| Year |
Citation |
Score |
| 2021 |
Rosário-Ferreira N, Baptista SJ, Barreto CAV, Rodrigues FEP, Silva TFD, Ferreira SGF, Vitorino JNM, Melo R, Victor BL, Machuqueiro M, Moreira IS. In Silico End-to-End Protein-Ligand Interaction Characterization Pipeline: The Case of SARS-CoV-2. Acs Synthetic Biology. 10: 3209-3235. PMID 34736321 DOI: 10.1021/acssynbio.1c00368 |
0.349 |
|
| 2021 |
Rosário-Ferreira N, Marques-Pereira C, Gouveia RP, Mourão J, Moreira IS. Guardians of the Cell: State-of-the-Art of Membrane Proteins from a Computational Point-of-View. Methods in Molecular Biology (Clifton, N.J.). 2315: 3-28. PMID 34302667 DOI: 10.1007/978-1-0716-1468-6_1 |
0.329 |
|
| 2021 |
Matos-Filipe P, Preto AJ, Koukos PI, Mourão J, Bonvin AMJJ, Moreira IS. MENSAdb: a thorough structural analysis of membrane protein dimers. Database : the Journal of Biological Databases and Curation. 2021. PMID 33822911 DOI: 10.1093/database/baab013 |
0.742 |
|
| 2021 |
Preto AJ, Matos-Filipe P, de Almeida JG, Mourão J, Moreira IS. Predicting Hot Spots Using a Deep Neural Network Approach. Methods in Molecular Biology (Clifton, N.J.). 2190: 267-288. PMID 32804371 DOI: 10.1007/978-1-0716-0826-5_13 |
0.357 |
|
| 2020 |
Preto AJ, Moreira IS. SPOTONE: Hot Spots on Protein Complexes with Extremely Randomized Trees via Sequence-Only Features. International Journal of Molecular Sciences. 21. PMID 33019775 DOI: 10.3390/ijms21197281 |
0.378 |
|
| 2020 |
Preto AJ, Barreto CAV, Baptista S, Almeida J, Lemos A, Melo A, Cordeiro MNDS, Kurkcuoglu Z, Melo R, Moreira IS. Understanding the binding specificity of G-protein coupled receptors towards G-proteins and Arrestins: application to the dopamine receptor family. Journal of Chemical Information and Modeling. PMID 32692555 DOI: 10.1021/Acs.Jcim.0C00371 |
0.751 |
|
| 2020 |
Barreto CAV, Baptista SJ, Preto AJ, Matos-Filipe P, Mourão J, Melo R, Moreira I. Prediction and targeting of GPCR oligomer interfaces. Progress in Molecular Biology and Translational Science. 169: 105-149. PMID 31952684 DOI: 10.1016/bs.pmbts.2019.11.007 |
0.393 |
|
| 2019 |
Koukos PI, Roel-Touris J, Ambrosetti F, Geng C, Schaarschmidt J, Trellet ME, Melquiond ASJ, Xue LC, Honorato RV, Moreira I, Kurkcuoglu Z, Vangone A, Bonvin AMJJ. An overview of data-driven HADDOCK strategies in CAPRI rounds 38-45. Proteins. PMID 31886559 DOI: 10.1002/Prot.25869 |
0.544 |
|
| 2019 |
Preto AJ, Matos-Filipe P, Koukos PI, Renault P, Sousa SF, Moreira IS. Structural Characterization of Membrane Protein Dimers. Methods in Molecular Biology (Clifton, N.J.). 1958: 403-436. PMID 30945231 DOI: 10.1007/978-1-4939-9161-7_21 |
0.719 |
|
| 2019 |
Bueschbell B, Barreto CAV, Preto AJ, Schiedel AC, Moreira IS. A Complete Assessment of Dopamine Receptor- Ligand Interactions through Computational Methods. Molecules (Basel, Switzerland). 24. PMID 30934701 DOI: 10.3390/molecules24071196 |
0.35 |
|
| 2017 |
Kurkcuoglu Z, Koukos PI, Citro N, Trellet ME, Rodrigues JPGLM, Moreira IS, Roel-Touris J, Melquiond ASJ, Geng C, Schaarschmidt J, Xue LC, Vangone A, Bonvin AMJJ. Performance of HADDOCK and a simple contact-based protein-ligand binding affinity predictor in the D3R Grand Challenge 2. Journal of Computer-Aided Molecular Design. PMID 28831657 DOI: 10.1007/S10822-017-0049-Y |
0.618 |
|
| 2017 |
Moreira IS, Koukos PI, Melo R, Almeida JG, Preto AJ, Schaarschmidt J, Trellet M, Gümüş ZH, Costa J, Bonvin AMJJ. SpotOn: High Accuracy Identification of Protein-Protein Interface Hot-Spots. Scientific Reports. 7: 8007. PMID 28808256 DOI: 10.1038/S41598-017-08321-2 |
0.726 |
|
| 2017 |
Almeida JG, Preto AJ, Koukos PI, Bonvin AMJJ, Moreira IS. MEMBRANE PROTEINS STRUCTURES: A review on computational modeling tools. Biochimica Et Biophysica Acta. PMID 28716627 DOI: 10.1016/j.bbamem.2017.07.008 |
0.717 |
|
| 2017 |
Moreira IS, Koukos P, Melo R, Almeida JG, Preto AJ, Schaarschmidt J, Trellet M, Gumus ZH, Costa J, Bonvin AMJJ. Spoton: A Machine-Learning Approach for Hot-Spot Determination Biophysical Journal. 112. DOI: 10.1016/J.Bpj.2016.11.284 |
0.774 |
|
| 2016 |
Melo R, Fieldhouse R, Melo A, Correia JD, Cordeiro MN, Gümüş ZH, Costa J, Bonvin AM, Moreira IS. A Machine Learning Approach for Hot-Spot Detection at Protein-Protein Interfaces. International Journal of Molecular Sciences. 17. PMID 27472327 DOI: 10.3390/Ijms17081215 |
0.643 |
|
| 2015 |
Munteanu CR, Pimenta AC, Fernandez-Lozano C, Melo A, Cordeiro MN, Moreira IS. Solvent accessible surface area-based hot-spot detection methods for protein-protein and protein-nucleic acid interfaces. Journal of Chemical Information and Modeling. 55: 1077-86. PMID 25845030 DOI: 10.1021/ci500760m |
0.306 |
|
| 2015 |
Moreira IS, Martins JM, Coimbra JT, Ramos MJ, Fernandes PA. A new scoring function for protein-protein docking that identifies native structures with unprecedented accuracy. Physical Chemistry Chemical Physics : Pccp. 17: 2378-87. PMID 25490550 DOI: 10.1039/c4cp04688a |
0.316 |
|
| 2014 |
Martins JM, Ramos RM, Pimenta AC, Moreira IS. Solvent-accessible surface area: How well can be applied to hot-spot detection? Proteins. 82: 479-90. PMID 24105801 DOI: 10.1002/prot.24413 |
0.312 |
|
| 2013 |
Ramos RM, Moreira IS. Computational Alanine Scanning Mutagenesis-An Improved Methodological Approach for Protein-DNA Complexes. Journal of Chemical Theory and Computation. 9: 4243-56. PMID 26592413 DOI: 10.1021/ct400387r |
0.349 |
|
| 2013 |
Martins SA, Perez MA, Moreira IS, Sousa SF, Ramos MJ, Fernandes PA. Computational Alanine Scanning Mutagenesis: MM-PBSA vs TI. Journal of Chemical Theory and Computation. 9: 1311-9. PMID 26587593 DOI: 10.1021/ct4000372 |
0.304 |
|
| 2013 |
Pimenta AC, Martins JM, Fernandes R, Moreira IS. Ligand-induced structural changes in TEM-1 probed by molecular dynamics and relative binding free energy calculations. Journal of Chemical Information and Modeling. 53: 2648-58. PMID 23991837 DOI: 10.1021/ci400269d |
0.339 |
|
| 2013 |
Martins JM, Ramos RM, Moreira IS. Structural Determinants of a Typical Leucine-Rich Repeat Protein Communications in Computational Physics. 13: 238-255. DOI: 10.4208/CICP.300711.230911S |
0.332 |
|
| 2012 |
Moreira IS, Martins JM, Ramos RM, Fernandes PA, Ramos MJ. Understanding the importance of the aromatic amino-acid residues as hot-spots. Biochimica Et Biophysica Acta. 1834: 404-14. PMID 22842194 DOI: 10.1016/j.bbapap.2012.07.005 |
0.322 |
|
| 2010 |
Moreira IS, Fernandes PA, Ramos MJ. Protein-protein docking dealing with the unknown. Journal of Computational Chemistry. 31: 317-42. PMID 19462412 DOI: 10.1002/jcc.21276 |
0.335 |
|
| 2007 |
Moreira IS, Fernandes PA, Ramos MJ. Backbone Importance for Protein-Protein Binding. Journal of Chemical Theory and Computation. 3: 885-93. PMID 26627408 DOI: 10.1021/ct6003824 |
0.329 |
|
| 2007 |
Moreira IS, Fernandes PA, Ramos MJ. Hot spots--a review of the protein-protein interface determinant amino-acid residues. Proteins. 68: 803-12. PMID 17546660 DOI: 10.1002/prot.21396 |
0.338 |
|
| 2007 |
Moreira IS, Fernandes PA, Ramos MJ. Hot spot occlusion from bulk water: a comprehensive study of the complex between the lysozyme HEL and the antibody FVD1.3. The Journal of Physical Chemistry. B. 111: 2697-706. PMID 17315919 DOI: 10.1021/jp067096p |
0.337 |
|
| 2007 |
Moreira IS, Fernandes PA, Ramos MJ. Computational alanine scanning mutagenesis--an improved methodological approach. Journal of Computational Chemistry. 28: 644-54. PMID 17195156 DOI: 10.1002/jcc.20566 |
0.331 |
|
| 2006 |
Moreira IS, Fernandes PA, Ramos MJ. Unraveling the importance of protein-protein interaction: application of a computational alanine-scanning mutagenesis to the study of the IgG1 streptococcal protein G (C2 fragment) complex. The Journal of Physical Chemistry. B. 110: 10962-9. PMID 16771349 DOI: 10.1021/jp054760d |
0.34 |
|
| 2006 |
Moreira IS, Fernandes PA, Ramos MJ. Detailed microscopic study of the full zipA:FtsZ interface. Proteins. 63: 811-21. PMID 16538616 DOI: 10.1002/prot.20944 |
0.317 |
|
| Show low-probability matches. |