Proteins

Keyphrases

Publications

volume 92, number 6, 2024

Ke An, Xianzhi Yang, Mengqi Luo, Junfang Yan, Peiyi Xu, Honghui Zhang, Yuqing Li, Song Wu, Arieh Warshel, Chen Bai
Mechanistic study of the transmission pattern of the SARS-CoV-2 omicron variant. Proteins 92 (6) (2024)
Claudio David Schuster, Franco Salvatore, Luc Moens, Marcelo Adrián Martí
Globin phylogeny, evolution and function, the newest update. Proteins 92 (6) (2024)
William Trey Harris, Isabelle Altieri, Isabella Gieck, R Jeremy Johnson
A conserved but structurally divergent loop in acyl protein thioesterase 1 regulates its catalytic activity, ligand binding, and folded stability. Proteins 92 (6) (2024)
David P Leader
E. James Milner-White (1945-2023). Proteins 92 (6) (2024)

volume 92, number 7, 2024

Erick McCloskey, Maithri Kashipathy, Anne Cooper, Philip Gao, David K Johnson, Kevin P Battaile, Scott Lovell, David J Davido
HSV-1 ICP0 dimer domain adopts a novel β-barrel fold. Proteins 92 (7) (2024)
Noah Nathan Kochen, Darren Seaney, Vivek Vasandani, Marguerite Murray, Anthony R Braun, Jonathan N Sachs
Post-translational modification sites are present in hydrophilic cavities of alpha-synuclein, tau, FUS, and TDP-43 fibrils: A molecular dynamics study. Proteins 92 (7) (2024)
Darcy S Davidson, Justin A Lemkul
Pyroglutamylation modulates electronic properties and the conformational ensemble of the amyloid β-peptide. Proteins 92 (7) (2024)
Noah Nathan Kochen, Darren Seaney, Vivek Vasandani, Marguerite Murray, Anthony R Braun, Jonathan N Sachs
Post-translational modification sites are present in hydrophilic cavities of alpha-synuclein, tau, FUS, and TDP-43 fibrils: A molecular dynamics study. Proteins 92 (7) (2024)
Erick McCloskey, Maithri Kashipathy, Anne Cooper, Philip Gao, David K Johnson, Kevin P Battaile, Scott Lovell, David J Davido
HSV-1 ICP0 dimer domain adopts a novel β-barrel fold. Proteins 92 (7) (2024)
Erick McCloskey, Maithri Kashipathy, Anne Cooper, Philip Gao, David K Johnson, Kevin P Battaile, Scott Lovell, David J Davido
HSV-1 ICP0 dimer domain adopts a novel β-barrel fold. Proteins 92 (7) (2024)
Gregor Wirnsberger, Iva Pritišanac, Gustav Oberdorfer, Karl Gruber
Flattening the curve-How to get better results with small deep-mutational-scanning datasets. Proteins 92 (7) (2024)
S Balakrishnan, Raja Noor Zaliha Raja Abd Rahman, N D M Noor, W Latip, Mohd Shukuri Mohamad Ali
Expression and functional analysis of a recombinant aquaporin Z from Antarctic Pseudomonas sp. AMS3. Proteins 92 (7) (2024)
Noah Nathan Kochen, Darren Seaney, Vivek Vasandani, Marguerite Murray, Anthony R Braun, Jonathan N Sachs
Post-translational modification sites are present in hydrophilic cavities of alpha-synuclein, tau, FUS, and TDP-43 fibrils: A molecular dynamics study. Proteins 92 (7) (2024)
Darcy S Davidson, Justin A Lemkul
Pyroglutamylation modulates electronic properties and the conformational ensemble of the amyloid β-peptide. Proteins 92 (7) (2024)
Noah Nathan Kochen, Darren Seaney, Vivek Vasandani, Marguerite Murray, Anthony R Braun, Jonathan N Sachs
Post-translational modification sites are present in hydrophilic cavities of alpha-synuclein, tau, FUS, and TDP-43 fibrils: A molecular dynamics study. Proteins 92 (7) (2024)
Bryce P Johnson, Prashant S Mandal, Sara M Brown, Leonard M Thomas, Shanteri Singh
Ternary complexes of isopentenyl phosphate kinase from Thermococcus paralvinellae reveal molecular determinants of non-natural substrate specificity. Proteins 92 (7) (2024)
Bryce P Johnson, Prashant S Mandal, Sara M Brown, Leonard M Thomas, Shanteri Singh
Ternary complexes of isopentenyl phosphate kinase from Thermococcus paralvinellae reveal molecular determinants of non-natural substrate specificity. Proteins 92 (7) (2024)
Bryce P Johnson, Prashant S Mandal, Sara M Brown, Leonard M Thomas, Shanteri Singh
Ternary complexes of isopentenyl phosphate kinase from Thermococcus paralvinellae reveal molecular determinants of non-natural substrate specificity. Proteins 92 (7) (2024)
Bryce P Johnson, Prashant S Mandal, Sara M Brown, Leonard M Thomas, Shanteri Singh
Ternary complexes of isopentenyl phosphate kinase from Thermococcus paralvinellae reveal molecular determinants of non-natural substrate specificity. Proteins 92 (7) (2024)
Erick McCloskey, Maithri Kashipathy, Anne Cooper, Philip Gao, David K Johnson, Kevin P Battaile, Scott Lovell, David J Davido
HSV-1 ICP0 dimer domain adopts a novel β-barrel fold. Proteins 92 (7) (2024)
Yao Hu, Mingwei Li, Qian Wang
Allosteric pathways of SARS and SARS-CoV-2 spike protein identified by neural relational inference. Proteins 92 (7) (2024)
Darcy S Davidson, Justin A Lemkul
Pyroglutamylation modulates electronic properties and the conformational ensemble of the amyloid β-peptide. Proteins 92 (7) (2024)
Patrick Koldenhof, Martijn P Bemelmans, Brahma Ghosh, Kelly L Damm-Ganamet, Herman W T van Vlijmen, Vineet Pande
Application of AlphaFold models in evaluating ligandable cysteines across E3 ligases. Proteins 92 (7) (2024)
Erick McCloskey, Maithri Kashipathy, Anne Cooper, Philip Gao, David K Johnson, Kevin P Battaile, Scott Lovell, David J Davido
HSV-1 ICP0 dimer domain adopts a novel β-barrel fold. Proteins 92 (7) (2024)
Darcy S Davidson, Justin A Lemkul
Pyroglutamylation modulates electronic properties and the conformational ensemble of the amyloid β-peptide. Proteins 92 (7) (2024)
Yao Hu, Mingwei Li, Qian Wang
Allosteric pathways of SARS and SARS-CoV-2 spike protein identified by neural relational inference. Proteins 92 (7) (2024)
Noah Nathan Kochen, Darren Seaney, Vivek Vasandani, Marguerite Murray, Anthony R Braun, Jonathan N Sachs
Post-translational modification sites are present in hydrophilic cavities of alpha-synuclein, tau, FUS, and TDP-43 fibrils: A molecular dynamics study. Proteins 92 (7) (2024)
Fausta Desantis, Mattia Miotto, Edoardo Milanetti, Giancarlo Ruocco, Lorenzo Di Rienzo
Computational evidences of a misfolding event in an aggregation-prone light chain preceding the formation of the non-native pathogenic dimer. Proteins 92 (7) (2024)
Gregor Wirnsberger, Iva Pritišanac, Gustav Oberdorfer, Karl Gruber
Flattening the curve-How to get better results with small deep-mutational-scanning datasets. Proteins 92 (7) (2024)
S Balakrishnan, Raja Noor Zaliha Raja Abd Rahman, N D M Noor, W Latip, Mohd Shukuri Mohamad Ali
Expression and functional analysis of a recombinant aquaporin Z from Antarctic Pseudomonas sp. AMS3. Proteins 92 (7) (2024)

volume 92, number 8, 2024

Allen Takayesu, Brendan J Mahoney, Andrew K Goring, Tobie Jessup, Rachel R Ogorzalek Loo, Joseph A Loo, Robert T Clubb
Insight into the autoproteolysis mechanism of the RsgI9 anti-σ factor from Clostridium thermocellum. Proteins 92 (8) (2024)
Yuki Miyasaka, Kohei Yokoyama, Takuma Kozono, Yoshikazu Kitano, Takatsugu Miyazaki, Masayoshi Sakaguchi, Atsushi Nishikawa, Takashi Tonozuka
Structural basis for the recognition of α-1,6-branched α-glucan by GH13_47 α-amylase from Rhodothermus marinus. Proteins 92 (8) (2024)
Laurie A Graham, Thomas Hansen, Yanzhi Yang, Mustafa Sherik, Qilu Ye, Blake P Soares, Brett Kinrade, Shuaiqi Guo, Peter L Davies
Adhesin domains responsible for binding bacteria to surfaces they colonize project outwards from companion split domains. Proteins 92 (8) (2024)
Allen Takayesu, Brendan J Mahoney, Andrew K Goring, Tobie Jessup, Rachel R Ogorzalek Loo, Joseph A Loo, Robert T Clubb
Insight into the autoproteolysis mechanism of the RsgI9 anti-σ factor from Clostridium thermocellum. Proteins 92 (8) (2024)
Allen Takayesu, Brendan J Mahoney, Andrew K Goring, Tobie Jessup, Rachel R Ogorzalek Loo, Joseph A Loo, Robert T Clubb
Insight into the autoproteolysis mechanism of the RsgI9 anti-σ factor from Clostridium thermocellum. Proteins 92 (8) (2024)
Jyoti Verma, Harish Vashisth
Molecular basis for differential recognition of an allosteric inhibitor by receptor tyrosine kinases. Proteins 92 (8) (2024)
Hamed Ghazikhani, Gregory Butler
Exploiting protein language models for the precise classification of ion channels and ion transporters. Proteins 92 (8) (2024)
Nan Xu, Theodore W Kahn, Theju Jacob, Yan Liu
Graphical models for identifying pore-forming proteins. Proteins 92 (8) (2024)
Melike Berksoz, Canan Atilgan
Allosteric modulation of fluorescence revealed by hydrogen bond dynamics in a genetically encoded maltose biosensor. Proteins 92 (8) (2024)
Jyoti Verma, Harish Vashisth
Molecular basis for differential recognition of an allosteric inhibitor by receptor tyrosine kinases. Proteins 92 (8) (2024)
Mahroof Kalathingal, Young Min Rhee
Thermodynamic consequences of stapling side-chains on a peptide ligand using a lactam-bridge: A theoretical study on anti-angiogenic peptides targeting VEGF. Proteins 92 (8) (2024)
Jyoti Verma, Harish Vashisth
Molecular basis for differential recognition of an allosteric inhibitor by receptor tyrosine kinases. Proteins 92 (8) (2024)

volume 92, number 9, 2024

Sanskrita Sukla, Dhayanitha Ranganathan Dhakshinamoorthy, Arvind V Ramesh, Scott Lew, Min Su, Jayaraman Seetharaman
Crystal structure of human Cep57 C-terminal domain reveals the presence of leucine zipper and the potential microtubule binding region. Proteins 92 (9) (2024)
Mária Golda, Gyula Hoffka, Scott Cherry, Joseph E Tropea, George T Lountos, David S Waugh, Alexander Wlodawer, József Tőzsér, János András Mótyán
P1' specificity of the S219V/R203G mutant tobacco etch virus protease. Proteins 92 (9) (2024)
Elizaveta Alexandrovna Bogdanova, Valery Nikolaevich Novoseletsky
ProBAN: Neural network algorithm for predicting binding affinity in protein-protein complexes. Proteins 92 (9) (2024)
Faisal Nabi, Owais Ahmad, Adeeba Khan, Md Nadir Hassan, Malik Hisamuddin, Sadia Malik, Ali Chaari, Rizwan Hasan Khan
Natural compound plumbagin based inhibition of hIAPP revealed by Markov state models based on MD data along with experimental validations. Proteins 92 (9) (2024)
Ankita Singh Kushwah, Himisha Dixit, Vipin Upadhyay, Shailender Kumar Verma, Ramasare Prasad
The study of iron- and copper-binding proteome of Fusarium oxysporum and its effector candidates. Proteins 92 (9) (2024)
Mária Golda, Gyula Hoffka, Scott Cherry, Joseph E Tropea, George T Lountos, David S Waugh, Alexander Wlodawer, József Tőzsér, János András Mótyán
P1' specificity of the S219V/R203G mutant tobacco etch virus protease. Proteins 92 (9) (2024)
Mária Golda, Gyula Hoffka, Scott Cherry, Joseph E Tropea, George T Lountos, David S Waugh, Alexander Wlodawer, József Tőzsér, János András Mótyán
P1' specificity of the S219V/R203G mutant tobacco etch virus protease. Proteins 92 (9) (2024)
Albert Erkip, Burak Erman
Dynamically driven correlations in elastic net models reveal sequence of events and causality in proteins. Proteins 92 (9) (2024)