
Author(s): Rajendra Boggavarapu, Jean-Marc Jeckelmann, Daniel Harder, Zöhre Ucurum, Dimitrios Fotiadis
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.jmb.2010.01.035

Structural Basis of Substrate Binding in WsaF, a Rhamnosyltransferase from Geobacillus stearothermophilus
Cited by: 22
Author(s): Kerstin Steiner, Gregor Hagelueken, Paul Messner, Christina Schäffer, James H. Naismith
Software Mentions: 2
Published: over 16 years ago

10.1016/j.jmb.2009.10.010

The Central Portion of Factor H (Modules 10–15) Is Compact and Contains a Structurally Deviant CCP Module
Cited by: 50
Author(s): Christoph Q. Schmidt, Andrew P. Herbert, Haydyn D. T. Mertens, Mara Guariento, Dinesh C. Soares, Dušan Uhrı́n, Arthur J. Rowe, Dmitri I. Svergun, Paul N. Barlow
Software Mentions: 2
Published: over 16 years ago

10.1186/s12915-021-01039-8

Characterization of a novel type of carbonic anhydrase that acts without metal cofactors
Cited by: 30
Author(s): Yoshihisa Hirakawa, Masuo Senda, Kodai Fukuda, Hong Yang Yu, Masaki Ishida, M. Taira, Kazushi Kinbara, Toshiya Senda
Software Mentions: 2
Published: about 5 years ago

10.15252/embr.201540436

Structure and function of the N‐terminal domain of the human mitochondrial calcium uniporter
Cited by: 80
Author(s): Youngjin Lee, Choon Kee Min, Tae Kyun Kim, Heesang Song, Young‐Hun Lim, Dong-Wook Kim, Kyung Shik Shin, Minji Kang, Jung Youn Kang, Hyung‐Seop Youn, Jung‐Gyu Lee, Jin Yong An, Kyoung Ryoung Park, Jia Jia Lim, Ji Hun Kim, Zee Yong Park, Yeon‐Soo Kim, Jimin Wang, Do Han Kim, Soo Hyun Eom
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.jmb.2010.03.043

Solution Structure and Characterisation of the Human Pyruvate Dehydrogenase Complex Core Assembly
Cited by: 51
Author(s): Swetha Víjayakríshnan, Sharon M. Kelly, Robert J.C. Gilbert, Philip Callow, David Bhella, V. Trevor Forsyth, J. Gordon Lindsay, Olwyn Byron
Software Mentions: 2
Published: about 16 years ago

10.1007/s00109-019-01755-3

Molecular modeling of LDLR aids interpretation of genomic variants
Cited by: 8
Author(s): Eric W. Klee, Michael T. Zimmermann
Software Mentions: 2
Published: over 7 years ago

10.15252/embj.2019103234

Structural basis for centromere maintenance by Drosophila <scp>CENP</scp> ‐A chaperone <scp>CAL</scp> 1
Cited by: 27
Author(s): Bethan Medina‐Pritchard, Vasiliki Lazou, Juan Zou, Olwyn Byron, Maria Alba Abad, Juri Rappsilber, Patrick Heun, A. Arockia Jeyaprakash
Software Mentions: 2
Published: over 6 years ago

10.3390/molecules24173044

Sub-Atomic Resolution Crystal Structures Reveal Conserved Geometric Outliers at Functional Sites
Cited by: 5
Author(s): Saara Laulumaa, Petri Kursula
Software Mentions: 2
Published: almost 7 years ago

10.1107/S1399004713033634

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

10.1042/BCJ20160791

Structure and lipid-binding properties of the kindlin-3 pleckstrin homology domain
Cited by: 39
Author(s): Ni Tien, Antreas C. Kalli, Fiona B. Naughton, Luke A. Yates, Omar Naneh, Mirijam Kozorog, Gregor Anderluh, Mark S. P. Sansom, Robert J.C. Gilbert
Software Mentions: 2
Published: over 9 years ago

10.1042/BJ20150612

The solution structures of native and patient monomeric human IgA1 reveal asymmetric extended structures: implications for function and IgAN disease
Cited by: 21
Author(s): Gar Kay Hui, David W. Wright, Owen L. Vennard, Lucy E. Rayner, Melisa Pang, See Cheng Yeo, Jayesh Gor, Karen Molyneux, Jonathan Barratt, Stephen J. Perkins
Software Mentions: 2
Published: almost 11 years ago

10.1107/S2059798317006349

Crystal structure ofYersinia pestisvirulence factor YfeA reveals two polyspecific metal-binding sites
Cited by: 14
Author(s): C.D. Radka, Lawrence J. DeLucas, Landon Wilson, Matthew B. Lawrenz, Robert D. Perry, Stephen G. Aller
Software Mentions: 2
Published: about 9 years ago

10.1042/BCJ20200552

Characterization of the different oligomeric states of the DAN family antagonists SOSTDC1 and SOST
Cited by: 6
Author(s): Gregory R. Gipson, Chandramohan Kattamuri, Magdalena Czepnik, Thomas B. Thompson
Software Mentions: 2
Published: almost 6 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

10.1021/acschembio.1c00433

Reconstitution and Structural Analysis of a HECT Ligase-Ubiquitin Complex via an Activity-Based Probe
Cited by: 10
Author(s): Raji R. Nair, Ayshwarya Seenivasan, Bing Liu, Dan Chen, E.D. Lowe, Sonja Lorenz
Software Mentions: 2
Published: almost 5 years ago

10.7554/eLife.65903

The crystal structure of bromide-bound GtACR1 reveals a pre-activated state in the transmembrane anion tunnel
Cited by: 10
Author(s): Hai Li, Chia‐Ying Huang, Elena G. Govorunova, Oleg A. Sineshchekov, Adrian Yi, Kenneth J. Rothschild, Meitian Wang, Lei Zheng, John L. Spudich
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

10.7554/eLife.21600

Crenactin forms actin-like double helical filaments regulated by arcadin-2
Cited by: 31
Author(s): Thierry Izoré, Danguole Kureisaite-Ciziene, Stephen H. McLaughlin, Jan Löwe
Software Mentions: 2
Published: over 9 years ago

10.15252/emmm.201404077

Efficient transduction and optogenetic stimulation of retinal bipolar cells by a synthetic adeno‐associated virus capsid and promoter
Cited by: 142
Author(s): Thérèse Cronin, Luk Vandenberghe, Péter Hantz, Josephine Jüttner, Andreas Reimann, Ágota–Enikő Kacsó, Rachel M. Huckfeldt, Volker Busskamp, Hubertus Kohler, Pamela S. Lagali, Botond Roska, Jean Bennett
Software Mentions: 2
Published: almost 12 years ago

10.15252/embr.202052325

NeutrobodyPlex—monitoring SARS‐CoV‐2 neutralizing immune responses using nanobodies
Cited by: 35
Author(s): Teresa R. Wagner, E. Ostertag, Philipp Kaiser, Marius Gramlich, Natalia Ruétalo, Daniel Junker, Julia Haering, Bjoern Traenkle, Matthias Becker, Alex Dulovic, H Schweizer, Stefan Nueske, Armin M. Scholz, Anne Zeck, Katja Schenke‐Layland, Annika Nelde, Monika Strengert, Juliane S. Walz, Georg Zocher, Thilo Stehle, Michael Schindler, Nicole Schneiderhan‐Marra, Ulrich Rothbauer
Software Mentions: 2
Published: about 5 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: almost 5 years ago

10.7554/eLife.32952

SIRT2 deacetylase regulates the activity of GSK3 isoforms independent of inhibitory phosphorylation
Cited by: 36
Author(s): Mohsen Sarikhani, Sneha Mishra, Sangeeta Maity, Chaithanya Kotyada, Donald J. Wolfgeher, Mahesh P. Gupta, Mahavir Singh, Nagalingam R. Sundaresan
Software Mentions: 2
Published: over 8 years ago

10.1111/1462-2920.13036

Closing the gaps on the viral photosystem‐ <scp>I</scp> psa <scp>DCAB</scp> gene organization
Cited by: 7
Author(s): Sheila Roitman, José Flores‐Uribe, Alon Philosof, Ben Knowles, Forest Rohwer, J. Cesar Ignacio‐Espinoza, Matthew B. Sullivan, Francisco M. Cornejo‐Castillo, Pablo Sánchez, Silvia G. Acinas, Chris L. Dupont, Oded Béjà
Software Mentions: 2
Published: over 10 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: almost 7 years ago

10.1107/S1399004715018519

Sent packing: protein engineering generates a new crystal form ofPseudomonas aeruginosaDsbA1 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: over 10 years ago

10.1042/BST20160422

Genomes, structural biology and drug discovery: combating the impacts of mutations in genetic disease and antibiotic resistance
Cited by: 31
Author(s): Arun Prasad Pandurangan, David B. Ascher, S.E. Thomas, Tom L. Blundell
Software Mentions: 2
Published: about 9 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

10.3389/fimmu.2017.01860

Engineering of Fc Fragments with Optimized Physicochemical Properties Implying Improvement of Clinical Potentials for Fc-Based Therapeutics
Cited by: 51
Author(s): Chunpeng Yang, Xinyu Gao, Rui Gong
Software Mentions: 2
Published: over 8 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: about 6 years ago

10.1074/jbc.M115.659912

Uncovering the Mechanism of Aggregation of Human Transthyretin
Cited by: 112
Author(s): Lorena Saelices, Lisa M. Johnson, Wilson Y. Liang, M.R. Sawaya, Duilio Cascio, Piotr Ruchala, Julian P. Whitelegge, Lin Jiang, Roland Riek, David Eisenberg
Software Mentions: 2
Published: over 10 years ago

10.15252/embj.201797278

Structural basis for antibacterial peptide self‐immunity by the bacterial ABC transporter McjD
Cited by: 51
Author(s): Kiran Bountra, Gregor Hagelueken, Hassanul G. Choudhury, Valentina Corradi, Kamel El Omari, Armin Wagner, Indran Mathavan, Séverine Zirah, Weixiao Yuan Wahlgren, D. Peter Tieleman, Olav Schiemann, Sylvie Rebuffat, Konstantinos Beis
Software Mentions: 2
Published: almost 9 years ago

10.1021/acs.biochem.1c00258

Kinetic and Structural Characterization of the Self-Labeling Protein Tags HaloTag7, SNAP-tag, and CLIP-tag
Cited by: 62
Author(s): Jonas Wilhelm, Stefanie F. Kühn, Mirosław Tarnawski, Guillaume Gotthard, Jana Tünnermann, Timo Tänzer, Iuliia A. Karpenko, Nicole Mertes, Lin Xue, Ulrike Uhrig, Jochen Reinstein, Julien Hiblot, Kai Johnsson
Software Mentions: 2
Published: almost 5 years ago

10.1242/dmm.043307

Temperature sensitive SMA-causing point mutations lead to SMN instability, locomotor defects, and premature lethality in Drosophila
Cited by: 4
Author(s): Amanda C. Raimer, S. S. Singh, Maina R. Edula, Tamara Paris-Davila, Vasudha Vandadi, Ashlyn M. Spring, A. Gregory Matera
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.68710

Structure of Escherichia coli respiratory complex I reconstituted into lipid nanodiscs reveals an uncoupled conformation
Cited by: 34
Author(s): P. Kolata, Rouslan G. Efremov
Software Mentions: 2
Published: almost 5 years ago

10.1016/j.bbabio.2015.07.002

Calcium-induced conformational changes in the regulatory domain of the human mitochondrial ATP-Mg/Pi carrier
Cited by: 34
Author(s): Steven P. D. Harborne, Jonathan J. Ruprecht, Edmund R. S. Kunji
Software Mentions: 2
Published: almost 11 years ago

10.1016/j.bbabio.2018.03.014

Structure of the NDH-2 – HQNO inhibited complex provides molecular insight into quinone-binding site inhibitors
Cited by: 19
Author(s): J. Petri, Yosuke Shimaki, Wanting Jiao, Hannah R. Bridges, Euan R. Russell, E.J. Parker, D. Aragão, Gregory M. Cook, Yoshio Nakatani
Software Mentions: 2
Published: about 8 years ago

10.15252/embj.2019103812

Dysfunctional oxidative phosphorylation shunts branched‐chain amino acid catabolism onto lipogenesis in skeletal muscle
Cited by: 28
Author(s): Cristina Sánchez-González, Cristina Nuevo‐Tapioles, Juana Robledo Martín, Marta P. Pereira, Sandra Serrano Sanz, Ana Ramı́rez de Molina, José M. Cuezva, Laura Formentini
Software Mentions: 2
Published: about 6 years ago

10.7554/eLife.32866

Mfn2 ubiquitination by PINK1/parkin gates the p97-dependent release of ER from mitochondria to drive mitophagy
Cited by: 243
Author(s): Gian‐Luca McLelland, Thomas Goiran, Wei Yi, Geneviève Dorval, Carol X Chen, Nadine Lauinger, Andrea I Krahn, Sepideh Valimehr, Aleksandar Raković, Isabelle Rouiller, Thomas M. Durcan, Jean‐François Trempe, Edward A. Fon
Software Mentions: 2
Published: about 8 years ago

10.1371/journal.pone.0052421

Head-Head Interactions of Resting Myosin Crossbridges in Intact Frog Skeletal Muscles, Revealed by Synchrotron X-Ray Fiber Diffraction
Cited by: 14
Author(s): Kazuteru Oshima, Yoshiaki Sugimoto, Thomas C. Irving, Katsuzo Wakabayashi
Software Mentions: 2
Published: over 13 years ago

10.1186/s12859-016-0918-8

Design, structure prediction and molecular dynamics simulation of a fusion construct containing malaria pre-erythrocytic vaccine candidate, PfCelTOS, and human interleukin 2 as adjuvant
Cited by: 21
Author(s): Shabnam Shamriz, Hamideh Ofoghi
Software Mentions: 2
Published: over 10 years ago

10.1371/journal.pone.0043985

Stapled BH3 Peptides against MCL-1: Mechanism and Design Using Atomistic Simulations
Cited by: 37
Author(s): Thomas L. Joseph, David P. Lane, Chandra Verma
Software Mentions: 2
Published: almost 14 years ago

10.1107/S2059798318017047

The crystal structure of theN-acetylglucosamine 2-epimerase fromNostocsp. 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: over 7 years ago

10.15252/embj.2019102209

Alterations of redox and iron metabolism accompany the development of <scp>HIV</scp> latency
Cited by: 29
Author(s): Iart Luca Shytaj, Bojana Lucic, Mattia Forcato, Carlotta Penzo, James M. Billingsley, Vibor Laketa, Steven E. Bosinger, Mia Stanić, Francesco Gregoretti, Laura Antonelli, Gennaro Oliva, Christian K. Frese, Aleksandra Trifunović, Bruno Galy, Clarissa Eibl, Guido Silvestri, Silvio Bicciato, Andrea Savarino, Marina Lušić
Software Mentions: 2
Published: over 6 years ago

10.1016/j.bbamcr.2020.118675

The diversity of ACBD proteins – From lipid binding to protein modulators and organelle tethers
Cited by: 26
Author(s): Markus Islinger, Joseph L. Costello, Suzan Kors, Eric Soupène, Timothy P. Levine, Frans A. Kuypers, Michael Schrader
Software Mentions: 2
Published: about 6 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: almost 13 years ago

10.7554/eLife.37373

Evolution of cation binding in the active sites of P-loop nucleoside triphosphatases in relation to the basic catalytic mechanism
Cited by: 35
Author(s): Daria N. Shalaeva, Dmitry A. Cherepanov, Michael Y. Galperin, Andrey V. Golovin, Armen Y. Mulkidjanian
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0021267

Expression of Enzymatically Inactive Wasp Venom Phospholipase A1 in Pichia pastoris
Cited by: 13
Author(s): Irina Borodina, Bettina M. Jensen, Tim Wagner, Maher Abou Hachem, Ib Søndergaard, Lars K. Poulsen
Software Mentions: 2
Published: about 15 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: about 15 years ago

10.1107/S1399004714001308

Automated identification of elemental ions in macromolecular crystal structures
Cited by: 37
Author(s): Nathaniel Echols, Nader Morshed, Pavel V. Afonine, Airlie J. McCoy, Mitchell D. Miller, Randy J. Read, Jane S. Richardson, Thomas C. Terwilliger, Paul D. Adams
Software Mentions: 2
Published: over 12 years ago

10.3390/ijms19113405

Enriched Conformational Sampling of DNA and Proteins with a Hybrid Hamiltonian Derived from the Protein Data Bank
Cited by: 3
Author(s): Emanuel K. Peter, Jiří Černý
Software Mentions: 2
Published: over 7 years ago

10.1371/journal.pone.0067536

Towards Ligand Docking Including Explicit Interface Water Molecules
Cited by: 58
Author(s): Gordon Lemmon, Jens Meiler
Software Mentions: 2
Published: about 13 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 7 years ago

10.3390/ijms20081943

Non-Cryogenic Structure and Dynamics of HIV-1 Integrase Catalytic Core Domain by X-ray Free-Electron Lasers
Cited by: 6
Author(s): Jae-Hyun Park, Ji-Hye Yun, Yingchen Shi, Jeong A. Han, Xuanxuan Li, Zeyu Jin, Tae-Hee Kim, Jaehyun Park, Sehan Park, Haiguang Liu, Weontae Lee
Software Mentions: 2
Published: about 7 years ago

10.1371/journal.pone.0114903

An Integrative Computational Approach for Prioritization of Genomic Variants
Cited by: 7
Author(s): Inna Dubchak, Sandhya Balasubramanian, Sheng Wang, Cem Meyden, Dinanath Sulakhe, Alexander Poliakov, Daniela Börnigen, Bingqing Xie, Andrew Taylor, Jianzhu Ma, Alex R. Paciorkowski, Ghayda Mirzaa, Paul Dave, Gady Agam, Jinbo Xu, Lihadh Al‐Gazali, Christopher E. Mason, M. Elizabeth Ross, Natalia Maltsev, T. Conrad Gilliam
Software Mentions: 2
Published: over 11 years ago

10.15252/embj.2020105127

Identification and characterization of diverse OTU deubiquitinases in bacteria
Cited by: 33
Author(s): Alexander F Schubert, Justine Nguyen, Tyler G. Franklin, Paul P. Geurink, Cameron G Roberts, Daniel J. Sanderson, Lauren N. Miller, Huib Ovaa, Kay Hofmann, Jonathan N. Pruneda, David Komander
Software Mentions: 2
Published: about 6 years ago

10.1107/S2059798320016368

Macromolecular crystallography using microcrystal electron diffraction
Cited by: 9
Author(s): Max T. B. Clabbers, Hongyi Xu
Software Mentions: 2
Published: over 5 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: about 6 years ago

10.1371/journal.pone.0128225

Structural and Biochemical Characterization of the Francisella tularensis Pathogenicity Regulator, Macrophage Locus Protein A (MglA)
Cited by: 8
Author(s): Bonnie J. Cuthbert, Richard G. Brennan, Maria A. Schumacher
Software Mentions: 2
Published: about 11 years ago

10.1371/journal.pone.0187628

Plant-type phytoene desaturase: Functional evaluation of structural implications
Cited by: 25
Author(s): Julian Koschmieder, M. Fehling-Kaschek, Patrick Schaub, Sandro Ghisla, Anton Brausemann, Jens Timmer, Peter Beyer
Software Mentions: 2
Published: over 8 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 6 years ago

10.1093/bioinformatics/bty474

BioStructMap: a Python tool for integration of protein structure and sequence-based features
Cited by: 9
Author(s): Andrew Guy, Vashti Irani, Jack S. Richards, Paul A. Ramsland
Software Mentions: 2
Published: about 8 years ago

10.3390/ijms21072577

Protective Effect of Ocotillol, the Derivate of Ocotillol-Type Saponins in Panax Genus, against Acetic Acid-Induced Gastric Ulcer in Rats Based on Untargeted Metabolomics
Cited by: 11
Author(s): Cuizhu Wang, Yuze Yuan, Pan He, Alan Hsu, Jinluan Chen, Jinping Liu, Pingya Li, Fang Wang
Software Mentions: 2
Published: over 6 years ago

10.1371/journal.pone.0081753

Heterologous Expression of Mycobacterial Esx Complexes in Escherichia coli for Structural Studies Is Facilitated by the Use of Maltose Binding Protein Fusions
Cited by: 22
Author(s): M.A. Arbing, Sammy Chan, L.R. Harris, E. Kuo, T. Zhou, Christine J. Ahn, Ludivine David NGuyen, Cyndi Qixin He, Jamie Lu, Phuong T. Menchavez, Ae Sun Shin, Thomas Holton, M.R. Sawaya, Duilio Cascio, David Eisenberg
Software Mentions: 2
Published: over 12 years ago

10.1371/journal.pone.0029406

Structural Analysis and Stochastic Modelling Suggest a Mechanism for Calmodulin Trapping by CaMKII
Cited by: 21
Author(s): Melanie I. Stefan, David P. Marshall, Nicolas Le Novère
Software Mentions: 2
Published: over 14 years ago

10.1089/ars.2017.7104

Inhibition of Diverse DsbA Enzymes in Multi-DsbA Encoding Pathogens
Cited by: 33
Author(s): Makrina Totsika, Dimitrios Vagenas, Jason J. Paxman, Geqing Wang, Rabeb Dhouib, Pooja Sharma, Jennifer L. Martin, M.J. Scanlon, Begoña Heras
Software Mentions: 2
Published: almost 8 years ago

Projects: pypi: PyMOL

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Papers Mentioning PyMOL 8,266