Ecosyste.ms: Papers

10.1002/humu.24218

Identification of missense <i>MAB21L1</i> variants in microphthalmia and aniridia
Cited by: 13
Author(s): Sarah E Seese, Linda M. Reis, Brett Deml, Christopher Griffith, Adi Reich, Robyn V Jamieson, Elena V. Semina
Software Mentions: 2
Published: over 3 years ago

10.1107/S2052252518013854

Structure-based mechanism of action of a viral poly(ADP-ribose) polymerase 1-interacting protein facilitating virus replication
Cited by: 7
Author(s): Woo Chang Chung, Junsoo Kim, Byung Chul Kim, Hye Ri Kang, Jonghyeon Son, Hosam Ki, Kwang Yeon Hwang, Mee Hyun Song
Software Mentions: 2
Published: over 6 years ago

10.1107/S2052252520001840

Structure of the MICU1–MICU2 heterodimer provides insights into the gatekeeping threshold shift
Cited by: 21
Author(s): Jongseo Park, Lee Young-Jin, Tae‐In Park, Jung Youn Kang, Sang A Mun, Minho Jin, Jamie O. Yang, Soo Hyun Eom
Software Mentions: 2
Published: almost 5 years ago

10.1107/S2052252514024117

Macromolecular<i>ab initio</i>phasing enforcing secondary and tertiary structure
Cited by: 44
Author(s): Claudia Millán, Massimo Sammito, Isabel Usón
Software Mentions: 2
Published: about 10 years ago

10.1107/S205225251800386X

Enzyme catalysis captured using multiple structures from one crystal at varying temperatures
Cited by: 25
Author(s): Sam Horrell, D. Kekilli, Kakali Sen, Robin L. Owen, Florian Dworkowski, S.V. Antonyuk, Thomas W. Keal, Chin W. Yong, Robert R. Eady, S.S. Hasnain, R.W. Strange, Hough
Software Mentions: 2
Published: almost 7 years ago

10.1107/S2052252518018274

A cytosine modification mechanism revealed by the structure of a ternary complex of deoxycytidylate hydroxymethylase from bacteriophage T4 with its cofactor and substrate
Cited by: 4
Author(s): Si Hoon Park, Se Won Suh, Hyun Kyu Song
Software Mentions: 2
Published: about 6 years ago

10.1107/S2052252518001616

X-ray and cryo-EM structures of inhibitor-bound cytochrome<i>bc</i>₁complexes for structure-based drug discovery
Cited by: 20
Author(s): K. Amporndanai, Rachel M. Johnson, Paul M. O’Neill, Colin W. G. Fishwick, A.H. Jamson, Shaun Rawson, Stephen P. Muench, S.S. Hasnain, S.V. Antonyuk
Software Mentions: 2
Published: almost 7 years ago

10.1107/S2052252515021259

Rapid experimental SAD phasing and hot-spot identification with halogenated fragments
Cited by: 26
Author(s): J.D. Bauman, Jerry Joe Ebow Kingsley Harrison, Eddy Arnold
Software Mentions: 2
Published: about 9 years ago

10.1107/S2052252520013494

Molecular-replacement phasing using predicted protein structures from <i>AWSEM-Suite</i>
Cited by: 9
Author(s): Shuang Jin, Mitchell D. Miller, M. Chen, Nicholas P. Schafer, Xin Lin, X. Chen, George N. Phillips, Peter G. Wolynes
Software Mentions: 2
Published: over 4 years ago

10.1107/S2052252518017657

Nanobeam precession-assisted 3D electron diffraction reveals a new polymorph of hen egg-white lysozyme
Cited by: 52
Author(s): Arianna Lanza, Eleonora Margheritis, Enrico Mugnaioli, Valentina Cappello, Gianpiero Garau, Mauro Gemmi
Software Mentions: 2
Published: about 6 years ago

10.1107/S2052252519002926

Determination of the molecular basis for coprogen import by Gram-negative bacteria
Cited by: 16
Author(s): Rhys Grinter, Trevor Lithgow
Software Mentions: 2
Published: almost 6 years ago

10.1107/S2052252519005372

The structural characterization of a glucosylglycerate hydrolase provides insights into the molecular mechanism of mycobacterial recovery from nitrogen starvation
Cited by: 4
Author(s): T.B. Cereija, Susana Alarico, Eva C. Lourenço, José A. Manso, M. Rita Ventura, Nuno Empadinhas, Sandra Macedo-Ribeiro, Pedro José Barbosa Pereira
Software Mentions: 2
Published: almost 6 years ago

10.1107/S2052252515008969

Structural studies of P-type ATPase–ligand complexes using an X-ray free-electron laser
Cited by: 21
Author(s): Maike Bublitz, Karol Nass, N.D. Drachmann, Anders J. Markvardsen, Matthias J. Gutmann, Thomas R. M. Barends, D. Mattle, Robert L. Shoeman, R. Bruce Doak, Sébastien Boutet, Marc Messerschmidt, M. Seibert, Garth J. Williams, L. Foucar, Linda Reinhard, Oleg Sitsel, J.L. Gregersen, Johannes Clausen, Thomas Boesen, Kamil Gotfryd, Kaituo Wang, Claus Olesen, Jesper Møller, Poul Nissen, Ilme Schlichting
Software Mentions: 2
Published: over 9 years ago

10.1107/S205225251900263X

High-viscosity injector-based pink-beam serial crystallography of microcrystals at a synchrotron radiation source
Cited by: 38
Author(s): José M. Martín-García, Liya Zhu, Derek Mendez, Ming-Yue Lee, Eugene Chun, Chufeng Li, Hao Hu, Ganesh Subramanian, David J. Kissick, Craig M. Ogata, Robert H. Henning, Andrii Ishchenko, Zachary Dobson, Shangji Zhang, Uwe Weierstall, John C. H. Spence, Petra Fromme, Nadia A. Zatsepin, Robert F. Fischetti, Vadim Cherezov, Wei Liu
Software Mentions: 2
Published: almost 6 years ago

10.1107/S2052252516008903

Structure of a heterogeneous, glycosylated, lipid-bound,<i>in vivo</i>-grown protein crystal at atomic resolution from the viviparous cockroach<i>Diploptera punctata</i>
Cited by: 24
Author(s): Sanchari Banerjee, Nathan P. Coussens, François-Xavier Gallat, Nitish Sathyanarayanan, Jandhyam Srikanth, Kinji Yagi, James S.S. Gray, Stephen S. Tobe, Barbara Stay, Leonard M. G. Chavas, Ramaswamy Subramanian
Software Mentions: 2
Published: over 8 years ago

10.1107/S2052252517013124

Mix-and-diffuse serial synchrotron crystallography
Cited by: 90
Author(s): Kenneth R. Beyerlein, D. Dierksmeyer, Valerio Mariani, Manuela Kuhn, Iosifina Sarrou, Angelica Ottaviano, Salah Awel, J. Knoška, Silje Skeide Fuglerud, Olof Jönsson, Stephan Stern, Max O. Wiedorn, Oleksandr Yefanov, Luigi Adriano, Richard Bean, Anja Burkhardt, P. Fischer, Michaël Heymann, Daniel A. Horke, Katharina Jungnickel, Elena G. Kovaleva, O. Lorbeer, Markus Metz, Jan Meyer, Andrew J. Morgan, Kanupriya Pande, S. Panneerselvam, Carolin Seuring, A. Tolstikova, J. Lieske, S. Aplin, Manfred Roessle, Thomas A. White, Henry N. Chapman, A. Meents, D. Oberthüer
Software Mentions: 2
Published: over 7 years ago

10.1107/S2052252521003729

Putative hexameric glycosyltransferase functional unit revealed by the crystal structure of <i>Acinetobacter baumannii</i> MurG
Cited by: 1
Author(s): Kyoung Ho Jung, Sunghoon Kwon, Chang Min Kim, Jun Hyuck Lee, Hyun Ho Park
Software Mentions: 2
Published: almost 4 years ago

10.1107/S2052252520013615

Joint neutron/X-ray crystal structure of a mechanistically relevant complex of perdeuterated urate oxidase and simulations provide insight into the hydration step of catalysis
Cited by: 5
Author(s): Lindsay McGregor, Tamás Földes, Soi Bui, Martine Moulin, Nicolas Coquelle, Matthew P. Blakeley, Edina Rosta, Roberto A. Steiner
Software Mentions: 2
Published: about 4 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: about 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: over 5 years ago

10.7554/eLife.71474

TMEM120A contains a specific coenzyme A-binding site and might not mediate poking- or stretch-induced channel activities in cells
Cited by: 18
Author(s): Yao Chai Rong, Jinghui Jiang, Yongfei Gao, Jing Guo, Danfeng Song, Wenhao Liu, Mingmin Zhang, Yan Zhao, Bailong Xiao, Zhongfan Liu
Software Mentions: 2
Published: over 3 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: almost 5 years ago

10.7554/eLife.56185

Moyamoya disease factor RNF213 is a giant E3 ligase with a dynein-like core and a distinct ubiquitin-transfer mechanism
Cited by: 68
Author(s): Juraj Ahel, Anita Lehner, Antonia Vogel, Alexander Schleiffer, Anton Meinhart, David Haselbach, Tim Clausen
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.18972

Structural characterization of encapsulated ferritin provides insight into iron storage in bacterial nanocompartments
Cited by: 76
Author(s): Didi He, Sam Hughes, Sally Vanden-Hehir, Atanas Georgiev, Kirsten Altenbach, Emma Tarrant, C. Logan Mackay, Kevin J. Waldron, David J. Clarke, Jon Marles‐Wright
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.53322

Structure and activation mechanism of the BBSome membrane protein trafficking complex
Cited by: 57
Author(s): Sandeep Singh, Miao Gui, Fujiet Koh, M.C.J. Yip, Alan Brown
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.29150

Autoinhibition of ankyrin-B/G membrane target bindings by intrinsically disordered segments from the tail regions
Cited by: 26
Author(s): Keyu Chen, J. Li, Chao Wang, Zhiyi Wei, Mingjie Zhang
Software Mentions: 2
Published: over 7 years ago

10.7554/eLife.55607

Multi-state recognition pathway of the intrinsically disordered protein kinase inhibitor by protein kinase A
Cited by: 16
Author(s): Cristina Olivieri, Yingjie Wang, Geoffrey C. Li, V. S. Manu, Jonggul Kim, Benjamin R Stultz, Matthew Neibergall, Fernando Porcelli, Joseph M. Muretta, David D. Thomas, Jiali Gao, Donald K. Blumenthal, Susan S. Taylor, Gianluigi Veglia
Software Mentions: 2
Published: almost 5 years ago

10.7554/eLife.03145

Coupling of remote alternating-access transport mechanisms for protons and substrates in the multidrug efflux pump AcrB
Cited by: 136
Author(s): Thomas Eicher, Markus A. Seeger, Claudio Anselmi, Wenchang Zhou, Lorenz Brandstätter, François Verrey, Kay Diederichs, José D. Faráldo-Gómez, Klaas M. Pos
Software Mentions: 2
Published: over 10 years ago

10.7554/eLife.55438

Mechanisms of nucleotide selection by telomerase
Cited by: 15
Author(s): Matthew A Schaich, Samantha L Sanford, Griffin A. Welfer, Samuel A. Johnson, Thu H Khoang, Patricia L. Opresko, Bret Freudenthal
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.52628

Indirect sexual selection drives rapid sperm protein evolution in abalone
Cited by: 6
Author(s): Damien B. Wilburn, Lisa M. Tuttle, Rachel E. Klevit, Willie J. Swanson
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.04601

Architecture of the ring formed by the tubulin homologue FtsZ in bacterial cell division
Cited by: 200
Author(s): Piotr Szwedziak, Qing Wang, Tanmay A. M. Bharat, M. Tsim, Jan Löwe
Software Mentions: 2
Published: about 10 years ago

10.7554/eLife.03674

Molecular assembly of the period-cryptochrome circadian transcriptional repressor complex
Cited by: 87
Author(s): Shannon N. Nangle, Clark Rosensweig, Nobuya Koike, Hajime Tei, Joseph S. Takahashi, Carla B. Green, Ning Zheng
Software Mentions: 2
Published: over 10 years ago

10.7554/eLife.39720

Selective agonist of TRPML2 reveals direct role in chemokine release from innate immune cells
Cited by: 63
Author(s): Eva Plesch, Cheng‐Chang Chen, Elisabeth Butz, Anna Scotto Rosato, Einar Krogsaeter, Hua Yue, Karin Bartel, Marco Keller, Dina Robaa, Daniel Teupser, Lesca M. Holdt, Angelika M. Vollmar, Wolfgang Sippl, Rosa Puertollano, Diego L. Medina, Martin Biel, Christian Wahl‐Schott, Franz Bracher, Christian Grimm
Software Mentions: 2
Published: about 6 years ago

10.7554/eLife.04353

Structural basis of diverse membrane target recognitions by ankyrins
Cited by: 63
Author(s): Chao Wang, Zhiyi Wei, Keyu Chen, Fei Ye, Cong Yu, Vann Bennett, Mingjie Zhang
Software Mentions: 2
Published: over 10 years ago

10.7554/eLife.43320

Cooperative cobinding of synthetic and natural ligands to the nuclear receptor PPARγ
Cited by: 51
Author(s): Jinsai Shang, Richard Brust, Sarah A. Mosure, Jared Bass, Paola Munoz-Tello, Hua Lin, Travis S. Hughes, Miru Tang, Qingfeng Ge, Theodore M. Kamenekca, D.J. Kojetin
Software Mentions: 2
Published: about 6 years ago

10.7554/eLife.09684

Mechanisms of ribosome stalling by SecM at multiple elongation steps
Cited by: 64
Author(s): Jun Zhang, Xiaoyi Pan, Kaige Yan, Shan Sun, Ning Gao, Sen-Fang Sui
Software Mentions: 2
Published: about 9 years ago

10.7554/eLife.09375

Mechanism of Na+-dependent citrate transport from the structure of an asymmetrical CitS dimer
Cited by: 53
Author(s): David Wöhlert, Maria J Grötzinger, Werner Kühlbrandt, Özkan Yıldız
Software Mentions: 2
Published: about 9 years ago

10.7554/eLife.06562

Cooperative base pair melting by helicase and polymerase positioned one nucleotide from each other
Cited by: 33
Author(s): Divya Nandakumar, Manjula Pandey, Smita S. Patel
Software Mentions: 2
Published: almost 10 years ago

10.7554/eLife.12856

Myosin III-mediated cross-linking and stimulation of actin bundling activity of Espin
Cited by: 21
Author(s): Haiyang Liu, Jianchao Li, Manmeet H. Raval, Ningning Yao, Xiǎoyīng Dèng, Qing Lü, Si Nie, Wei Feng, Jun Wan, Christopher M. Yengo, Weichen Liu, Mingjie Zhang
Software Mentions: 2
Published: about 9 years ago

10.7554/eLife.07485

The brown adipocyte protein CIDEA promotes lipid droplet fusion via a phosphatidic acid-binding amphipathic helix
Cited by: 105
Author(s): David Barneda, Joan Planas-Iglesias, María L. Gaspar, Dariush Mohammadyani, Sunil Prasannan, Dirk Dormann, Gil‐Soo Han, Stephen A. Jesch, George M. Carman, Valerian E. Kagan, Malcolm G. Parker, Nicholas T. Ktistakis, Judith Klein‐Seetharaman, Ann M. Dixon, Susan A. Henry, Mark Christian
Software Mentions: 2
Published: about 9 years ago

10.7554/eLife.53853

Structural insights into sodium transport by the oxaloacetate decarboxylase sodium pump
Cited by: 10
Author(s): Xin Xu, Huigang Shi, Xiaohua Gong, Pu Chen, Ying Gao, Xinzheng Zhang, Song Xiang
Software Mentions: 2
Published: over 4 years ago

10.7554/eLife.62163

Transport mechanism of P4 ATPase phosphatidylcholine flippases
Cited by: 37
Author(s): Lin Bai, Qinglong You, Bhawik Kumar Jain, Huiyuan Duan, Amanda Kovach, Todd R. Graham, Huilin Li
Software Mentions: 2
Published: about 4 years ago

10.7554/eLife.54449

Architecture of the chromatin remodeler RSC and insights into its nucleosome engagement
Cited by: 63
Author(s): Asmita V. Patel, Camille M. Moore, B.J. Greber, Jie Luo, Stefan A Zukin, Jeff Ranish, Eva Nogales
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.67336

Contingency and chance erase necessity in the experimental evolution of ancestral proteins
Cited by: 24
Author(s): Victoria Cochran Xie, Jinyue Pu, Brian P. H. Metzger, Joseph W. Thornton, Bryan C. Dickinson
Software Mentions: 2
Published: over 3 years ago

10.7554/eLife.64395

Complex structures of Rsu1 and PINCH1 reveal a regulatory mechanism of the ILK/PINCH/Parvin complex for F-actin dynamics
Cited by: 8
Author(s): Haibin Yang, Leishu Lin, Kang Sun, Ting Zhang, Wan Chen, Lianghui Li, Yuchen Xie, Chuanyue Wu, Zhiyi Wei, Cong Yu
Software Mentions: 2
Published: about 4 years ago

10.7554/eLife.00327

The AFF4 scaffold binds human P-TEFb adjacent to HIV Tat
Cited by: 65
Author(s): Ursula Schulze‐Gahmen, Heather Upton, Andrew Birnberg, Katherine Bao, Seemay Chou, Nevan J. Krogan, Qiang Zhou, Tom Alber
Software Mentions: 2
Published: almost 12 years ago

10.7554/eLife.55853

Cryo-EM structures and functional properties of CALHM channels of the human placenta
Cited by: 24
Author(s): Katarzyna Drożdżyk, Marta Sawicka, Maria-Isabel Bahamonde-Santos, Jonas Zaugg, Dawid Deneka, Christiane Albrecht, Raimund Dutzler
Software Mentions: 2
Published: almost 5 years ago

10.7554/eLife.07646

Water-mediated recognition of t1-adenosine anchors Argonaute2 to microRNA targets
Cited by: 73
Author(s): N.T. Schirle, Jessica Sheu‐Gruttadauria, Stanley D. Chandradoss, Chirlmin Joo, Ian J. MacRae
Software Mentions: 2
Published: over 9 years ago

10.7554/eLife.01739

FRET-based reporters for the direct visualization of abscisic acid concentration changes and distribution in Arabidopsis
Cited by: 198
Author(s): Rainer Waadt, Katsundo Hitomi, Noriyuki Nishimura, Chiharu Hitomi, Stephen Adams, Elizabeth D. Getzoff, Julian I. Schroeder
Software Mentions: 2
Published: almost 11 years ago

10.7554/eLife.23644

CryoEM structures of membrane pore and prepore complex reveal cytolytic mechanism of Pneumolysin
Cited by: 112
Author(s): Katharina van Pee, Alexander Neuhaus, Edoardo D’Imprima, Deryck J. Mills, Werner Kühlbrandt, Özkan Yıldız
Software Mentions: 2
Published: almost 8 years ago

10.7554/eLife.58242

Molecular rationale for antibody-mediated targeting of the hantavirus fusion glycoprotein
Cited by: 17
Author(s): Ilona Rissanen, Robert Stass, Stefanie A. Krumm, Jeffrey Seow, Ruben J.G. Hulswit, Guido C. Paesen, Jussi Hepojoki, Olli Vapalahti, Åke Lundkvist, Olivier Reynard, Viktor E. Volchkov, Katie J. Doores, J.T. Huiskonen, Thomas A. Bowden
Software Mentions: 2
Published: about 4 years ago

10.7554/eLife.34202

Local and global influences on protein turnover in neurons and glia
Cited by: 154
Author(s): Aline Ricarda Dörrbaum, Lisa Kochen, Julian D. Langer, Erin M. Schuman
Software Mentions: 2
Published: over 6 years ago

10.7554/eLife.09832

Dna2 nuclease-helicase structure, mechanism and regulation by Rpa
Cited by: 89
Author(s): Chun Zhou, Sergei Pourmal, Nikola P. Pavletich
Software Mentions: 2
Published: over 9 years ago

10.7554/eLife.21829

Structure of the transporter associated with antigen processing trapped by herpes simplex virus
Cited by: 80
Author(s): Michael L. Oldham, Nikolaus Grigorieff, Jue Chen
Software Mentions: 2
Published: about 8 years ago

10.7554/eLife.50722

A polyomavirus peptide binds to the capsid VP1 pore and has potent antiviral activity against BK and JC polyomaviruses
Cited by: 4
Author(s): Jason M. Kane, Susan Fong, Jacob Shaul, Alexandra Frommlet, Andreas Frank, Mark Knapp, Dirksen E. Bussiere, Peter Kim, Elizabeth Ornelas, Carlos Cuellar, Anastasia Hyrina, Johanna R. Abend, Charles Wartchow
Software Mentions: 2
Published: about 5 years ago

10.7554/eLife.41848

An unexpected INAD PDZ tandem-mediated plcβ binding in Drosophila photo receptors
Cited by: 9
Author(s): Fei Ye, Yuguang Huang, J. Li, Yinfa Ma, Chensu Xie, Zexu Liu, Xiǎoyīng Dèng, Jun Wan, Tian Xue, Wei Liu, Mingjie Zhang
Software Mentions: 2
Published: about 6 years ago

10.7554/eLife.15537

A bend, flip and trap mechanism for transposon integration
Cited by: 22
Author(s): Elizabeth R. Morris, Heather Grey, Grant McKenzie, Anita C. Jones, Julia M. Richardson
Software Mentions: 2
Published: over 8 years ago

10.7554/eLife.10034

Structural determinants of nuclear export signal orientation in binding to exportin CRM1
Cited by: 68
Author(s): Ho Yee Joyce Fung, Szu Chin Fu, Chad A. Brautigam, Yuh Min Chook
Software Mentions: 2
Published: over 9 years ago

10.3390/ijms22147288

Hybrid QM/MM Simulations Confirm Zn(II) Coordination Sphere That Includes Four Cysteines from the P2 × 4R Head Domain
Cited by: 1
Author(s): Francisco Andrés Peralta, J. Pablo Huidobro‐Toro, Raúl Mera‐Adasme
Software Mentions: 2
Published: over 3 years ago

10.3390/ijms22147341

Protein–Protein Docking with Large-Scale Backbone Flexibility Using Coarse-Grained Monte-Carlo Simulations
Cited by: 5
Author(s): Mateusz Kurciński, Sebastian Kmiecik, M. Zalewski, Andrzej Koliński
Software Mentions: 2
Published: over 3 years ago

10.3390/ijms22157934

Simulations of Promising Indolizidine—α6-β2 Nicotinic Acetylcholine Receptor Complexes
Cited by: 1
Author(s): Francis A. Acquah, Matthew Paramel, Adama Kuta, Syed R. Hussaini, David R. Wallace, Blaine H. M. Mooers
Software Mentions: 2
Published: over 3 years ago

10.3390/ijms22168581

Targeting Lipocalin-2 in Inflammatory Breast Cancer Cells with Small Interference RNA and Small Molecule Inhibitors
Cited by: 8
Author(s): Ginette S Santiago-Sánchez, Ricardo Noriega-Rivera, Eliud Hernandez O'Farril, Fatma Valiyeva, Blanca I Quiñones-Díaz, Emilly Schlee Villodre, Bisrat G. Debeb, Andrea Rosado-Albacarys, Pablo E. Vivas‐Mejía
Software Mentions: 2
Published: over 3 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: over 3 years ago

10.3390/ijms22189771

Insights into Comparative Modeling of VHH Domains
Cited by: 3
Author(s): Akhila Melarkode Vattekatte, Fréderic Cadet, Jean‐Christophe Gelly, Alexandre G. de Brevern
Software Mentions: 2
Published: over 3 years ago

10.3390/ijms221810022

The CXC Chemokine Receptors in Four-Eyed Sleeper (Bostrychus sinensis) and Their Involvement in Responding to Skin Injury
Cited by: 3
Author(s): Meng-Dan Dong, Hong Zhang, Chengyu Mo, Wenjing Li, Wanwan Zhang, Kuntong Jia, Wei Liu, Meisheng Yi
Software Mentions: 2
Published: over 3 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: over 3 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: over 3 years ago

10.3390/ijms221910821

Prediction Models for Agonists and Antagonists of Molecular Initiation Events for Toxicity Pathways Using an Improved Deep-Learning-Based Quantitative Structure–Activity Relationship System
Cited by: 6
Author(s): Yasunari Matsuzaka, Shin Totoki, Kentaro Handa, Tetsuyoshi Shiota, Kota Kurosaki, Yoshihiro Uesawa
Software Mentions: 2
Published: over 3 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: over 5 years ago

10.1186/s12974-018-1060-5

Benefits of VCE-003.2, a cannabigerol quinone derivative, against inflammation-driven neuronal deterioration in experimental Parkinson’s disease: possible involvement of different binding sites at the PPARγ receptor
Cited by: 45
Author(s): Concepción Garcı́a, María Gómez‐Cañas, Sonia Burgaz, Belén Palomares, Yolanda Gómez‐Gálvez, Cristina Palomo-Garo, Sara Campo, Joel Ferrer-Hernández, Carolina Pavicic, Carmen Navarrete, M. Luz Bellido, Moisés Garcı́a-Arencibia, M. Ruth Pazos, Eduardo Muñóz, Javier Fernández‐Ruiz
Software Mentions: 2
Published: about 7 years ago

10.1155/2021/6670834

High Expression of Interleukin-2 Receptor Subunit Gamma Reveals Poor Prognosis in Human Gastric Cancer
Cited by: 2
Author(s): Deping Wang, Rong Zhao, Yuehong Qi, Jing Shen, Jiayi Hou, Mei-Yue Wang, Xiaogang Bi, Xiaoqing Guo, Ji‐Min Cao
Software Mentions: 2
Published: about 4 years ago

10.18632/oncotarget.8612

Medulloblastoma-associated DDX3 variant selectively alters the translational response to stress
Cited by: 57
Author(s): Seajin Oh, Ryan A. Flynn, Stephen N. Floor, James Purzner, Lance Martin, T. Brian, Simone Schubert, Dedeepya Vaka, A. Sorana Morrissy, Yisu Li, Marcel Kool, Volker Hovestadt, David Jones, Paul A. Northcott, Thomas S. Risch, Hans Jörg Warnatz, Marie Laure Yaspo, Christopher M. Adams, Ryan D. Leib, Marcus R. Breese, Marco A. Marra, David Malkin, Peter Lichter, Jennifer A. Doudna, Stefan M. Pfister, Michael D. Taylor, Howard Y. Chang, Yoon Jae Cho
Software Mentions: 2
Published: almost 9 years ago

10.18632/oncotarget.10599

<i>In silico</i>predicted structural and functional insights of all missense mutations on 2B domain of<i>K1/K10</i>causing genodermatoses
Cited by: 5
Author(s): Santasree Banerjee, Qian Wu, Yuyi Ying, Yanni Li, Matsuyuki Shirota, Dante Neculai, Chen Li
Software Mentions: 2
Published: over 8 years ago

10.18632/oncotarget.14248

Mutations acquired by hepatocellular carcinoma recurrence give rise to an aggressive phenotype
Cited by: 12
Author(s): Ji-Hye Choi, Min Jae Kim, Yong Keun Park, Jong-Yeop Im, So Mee Kwon, Hyung Chul Kim, Hyun Goo Woo, Hee-Jung Wang
Software Mentions: 2
Published: about 8 years ago

10.18632/oncotarget.15302

Precursor N-cadherin mediates glial cell line-derived neurotrophic factor-promoted human malignant glioma
Cited by: 13
Author(s): Ye Xiong, Liyun Liu, Shuang Zhu, Baole Zhang, Yuxia Qin, Ruiqin Yao, Hao Zhou, Dianshuai Gao
Software Mentions: 2
Published: about 8 years ago

10.18632/oncotarget.17207

Eg5 inhibitor YL001 induces mitotic arrest and inhibits tumor proliferation
Cited by: 13
Author(s): Yufei Wang, Xingyu Wu, Mufeng Du, Xi Chen, Xianling Ning, Hong Chen, Siyuan Wang, Jia Liu, Zhenming Liu, Ridong Li, Ge Fu, Chunguang Wang, Michael A. McNutt, Demin Zhou, Yuxin Yin
Software Mentions: 2
Published: almost 8 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: over 7 years ago

10.18632/oncotarget.24305

Unbiased compound-protein interface mapping and prediction of chemoresistance loci through forward genetics in haploid stem cells
Cited by: 15
Author(s): Moritz Horn, Virginia Kroef, Kira Allmeroth, Nicole Schuller, Stephan Miethe, Martin Peifer, Josef Penninger, Ulrich Elling, Martin S. Denzel
Software Mentions: 2
Published: about 7 years ago

10.1155/2017/4342789

Identification, Characterization, and Structure of Tm16 from<i>Trichuris muris</i>
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: about 8 years ago

10.1021/acs.jpcb.1c03639

Electrostatic Interactions Explain the Higher Binding Affinity of the CR3022 Antibody for SARS-CoV-2 than the 4A8 Antibody
Cited by: 24
Author(s): Hung Van Nguyen, Pham Dang Lan, Daniel A. Nissley, Edward P. O’Brien, Mai Suan Li
Software Mentions: 2
Published: over 3 years ago

10.1113/JP277079

ORAI1 channel gating and selectivity is differentially altered by natural mutations in the first or third transmembrane domain
Cited by: 36
Author(s): Monica Bulla, Gergely Gyimesi, Jihee Kim, Rajesh Bhardwaj, Matthias A. Hediger, Maud Frieden, Nicolas Demaurex
Software Mentions: 2
Published: about 6 years ago

10.4172/jpb.1000419

A Template-Based Protein Structure Reconstruction Method Using Deep Autoencoder Learning
Cited by: 9
Author(s): Haiou Li
Software Mentions: 2
Published: about 9 years ago

10.1098/rsob.120142

Structure and function of cytidine monophosphate kinase from <i>Yersinia pseudotuberculosis</i> , 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: about 12 years ago

10.1098/rsob.130021

Structure of a bacterial putative acetyltransferase defines the fold of the human <i>O</i> -GlcNAcase C-terminal domain
Cited by: 43
Author(s): Francesco Rao, Alexander W. Schüttelkopf, Helge C. Dorfmueller, Andrew T. Ferenbach, Iva Navrátilová, Daan M. F. van Aalten
Software Mentions: 2
Published: over 11 years ago

10.1098/rsob.150005

Three-dimensional topology of the SMC2/SMC4 subcomplex from chicken condensin I revealed by cross-linking and molecular modelling
Cited by: 46
Author(s): Helena Barysz, Ji Hun Kim, Zhuo A. Chen, Damien F. Hudson, Juri Rappsilber, Dietlind L. Gerloff, William C. Earnshaw
Software Mentions: 2
Published: about 10 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: over 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: over 8 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: over 8 years ago

10.1098/rsob.160157

Exploring the active site of the <i>Streptococcus pneumoniae</i> 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: over 8 years ago

10.1098/rsob.160327

Structural and functional analysis of <i>Oceanobacillus iheyensis</i> macrodomain reveals a network of waters involved in substrate binding and catalysis
Cited by: 15
Author(s): Rubén Zapata-Pérez, F. Gil-Ortiz, Ana Belén Martínez-Moñino, Antonio Ginés García-Saura, Judith Juanhuix, Álvaro Sánchez‐Ferrer
Software Mentions: 2
Published: almost 8 years ago

10.3390/molecules23071688

Theoretical Model of EphA2-Ephrin A1 Inhibition
Cited by: 4
Author(s): Wiktoria Jedwabny, Alessio Lodola, Edyta Dyguda-Kazimierowicz
Software Mentions: 2
Published: over 6 years ago

10.1002/2211-5463.12931

High‐resolution crystal structures of the botulinum neurotoxin binding domains from subtypes A5 and A6
Cited by: 4
Author(s): Jonathan Davies, Amy Britton, Sai Man Liu, K. Ravi Acharya
Software Mentions: 2
Published: over 4 years ago

10.1074/jbc.M113.480657

Ca2+-dependent Structural Changes in the B-cell Receptor CD23 Increase Its Affinity for Human Immunoglobulin E
Cited by: 27
Author(s): Daopeng Yuan, Anthony H. Keeble, Richard G. Hibbert, Stella M. Fabiane, Hannah J. Gould, James M. McDonnell, Andrew J. Beavil, Brian J. Sutton, B. Dhaliwal
Software Mentions: 2
Published: over 11 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 5 years ago

10.1074/jbc.M113.454496

Mechanism of Ferrous Iron Binding and Oxidation by Ferritin from a Pennate Diatom
Cited by: 53
Author(s): Stephanie Pfaffen, Raz Abdulqadir, Nick E. Le Brun, M.E.P. Murphy
Software Mentions: 2
Published: almost 12 years ago

10.1002/2211-5463.12644

Structural insights into interactions between viral suppressor of <scp>RNA</scp> silencing protein p19 mutants and small <scp>RNA</scp>s
Cited by: 5
Author(s): Dana V. Foss, N.T. Schirle, Ian J. MacRae, John Paul Pezacki
Software Mentions: 2
Published: almost 6 years ago

10.1002/2211-5463.12595

Molecular structure of a 5,10‐methylenetetrahydrofolate dehydrogenase from the silkworm <i>Bombyx mori</i>
Cited by: 4
Author(s): Mohammad Rashedul Haque, Akifumi Higashiura, Atsushi Nakagawa, Aiko Hirowatari, Shigeki Furuya, Kohji Yamamoto
Software Mentions: 2
Published: almost 6 years ago

10.3390/biom10091236

A Fluorescent Assay to Search for Inhibitors of HIV-1 Integrase Interactions with Human Ku70 Protein, and Its Application for Characterization of Oligonucleotide Inhibitors
Cited by: 1
Author(s): S O Galkin, Anna Rozina, Arthur O. Zalevsky, Marina Gottikh, Andrey Anisenko
Software Mentions: 2
Published: over 4 years ago

10.1371/journal.pone.0099408

Ensemble Generation and the Influence of Protein Flexibility on Geometric Tunnel Prediction in Cytochrome P450 Enzymes
Cited by: 16
Author(s): Laura J. Kingsley, Markus A. Lill
Software Mentions: 2
Published: over 10 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: almost 4 years ago