Works matching DE "PROTEIN structure prediction"

Results: 552

RiRPSSP: A unified deep learning method for prediction of regular and irregular protein secondary structures.

Published in:

Journal of Bioinformatics & Computational Biology, 2023, v. 21, n. 1, p. 1, doi. 10.1142/S0219720023500014

By:

Sofi, Mukhtar Ahmad;
Wani, M. Arif

Publication type:

Article

Predicting the unpredictable: the regulatory nature and promiscuity of herbicide cross resistance.

Published in:

Pest Management Science, 2024, v. 80, n. 2, p. 235, doi. 10.1002/ps.7728

By:

Bobadilla, Lucas K;
Tranel, Patrick J

Publication type:

Article

Comprehensive analysis of protein-protein interactions (PPIs) with structure prediction program for breast cancer determination.

Published in:

Journal of Biological Researches, 2023, v. 29, n. 3, p. 87, doi. 10.23869/bphjbr.29.3.20232

By:

Margaretha, Febrina;
Subagja, Mukti;
Putri, Altri Diana;
Salam, Christabel Queentha;
Valenthenardo, Louis;
Adhiwijaya, Priscilla Klaresza;
Kaitlyn, Gabriella Zevania;
Parikesit, Arli Aditya

Publication type:

Article

THE USE OF ARTIFICIAL INTELLIGENCE IN DRUG DISCOVERY: FROM CONCEPT TO CURRENT APPLICATIONS.

Published in:

2025

By:

PUȘCAȘU, ANDREEA;
GHERGHICEANU, FLORENTINA;
ANDRONIC, OCTAVIAN

Publication type:

Literature Review

Relationship between Sugarcane eIF4E Gene and Resistance against Sugarcane Streak Mosaic Virus.

Published in:

Plants (2223-7747), 2023, v. 12, n. 15, p. 2805, doi. 10.3390/plants12152805

By:

Shan, Hongli;
Chen, Du;
Zhang, Rongyue;
Wang, Xiaoyan;
Li, Jie;
Wang, Changmi;
Li, Yinhu;
Huang, Yingkun

Publication type:

Article

Empowering AlphaFold2 for protein conformation selective drug discovery with AlphaFold2-RAVE.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.99702

By:

Xinyu Gu;
Akashnathan Aranganathan;
Pratyush Tiwary

Publication type:

Article

RAMPing up knowledge of the translocon.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.98548

By:

VISMPAS, DIMITRIOS;
FÖRSTER, FRIEDRICH

Publication type:

Article

Protein language model-embedded geometric graphs power inter-protein contact prediction.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.92184

By:

Yunda Si;
Chengfei Yan

Publication type:

Article

How accurately can one predict drug binding modes using AlphaFold models?

Published in:

eLife, 2023, p. 1, doi. 10.7554/eLife.89386

By:

Karelina, Masha;
Noh, Joseph J.;
Dror, Ron O.

Publication type:

Article

What AlphaFold tells us about cohesin's retention on and release from chromosomes.

Published in:

eLife, 2023, p. 1, doi. 10.7554/eLife.88656

By:

Nasmyth, Kim A.;
Lee, Byung-Gil;
Roig, Maurici Brunet;
Löwe, Jan

Publication type:

Article

A novel variant c.902C>A (p. A301D) in KCNQ4 associated with non‐syndromic deafness 2A in a Chinese family.

Published in:

Molecular Genetics & Genomic Medicine, 2024, v. 12, n. 7, p. 1, doi. 10.1002/mgg3.2446

By:

Ren, Lingyan;
Wu, Jiangfen;
Kuang, Ying;
Chen, Kun;
Jiang, Minmin;
Zhuo, Zhaozhen;
Cao, Zuwei;
Huang, Shengwen

Publication type:

Article

Genetic analysis and literature review of a Poirier–Bienvenu neurodevelopmental syndrome family line caused by a de novo frameshift variant in CSNK2B.

Published in:

Molecular Genetics & Genomic Medicine, 2024, v. 12, n. 1, p. 1, doi. 10.1002/mgg3.2327

By:

Li, Danyang;
Zhou, Bingbo;
Tian, Xinyuan;
Chen, Xue;
Wang, Yupei;
Hao, Shengju;
Zhang, Chuan;
Hui, Ling

Publication type:

Article

Exome sequencing in a child with neurodevelopmental disorder and epilepsy: Variant analysis of the AHNAK2 gene.

Published in:

Molecular Genetics & Genomic Medicine, 2022, v. 10, n. 9, p. 1, doi. 10.1002/mgg3.2012

By:

Vinci, Mirella;
Kursula, Petri;
Greco, Donatella;
Elia, Maurizio;
Vetri, Luigi;
Schepis, Carmelo;
Chiavetta, Valeria;
Donadio, Serena;
Roccella, Michele;
Carotenuto, Marco;
Romano, Valentino;
Calì, Francesco

Publication type:

Article

Targeted exome analysis of Russian patients with hypertrophic cardiomyopathy.

Published in:

Molecular Genetics & Genomic Medicine, 2021, v. 9, n. 11, p. 1, doi. 10.1002/mgg3.1808

By:

Filatova, Elena V.;
Krylova, Natalia S.;
Vlasov, Ivan N.;
Maslova, Maria S.;
Poteshkina, Natalia G.;
Slominsky, Petr A.;
Shadrina, Maria I.

Publication type:

Article

Response score-based protein structure analysis for cancer prediction aided by the Internet of Things.

Published in:

Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-52634-y

By:

Alruwaili, Omar;
Yousef, Amr;
Jumani, Touqeer A.;
Armghan, Ammar

Publication type:

Article

A sequence-based evolutionary distance method for Phylogenetic analysis of highly divergent proteins.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-47496-9

By:

Cao, Wei;
Wu, Lu-Yun;
Xia, Xia-Yu;
Chen, Xiang;
Wang, Zhi-Xin;
Pan, Xian-Ming

Publication type:

Article

A sequence-based evolutionary distance method for Phylogenetic analysis of highly divergent proteins.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-47496-9

By:

Cao, Wei;
Wu, Lu-Yun;
Xia, Xia-Yu;
Chen, Xiang;
Wang, Zhi-Xin;
Pan, Xian-Ming

Publication type:

Article

Pan-cancer structurome reveals overrepresentation of beta sandwiches and underrepresentation of alpha helical domains.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-39273-5

By:

Medvedev, Kirill E.;
Schaeffer, R. Dustin;
Chen, Kenneth S.;
Grishin, Nick V.

Publication type:

Article

Editorial: Synthetic peptide vaccine platforms targeting tumor-specific antigens: advances and challenges.

Published in:

Frontiers in Pharmacology, 2024, p. 1, doi. 10.3389/fphar.2024.1363282

By:

Rubsamen, Reid M.;
Sloan, Andrew E.

Publication type:

Article

Editorial: Influence of Protein-Protein Interactions (PPIs) on the Outcome of Viral Infections.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.943379

By:

Jangra, Rohit K.;
Llabrés, Mercè;
Guardado-Calvo, Pablo;
Mittler, Eva;
Lasso, Gorka

Publication type:

Article

Overexpression of a " Candidatus Liberibacter Asiaticus" Effector Gene CaLasSDE115 Contributes to Early Colonization in Citrus sinensis.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2021.797841

By:

Du, Meixia;
Wang, Shuai;
Dong, Liting;
Qu, Rongrong;
Zheng, Lin;
He, Yongrui;
Chen, Shanchun;
Zou, Xiuping

Publication type:

Article

Titel: Nachr. Chem. 11/2024.

Published in:: Nachrichten aus der Chemie, 2024, v. 72, n. 11, p. 1, doi. 10.1002/nadc.20244146573
Publication type:: Article

On the role of metaheuristic optimization in bioinformatics.

Published in:

International Transactions in Operational Research, 2023, v. 30, n. 6, p. 2909, doi. 10.1111/itor.13164

By:

Calvet, Laura;
Benito, Sergio;
Juan, Angel A.;
Prados, Ferran

Publication type:

Article

High-throughput prediction of protein conformational distributions with subsampled AlphaFold2.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-46715-9

By:

Monteiro da Silva, Gabriel;
Cui, Jennifer Y.;
Dalgarno, David C.;
Lisi, George P.;
Rubenstein, Brenda M.

Publication type:

Article

Local energetic frustration conservation in protein families and superfamilies.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-43801-2

By:

Freiberger, Maria I.;
Ruiz-Serra, Victoria;
Pontes, Camila;
Romero-Durana, Miguel;
Galaz-Davison, Pablo;
Ramírez-Sarmiento, Cesar A.;
Schuster, Claudio D.;
Marti, Marcelo A.;
Wolynes, Peter G.;
Ferreiro, Diego U.;
Parra, R. Gonzalo;
Valencia, Alfonso

Publication type:

Article

trRosettaRNA: automated prediction of RNA 3D structure with transformer network.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-42528-4

By:

Wang, Wenkai;
Feng, Chenjie;
Han, Renmin;
Wang, Ziyi;
Ye, Lisha;
Du, Zongyang;
Wei, Hong;
Zhang, Fa;
Peng, Zhenling;
Yang, Jianyi

Publication type:

Article

Evolutionary selection of proteins with two folds.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-41237-2

By:

Schafer, Joseph W.;
Porter, Lauren L.

Publication type:

Article

Deep transfer learning for inter-chain contact predictions of transmembrane protein complexes.

Published in:

Nature Communications, 2023, v. 14, n. 1, p. 1, doi. 10.1038/s41467-023-40426-3

By:

Lin, Peicong;
Yan, Yumeng;
Tao, Huanyu;
Huang, Sheng-You

Publication type:

Article

Global regulator DksA modulates virulence of Acinetobacter baumannii.

Published in:

Virulence, 2021, v. 12, n. 1, p. 2750, doi. 10.1080/21505594.2021.1995253

By:

Kim, Nayeong;
Son, Joo Hee;
Kim, Kyeongmin;
Kim, Hyo Jeong;
Kim, Yoo Jeong;
Shin, Minsang;
Lee, Je Chul

Publication type:

Article

Global regulator DksA modulates virulence of Acinetobacter baumannii.

Published in:

Virulence, 2021, v. 12, n. 1, p. 2750, doi. 10.1080/21505594.2021.1995253

By:

Nayeong Kim;
Joo Hee Son;
Kyeongmin Kim;
Hyo Jeong Kim;
Yoo Jeong Kim;
Minsang Shin;
Je Chul Lee

Publication type:

Article

The epigenetic dimension of protein structure.

Published in:

Biomolecular Concepts, 2022, v. 13, n. 1, p. 55, doi. 10.1515/bmc-2022-0006

By:

Azzaz, Fodil;
Fantini, Jacques

Publication type:

Article

Sequence, structure prediction, and epitope analysis of the polymorphic membrane protein family in Chlamydia trachomatis.

Published in:

PLoS ONE, 2024, v. 19, n. 6, p. 1, doi. 10.1371/journal.pone.0304525

By:

Cervantes, Patrick W.;
Segelke, Brent W.;
Lau, Edmond Y.;
Robinson, Beverly V.;
Abisoye-Ogunniyan, Abisola;
Pal, Sukumar;
de la Maza, Luis M.;
Coleman, Matthew A.;
D'haeseleer, Patrik

Publication type:

Article

Exploring the fragmentation efficiency of proteins analyzed by MALDI-TOF-TOF tandem mass spectrometry using computational and statistical analyses.

Published in:

PLoS ONE, 2024, v. 19, n. 5, p. 1, doi. 10.1371/journal.pone.0299287

By:

Park, Jihyun;
Fagerquist, Clifton K.

Publication type:

Article

Putative purine nucleoside interacting residues in the malaria parasite purine uptake transporter PfENT1 are critical for transporter function.

Published in:

PLoS ONE, 2023, v. 18, n. 12, p. 1, doi. 10.1371/journal.pone.0293923

By:

Dillague, Criselda;
Akabas, Myles H.

Publication type:

Article

Structural bioinformatics studies of bacterial outer membrane beta-barrel transporters and their AlphaFold2 predicted water-soluble QTY variants.

Published in:

PLoS ONE, 2023, v. 18, n. 8, p. 1, doi. 10.1371/journal.pone.0290360

By:

Sajeev-Sheeja, Akash;
Smorodina, Eva;
Zhang, Shuguang

Publication type:

Article

Delving into the significance of the His289Tyr single-nucleotide polymorphism in the glutamate ionotropic receptor kainate-1 (Grikl) gene of a genetically audiogenic seizure model.

Published in:

Frontiers in Molecular Neuroscience, 2024, p. 01, doi. 10.3389/fnmol.2023.1322750

By:

Díaz-Rodríguez, Sandra M.;
Herrero-Turrión, M. Javier;
García-Peral, Carlos;
Gómez-Nieto, Ricardo

Publication type:

Article

TransConv: convolution-infused transformer for protein secondary structure prediction.

Published in:

Journal of Molecular Modeling, 2025, v. 31, n. 2, p. 1, doi. 10.1007/s00894-024-06259-7

By:

Das, Sayantan;
Ghosh, Subhayu;
Jana, Nanda Dulal

Publication type:

Article

A review of visualisations of protein fold networks and their relationship with sequence and function.

Published in:

2023

By:

Sykes, Janan;
Holland, Barbara R.;
Charleston, Michael A.

Publication type:

Literature Review

Molecular characterization of a tetra segmented ssDNA virus infecting Botrytis cinerea worldwide.

Published in:

Virology Journal, 2023, v. 20, n. 1, p. 1, doi. 10.1186/s12985-023-02256-z

By:

Ruiz-Padilla, Ana;
Turina, Massimo;
Ayllón, María A.

Publication type:

Article

データ駆動型研究によるタンパク質のダイナミクスと進化の普遍的法則.

Published in:

Seibutsu Butsuri, 2024, v. 64, n. 6, p. 291, doi. 10.2142/biophys.64.291

By:

唐乾元

Publication type:

Article

The rapid developments of membrane protein structure biology over the last two decades.

Published in:

BMC Biology, 2023, v. 21, n. 1, p. 1, doi. 10.1186/s12915-023-01795-9

By:

Guan, Lan

Publication type:

Article

Pro-domain processing of fungal effector proteins from plant pathogens.

Published in:

PLoS Pathogens, 2021, v. 17, n. 10, p. 1, doi. 10.1371/journal.ppat.1010000

By:

Outram, Megan A.;
Solomon, Peter S.;
Williams, Simon J.

Publication type:

Article

Bayesian methods in integrative structure modeling.

Published in:

Biological Chemistry, 2023, v. 404, n. 8/9, p. 741, doi. 10.1515/hsz-2023-0145

By:

Habeck, Michael

Publication type:

Article

Structural Insights into Cold-Active Lipase from Glaciozyma antarctica PI12: Alphafold2 Prediction and Molecular Dynamics Simulation.

Published in:

Journal of Molecular Evolution, 2024, v. 92, n. 6, p. 944, doi. 10.1007/s00239-024-10219-3

By:

Matinja, Adamu Idris;
Kamarudin, Nor Hafizah Ahmad;
Leow, Adam Thean Chor;
Oslan, Siti Nurbaya;
Ali, Mohd Shukuri Mohamad

Publication type:

Article

Conservation of Three-Dimensional Structure of Lepidoptera and Trichoptera L-Fibroins for 290 Million Years.

Published in:

Molecules, 2022, v. 27, n. 18, p. 5945, doi. 10.3390/molecules27185945

By:

Stewart, Russell J.;
Frandsen, Paul B.;
Pauls, Steffen U.;
Heckenhauer, Jacqueline

Publication type:

Article

Assessment of AI-Based Protein Structure Prediction for the NLRP3 Target.

Published in:

Molecules, 2022, v. 27, n. 18, p. 5797, doi. 10.3390/molecules27185797

By:

Yin, Jian;
Lei, Junkun;
Yu, Jialin;
Cui, Weiren;
Satz, Alexander L.;
Zhou, Yifan;
Feng, Hua;
Deng, Jason;
Su, Wenji;
Kuai, Letian

Publication type:

Article

Ligand Binding Prediction Using Protein Structure Graphs and Residual Graph Attention Networks.

Published in:

Molecules, 2022, v. 27, n. 16, p. 5114, doi. 10.3390/molecules27165114

By:

Pandey, Mohit;
Radaeva, Mariia;
Mslati, Hazem;
Garland, Olivia;
Fernandez, Michael;
Ester, Martin;
Cherkasov, Artem

Publication type:

Article

The Wako-Saitô-Muñoz-Eaton Model for Predicting Protein Folding and Dynamics.

Published in:

Molecules, 2022, v. 27, n. 14, p. N.PAG, doi. 10.3390/molecules27144460

By:

Ooka, Koji;
Liu, Runjing;
Arai, Munehito

Publication type:

Article

CRFalign: A Sequence-Structure Alignment of Proteins Based on a Combination of HMM-HMM Comparison and Conditional Random Fields.

Published in:

Molecules, 2022, v. 27, n. 12, p. 3711, doi. 10.3390/molecules27123711

By:

Lee, Sung Jong;
Joo, Keehyoung;
Sim, Sangjin;
Lee, Juyong;
Lee, In-Ho;
Lee, Jooyoung

Publication type:

Article

In vivo thrombin activity in the diatom Phaeodactylum tricornutum: biotechnological insights.

Published in:

Applied Microbiology & Biotechnology, 2024, v. 108, n. 1, p. 1, doi. 10.1007/s00253-024-13322-z

By:

Messaabi, Anis;
Merindol, Natacha;
Bohnenblust, Lea;
Fantino, Elisa;
Meddeb-Mouelhi, Fatma;
Desgagné-Penix, Isabel

Publication type:

Article