Good ViBEs Lab

Good ViBEs Publication Update for 2023!
Congratulations to all authors!

Title: Complementary Pocket and Network-Based Approach to Search for Spike Protein Allosteric Pocket Sites

Author:
Ronny L. Cheng
Jerwin C. Quirante
Louise Erika Z. Vargas
Abigael F. Gatchalian

Adviser:
Ricky B. Nellas

Citation:
Cheng, R. L., Quirante, J. C., Vargas, L. E. Z., Gatchalian, A. F., & Nellas, R. B. (2023). Complementary Pocket and Network-Based Approach to Search for Spike Protein Allosteric Pocket Sites. ACS omega, 8(48), 45313-45325.
DOI: https://doi.org/10.1021/acsomega.3c04007

Good ViBEs Publication Update for 2023!
Congratulations to all authors!

Title: Reparameterization of Non-Bonded Parameters for Copper Ions in Plastocyanin: An Adaptive Force Matching Study

Author:
Jokent T. Gaza

Adviser:
Ricky B. Nellas

Citation:
Gaza, J. T., & Nellas, R. B. (2023). Reparameterization of Non-Bonded Parameters for Copper Ions in Plastocyanin: An Adaptive Force Matching Study. Journal of Chemical Information and Modeling, 63(15), 4654-4663.
DOI: https://doi.org/10.1021/acs.jcim.3c00559

Good ViBEs Publication Update for 2023!
Congratulations to all authors!

Title: The role of glycerol–water mixtures in the stability of FKBP12-rapalog-FRB complexes

Authors:
Joshua Jener D. Lopez
Jokent T. Gaza

Adviser:
Ricky B. Nellas

Citation:
Lopez, J. J. D., Gaza, J. T., & Nellas, R. B. (2023). The role of glycerol-water mixtures in the stability of FKBP12-rapalog-FRB complexes. Journal of Molecular Graphics and Modelling, 108556.
DOI: https://doi.org/10.1016/j.jmgm.2023.108556

Congratulations to Mr. Johnxis Romeo S. Siat on the successful defense of his Bachelor of Science thesis titled "In Silico Design and Synthesis Recommendation for Novel Monoterpene Analogs with Potential Insecticidal Property against Rice Weevil (Sitophilus oryzae)."
The Good ViBEs lab is proud of your achievement! May this success open doors to more accomplishments in your academic and professional pursuits.

Thesis Advisers: Dr. Ricky B. Nellas and Mr. Al Jerome A. Magsino, M.Sc.

Congratulations to Mr. Jerwin C. Quirante for successfully defending his Master's thesis entitled "In silico Design and Synthesis of Potential Nucleoside Inhibitors of SARS-CoV-2 RNA-Dependent RNA Polymerase (RdRp)".
The Good ViBEs lab expresses its pride in your accomplishments! May this triumph pave the way for further successes in both your academic and professional endeavors.
Thesis Advisers: Dr. Ricky B. Nellas and Dr. Monissa C. Paderes

[CLOSED]

We are looking for (1) Science Research Specialist II for the project "Design and Synthesis of SARS-COV2, ACE2, and SARS-COV2:ACE2 Destabilizing Compounds". Pertinent information is listed below.

Qualifications:
1. Degree in Chemistry, Biochemistry, Agricultural Chemistry, or other related courses
2. With background on Organic Synthesis and Bioactivity Testing

Application requirements:
1. Curriculum Vitae
2. Letter of Intent
3. Transcript of Records

For interested applicants, you may address and email the requirements to:

Ricky B. Nellas, Ph.D.
Professor III
Institute of Chemistry
University of the Philippines
Diliman, Quezon City
𝘳𝘣𝘯𝘦𝘭𝘭𝘢𝘴@𝘶𝘱.𝘦𝘥𝘶.𝘱𝘩
Deadline: June 13, 2023

Congratulations to Mr. Jokent T. Gaza for successfully defending his Master's thesis entitled "AMBER Force Field Parameterization of Copper Cofactors".

We also look forward to his future as a doctoral student at the University of Florida. Cheers to your remarkable achievement and the exciting journey ahead! 🎓✨

Thesis Advisers: Dr. Ricky B. Nellas and Dr. Ming-Kang Tsai

Congratulations to Mr. Jaidriel Meg Cabanding for successfully defending his Master's thesis entitled "The Importance of Individual Helical Structure to the Overall Activity and Structural Stability of a Lipase from Pseudomonas aeruginosa PAO1 in Organic Solvent".

The good ViBEs lab is proud of you! May this success serve as a stepping stone to even greater achievements in your academic and professional journey.

Thesis Adviser: Dr. Ricky B. Nellas

Computers powered with electricity; Brains powered with caffeine. Sending in Good ViBEs your way!

From yours truly,
Current and Former members of Good ViBEs (Virtual Biochemical Explorations) Laboratory

The UP Diliman 2023 Study Abroad Fair entitled LAYAG: Lumipad at Mamayagpag sa Ibayong Dagat (Explore and Excel Overseas), organized by the Office of International Linkages Diliman in partnership with the School of Statistics, returns this 21-24 February 2023 at the UP School of Statistics Lobby.

Don't forget to pre-register using the QR code below or you may also access the registration form using this link: https://tinyurl.com/UPD-Layag

Follow our Facebook and event page for more details.

See you at the School of Statistics this 21-24 February 2023!

Good ViBEs Publication Update! First of many more to come this year. Congratulations to all authors!

Title: Specificity of Monoterpene Interactions with Insect Octopamine and Tyramine Receptors: Insights from in Silico Sequence and Structure Comparison

Authors:
Almira B. Ocampo
Joseph Gregory Z. Cabinta
Hyvi Valerie J. Padilla
Eizadora T. Yu
Ricky B. Nellas

Citation:
Ocampo, A. B., Cabinta, J. G. Z., Padilla, H. V. Y., Yu, E. T., & Nellas, R. B. (2023). Specificity of Monoterpene Interactions with Insect Octopamine and Tyramine Receptors: Insights from in Silico Sequence and Structure Comparison. ACS Omega. DOI: https://doi.org/10.1021/acsomega.2c06256