Three-Dimensional Structure of the Orange-Red Fluorescent Biomarker DiB3-F53L
- Authors: Rossohin A.V1,2, Artemiev I.V1, Arhipova S.F1, Pletnev V.Z1, Pletneva N.V1
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Affiliations:
- Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences
- Research Center of Neurology, Institute of Brain
- Issue: Vol 51, No 6 (2025)
- Pages: 1088-1092
- Section: ЭКСПЕРИМЕНТАЛЬНЫЕ СТАТЬИ
- URL: https://ogarev-online.ru/0132-3423/article/view/356316
- DOI: https://doi.org/10.7868/S1998286025060071
- ID: 356316
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Abstract
The 3D structure of the fluorescent protein DiB3-F53L, an orange-red fluorescent non-covalent complex of a genetically engineered variant of the bacterial protein lipocalin Blc with a synthetic GFP-like chromophore M739, was studied by the molecular dynamics (MD) computational method. The chromophore was shown to interact more strongly with the mutated DiB3-F53L protein than with the native DiB3 protein. Calculations revealed the amino acids surrounding the chromophore at the binding site that contribute most strongly to the chromophore-protein interaction energy. The DiB3-F53L protein complex with the M739 chromophore exhibits increased fluorescence brightness compared to the known parent biomarker DiB3, making it a promising marker for labeling biological objects in cell biology, as well as a starting point for the subsequent design of new, brighter biological markers.
About the authors
A. V Rossohin
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences; Research Center of Neurology, Institute of Brain
Email: altrossokhin@yandex.ru
Moscow, Russia; Moscow, Russia
I. V Artemiev
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of SciencesMoscow, Russia
S. F Arhipova
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of SciencesMoscow, Russia
V. Z Pletnev
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences
Email: vzpletnev@gmail.com
Moscow, Russia
N. V Pletneva
Shemyakin–Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of SciencesMoscow, Russia
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