Works about PROTEIN structure

Results: 5000

In silico binding analysis of lutein and rosmarinic acid against envelope domain III protein of dengue virus.

Published in:

Indian Journal of Pharmacology, 2021, v. 53, n. 6, p. 471, doi. 10.4103/ijp.IJP_576_19

By:

Panchal, Ritesh;
Bapat, Sanket;
Mukherjee, Sandeepan;
Chowdhary, Abhay

Publication type:

Article

Investigation of hub genes and their nonsynonymous single nucleotide polymorphism analysis in Plasmodium falciparum for designing therapeutic methodologies using next-generation sequencing approach.

Published in:

Indian Journal of Pharmacology, 2019, v. 51, n. 6, p. 389, doi. 10.4103/ijp.IJP_535_19

By:

Singh, Sanjay;
Reddy, Sudhakara

Publication type:

Article

In silico evaluation of apoptogenic potential and toxicological profile of triterpenoids.

Published in:

Indian Journal of Pharmacology, 2019, v. 51, n. 3, p. 181, doi. 10.4103/ijp.IJP_90_18

By:

Desai, Tanvi;
Joshi, Shrikant

Publication type:

Article

Functional Sites Induce Long-Range Evolutionary Constraints in Enzymes.

Published in:

PLoS Biology, 2016, v. 14, n. 5, p. 1, doi. 10.1371/journal.pbio.1002452

By:

Jack, Benjamin R.;
Meyer, Austin G.;
Echave, Julian;
Wilke, Claus O.

Publication type:

Article

Modulation of Global Low-Frequency Motions Underlies Allosteric Regulation: Demonstration in CRP/FNR Family Transcription Factors.

Published in:

PLoS Biology, 2013, v. 11, n. 9, p. 1, doi. 10.1371/journal.pbio.1001651

By:

Rodgers, Thomas L.;
Townsend, Philip D.;
Burnell, David;
Jones, Matthew L.;
Richards, Shane A.;
McLeish, Tom C. B.;
Pohl, Ehmke;
Wilson, Mark R.;
Cann, Martin J.

Publication type:

Article

Functional Amyloid Formation within Mammalian Tissue.

Published in:

PLoS Biology, 2005, v. 3, n. 11, p. 1, doi. 10.1371/journal.pbio.0040006

By:

Fowler, Douglas M;
Koulov, Atanas V;
Alory-Jost, Christelle;
Marks, Michael S;
Balch, William E;
Kelly, Jeffery W

Publication type:

Article

The Genomics of Disulfide Bonding and Protein Stabilization in Thermophiles.

Published in:

PLoS Biology, 2005, v. 3, n. 8, p. 1, doi. 10.1371/journal.pbio.0030309

By:

Beeby, Morgan;
O'Connor, Brian D;
Ryttersgaard, Carsten;
Boutz, Daniel R;
Perry, L. Jeanne;
Yeates, Todd O

Publication type:

Article

AAindex-PPII: Predicting polyproline type II helix structure based on amino acid indexes with an improved BiGRU-TextCNN model.

Published in:

Journal of Bioinformatics & Computational Biology, 2023, v. 21, n. 5, p. 1, doi. 10.1142/S0219720023500221

By:

He, Jiasheng;
Zhang, Shun;
Fang, Chun

Publication type:

Article

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

COYOTE: Sequence-derived structural descriptors-based computational identification of glycoproteins.

Published in:

Journal of Bioinformatics & Computational Biology, 2022, v. 20, n. 5, p. 1, doi. 10.1142/S0219720022500196

By:

Abbasi, Wajid Arshad;
Anjam, Asma;
Khalil, Sadia;
Andleeb, Saiqa;
Bibi, Maryum;
Abbas, Syed Ali

Publication type:

Article

Amino acid environment affinity model based on graph attention network.

Published in:

Journal of Bioinformatics & Computational Biology, 2022, v. 20, n. 1, p. 1, doi. 10.1142/S0219720021500323

By:

Tong, Xueheng;
Liu, Shuqi;
Gu, Jiawei;
Wu, Chunguo;
Liang, Yanchun;
Shi, Xiaohu

Publication type:

Article

Scaling laws of graphs of 3D protein structures.

Published in:

Journal of Bioinformatics & Computational Biology, 2021, v. 19, n. 3, p. N.PAG, doi. 10.1142/S021972002050050X

By:

Pražnikar, Jure

Publication type:

Article

3D U-Net: A voxel-based method in binding site prediction of protein structure.

Published in:

Journal of Bioinformatics & Computational Biology, 2021, v. 19, n. 2, p. N.PAG, doi. 10.1142/S0219720021500062

By:

Nazem, Fatemeh;
Ghasemi, Fahimeh;
Fassihi, Afshin;
Dehnavi, Alireza Mehri

Publication type:

Article

Unsupervised multi-instance learning for protein structure determination.

Published in:

Journal of Bioinformatics & Computational Biology, 2021, v. 19, n. 1, p. N.PAG, doi. 10.1142/S0219720021400023

By:

Alam, Fardina Fathmiul;
Shehu, Amarda

Publication type:

Article

Introduction to the JBCB Special Issue on Selected Papers from BICOB-2020.

Published in:

2021

By:

Eulenstein, Oliver;
Ding, Qin;
Al-Mubaid, Hisham

Publication type:

Editorial

Cascading classifier application for topology prediction of transmembrane beta-barrel proteins.

Published in:

Journal of Bioinformatics & Computational Biology, 2020, v. 18, n. 6, p. N.PAG, doi. 10.1142/S0219720020500341

By:

Kazemian, Hassan B.;
Grimaldi, Cedric Maxime

Publication type:

Article

EasyAmber: A comprehensive toolbox to automate the molecular dynamics simulation of proteins.

Published in:

Journal of Bioinformatics & Computational Biology, 2020, v. 18, n. 6, p. N.PAG, doi. 10.1142/S0219720020400119

By:

Suplatov, Dmitry;
Sharapova, Yana;
Švedas, Vytas

Publication type:

Article

A deep attention network for predicting amino acid signals in the formation of α-helices.

Published in:

Journal of Bioinformatics & Computational Biology, 2020, v. 18, n. 5, p. N.PAG, doi. 10.1142/S0219720020500286

By:

Visibelli, A.;
Bongini, P.;
Rossi, A.;
Niccolai, N.;
Bianchini, M.

Publication type:

Article

Structural profile matrices for predicting structural properties of proteins.

Published in:

Journal of Bioinformatics & Computational Biology, 2020, v. 18, n. 4, p. N.PAG, doi. 10.1142/S0219720020500225

By:

Azginoglu, Nuh;
Aydin, Zafer;
Celik, Mete

Publication type:

Article

PDB-2-PBv3.0: An updated protein block database.

Published in:

Journal of Bioinformatics & Computational Biology, 2020, v. 18, n. 2, p. N.PAG, doi. 10.1142/S0219720020500092

By:

Karuppasamy, Muthuvel Prasath;
Venkateswaran, Suresh;
Subbiah, Parthasarathy

Publication type:

Article

ProgSIO-MSA: Progressive-based single iterative optimization framework for multiple sequence alignment using an effective scoring system.

Published in:

Journal of Bioinformatics & Computational Biology, 2020, v. 18, n. 2, p. N.PAG, doi. 10.1142/S0219720020500055

By:

Bankapur, Sanjay;
Patil, Nagamma

Publication type:

Article

Building maps of protein structure spaces in template-free protein structure prediction.

Published in:

Journal of Bioinformatics & Computational Biology, 2019, v. 17, n. 6, p. N.PAG, doi. 10.1142/S0219720019400134

By:

Zaman, Ahmed Bin;
Shehu, Amarda

Publication type:

Article

Foreword: Special Issue for the 2019 International Conference on Bioinformatics and Computational Biology (BICOB-2019).

Published in:

2019

By:

Ding, Qin;
Eulenstein, Oliver;
Al-Mubaid, Hisham

Publication type:

Editorial

Protein tertiary structure prediction using hidden Markov model based on lattice.

Published in:

Journal of Bioinformatics & Computational Biology, 2019, v. 17, n. 2, p. N.PAG, doi. 10.1142/S0219720019500070

By:

Peyravi, Farzad;
Latif, Alimohammad;
Moshtaghioun, Seyed Mohammad

Publication type:

Article

Refined template selection and combination algorithm significantly improves template-based modeling accuracy.

Published in:

Journal of Bioinformatics & Computational Biology, 2019, v. 17, n. 2, p. N.PAG, doi. 10.1142/S0219720019500069

By:

Runthala, Ashish;
Chowdhury, Shibasish

Publication type:

Article

Protein secondary structure prediction improved by recurrent neural networks integrated with two-dimensional convolutional neural networks.

Published in:

Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 5, p. N.PAG, doi. 10.1142/S021972001850021X

By:

Guo, Yanbu;
Wang, Bingyi;
Li, Weihua;
Yang, Bei

Publication type:

Article

Dimensionality reduction for protein secondary structure and solvent accesibility prediction.

Published in:

Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 5, p. N.PAG, doi. 10.1142/S0219720018500208

By:

Aydin, Zafer;
Kaynar, Oğuz;
Görmez, Yasin

Publication type:

Article

Principal component analysis in protein tertiary structure prediction.

Published in:

Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 2, p. -1, doi. 10.1142/S0219720018500051

By:

Álvarez, Óscar;
Fernández-Martínez, Juan Luis;
Fernández-Brillet, Celia;
Cernea, Ana;
Fernández-Muñiz, Zulima;
Kloczkowski, Andrzej

Publication type:

Article

Reconstructing protein and gene phylogenies using reconciliation and soft-clustering.

Published in:

Journal of Bioinformatics & Computational Biology, 2017, v. 15, n. 6, p. -1, doi. 10.1142/S0219720017400078

By:

Kuitche, Esaie;
Lafond, Manuel;
Ouangraoua, Aïda

Publication type:

Article

NEAT-FLEX: Predicting the conformational flexibility of amino acids using neuroevolution of augmenting topologies.

Published in:

Journal of Bioinformatics & Computational Biology, 2017, v. 15, n. 3, p. -1, doi. 10.1142/S0219720017500093

By:

Grisci, Bruno;
Dorn, Márcio

Publication type:

Article

Identification of residues of the archaeal RNA-binding Nip7 proteins specific to environmental conditions.

Published in:

Journal of Bioinformatics & Computational Biology, 2017, v. 15, n. 2, p. -1, doi. 10.1142/S0219720016500360

By:

Medvedev, Kirill E.;
Kolchanov, Nikolay A.;
Afonnikov, Dmitry A.

Publication type:

Article

SITEX 2.0: Projections of protein functional sites on eukaryotic genes. Extension with orthologous genes.

Published in:

Journal of Bioinformatics & Computational Biology, 2017, v. 15, n. 2, p. -1, doi. 10.1142/S021972001650044X

By:

Medvedeva, Irina V.;
Demenkov, Pavel S.;
Ivanisenko, Vladimir A.

Publication type:

Article

Samira-VP: A simple protein alignment method with rechecking the alphabet vector positions.

Published in:

Journal of Bioinformatics & Computational Biology, 2017, v. 15, n. 2, p. -1, doi. 10.1142/S0219720017500044

By:

Fotoohifiroozabadi, Samira;
Mohamad, Mohd Saberi;
Deris, Safaai

Publication type:

Article

Search for conserved amino acid residues of the -crystallin proteins of vertebrates.

Published in:

Journal of Bioinformatics & Computational Biology, 2016, v. 14, n. 2, p. -1, doi. 10.1142/S0219720016410043

By:

Shiliaev, Nikita G.;
Selivanova, Olga M.;
Galzitskaya, Oxana V.

Publication type:

Article

Author Index Volume 13 (2015).

Published in:: Journal of Bioinformatics & Computational Biology, 2015, v. 13, n. 6, p. 1, doi. 10.1142/S0219720015990012
Publication type:: Article

Automating unambiguous NOE data usage in NVR for NMR protein structure-based assignments.

Published in:

Journal of Bioinformatics & Computational Biology, 2015, v. 13, n. 6, p. 1, doi. 10.1142/S0219720015500201

By:

Akhmedov, Murodzhon;
Çatay, Bülent;
Apaydın, Mehmet Serkan

Publication type:

Article

Sparse Markov chain-based semi-supervised multi-instance multi-label method for protein function prediction.

Published in:

Journal of Bioinformatics & Computational Biology, 2015, v. 13, n. 5, p. -1, doi. 10.1142/S0219720015430015

By:

Han, Chao;
Chen, Jian;
Wu, Qingyao;
Mu, Shuai;
Min, Huaqing

Publication type:

Article

A novel Multi-Agent Ada-Boost algorithm for predicting protein structural class with the information of protein secondary structure.

Published in:

Journal of Bioinformatics & Computational Biology, 2015, v. 13, n. 5, p. -1, doi. 10.1142/S0219720015500225

By:

Fan, Ming;
Zheng, Bin;
Li, Lihua

Publication type:

Article

The study of unfoldable self-avoiding walks - Application to protein structure prediction software.

Published in:

Journal of Bioinformatics & Computational Biology, 2015, v. 13, n. 4, p. -1, doi. 10.1142/S0219720015500092

By:

Guyeux, Christophe;
Nicod, Jean-Marc;
Philippe, Laurent;
Bahi, Jacques M.

Publication type:

Article

Quality assessment of modeled protein structure using physicochemical properties.

Published in:

Journal of Bioinformatics & Computational Biology, 2015, v. 13, n. 2, p. -1, doi. 10.1142/S0219720015500055

By:

Rana, Prashant Singh;
Sharma, Harish;
Bhattacharya, Mahua;
Shukla, Anupam

Publication type:

Article

Implementing a modeling software for animated protein-complex interactions using a physics simulation library.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 6, p. -1, doi. 10.1142/S0219720014420037

By:

Ueno, Yutaka;
Ito, Shuntaro;
Konagaya, Akihiko

Publication type:

Article

PRIGSA: Protein repeat identification by graph spectral analysis.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 6, p. -1, doi. 10.1142/S0219720014420098

By:

Chakrabarty, Broto;
Parekh, Nita

Publication type:

Article

Are distance-dependent statistical potentials considering three interacting bodies superior to two-body statistical potentials for protein structure prediction?

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 5, p. -1, doi. 10.1142/S021972001450022X

By:

Ghomi, Hamed Tabatabaei;
Thompson, Jared J.;
Lill, Markus A.

Publication type:

Article

Assessment of optimized Markov models in protein fold classification.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 4, p. 1, doi. 10.1142/S0219720014500164

By:

Lampros, Christos;
Simos, Thomas;
Exarchos, Themis P.;
Exarchos, Konstantinos P.;
Papaloukas, Costas;
Fotiadis, Dimitrios I.

Publication type:

Article

JBCB, the first decade.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 3, p. 1401001-1, doi. 10.1142/S021972001401001X

By:

Wooley, John;
Ming Li;
Limsoon Wong

Publication type:

Article

DYNAFOLD: A DYNAMIC PROGRAMMING APPROACH TO PROTEIN BACKBONE STRUCTURE DETERMINATION FROM MINIMAL SETS OF RESIDUAL DIPOLAR COUPLINGS.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 1, p. -1, doi. 10.1142/S0219720014500024

By:

MUKHOPADHYAY, RISHI;
IRAUSQUIN, STEPHANIE;
SCHMIDT, CHRISTOPHER;
VALAFAR, HOMAYOUN

Publication type:

Article

IS PROTEIN FOLDING PROBLEM REALLY A NP-COMPLETE ONE? FIRST INVESTIGATIONS.

Published in:

Journal of Bioinformatics & Computational Biology, 2014, v. 12, n. 1, p. -1, doi. 10.1142/S0219720013500170

By:

GUYEUX, CHRISTOPHE;
CÔTÉ, NATHALIE M.-L.;
BAHI, JACQUES M.;
BIENIA, WOJCIECH

Publication type:

Article

PREDICTION OF PROTEIN SECONDARY STRUCTURE USING PROBABILITY BASED FEATURES AND A HYBRID SYSTEM.

Published in:

Journal of Bioinformatics & Computational Biology, 2013, v. 11, n. 5, p. -1, doi. 10.1142/S0219720013500121

By:

GHANTY, PRADIP;
PAL, NIKHIL R.;
MUDI, RAJANI K.

Publication type:

Article

DYNAMICALLY SEARCHING FOR A DOMAIN FOR PROTEIN FUNCTION PREDICTION.

Published in:

Journal of Bioinformatics & Computational Biology, 2013, v. 11, n. 4, p. -1, doi. 10.1142/S021972001350008X

By:

HOU, JINGYU;
JIANG, YONGQING

Publication type:

Article

DISRUPTION OF PROTEIN COMPLEXES.

Published in:

Journal of Bioinformatics & Computational Biology, 2013, v. 11, n. 3, p. 1, doi. 10.1142/S0219720013410084

By:

TAHERI, GOLNAZ;
IIABIBI, MAHNAZ;
LIMSOON WONG;
ESLAHCHI, CHANGIZ

Publication type:

Article