Dzmitry Padhorny

4.8k total citations · 1 hit paper
20 papers, 2.4k citations indexed

About

Dzmitry Padhorny is a scholar working on Molecular Biology, Materials Chemistry and Computational Theory and Mathematics. According to data from OpenAlex, Dzmitry Padhorny has authored 20 papers receiving a total of 2.4k indexed citations (citations by other indexed papers that have themselves been cited), including 18 papers in Molecular Biology, 9 papers in Materials Chemistry and 8 papers in Computational Theory and Mathematics. Recurrent topics in Dzmitry Padhorny's work include Protein Structure and Dynamics (15 papers), Computational Drug Discovery Methods (8 papers) and Enzyme Structure and Function (8 papers). Dzmitry Padhorny is often cited by papers focused on Protein Structure and Dynamics (15 papers), Computational Drug Discovery Methods (8 papers) and Enzyme Structure and Function (8 papers). Dzmitry Padhorny collaborates with scholars based in United States, Russia and Austria. Dzmitry Padhorny's co-authors include Dima Kozakov, Sándor Vajda, David R. Hall, Kathryn A. Porter, Christine Yueh, Dmitri Beglov, Bing Xia, Sergei Kotelnikov, Sadhna Phanse and Raghuveera Kumar Goel and has published in prestigious journals such as Proceedings of the National Academy of Sciences, Nature Communications and Journal of Molecular Biology.

In The Last Decade

Dzmitry Padhorny

19 papers receiving 2.4k citations

Hit Papers

align trajectories

What are hit papers?

Hit papers significantly outperform the citation benchmark for their cohort. A paper qualifies if it has ≥500 total citations, achieves ≥1.5× the top-1% citation threshold for papers in the same subfield and year (this is the minimum needed to enter the top 1%, not the average within it), or reaches the top citation threshold in at least one of its specific research topics.

The ClusPro web server for protein–protein docking

2017 2.2k citations Dima Kozakov, David R. Hall et al. Nature Protocols profile →

Peers — A (Enhanced Table)

Peers by citation overlap · career bar shows stage (early→late) cites · hero ref

Name	h						Papers	Cites
Dzmitry Padhorny United States	9	1.8k	381	374	349	244	20	2.4k
Christine Yueh United States	8	2.2k 1.2×	472 1.2×	449 1.2×	429 1.2×	285 1.2×	9	2.9k
Kathryn A. Porter United States	9	2.3k 1.3×	479 1.3×	471 1.3×	437 1.3×	292 1.2×	12	3.1k
Mikaël Trellet Netherlands	16	2.2k 1.2×	305 0.8×	331 0.9×	355 1.0×	186 0.8×	20	3.1k
Yumeng Yan China	15	1.9k 1.1×	205 0.5×	266 0.7×	385 1.1×	224 0.9×	35	2.8k
Ezgi Karaca Türkiye	20	2.3k 1.2×	266 0.7×	294 0.8×	302 0.9×	157 0.6×	44	3.0k
Catherine H. Schein United States	34	2.0k 1.1×	376 1.0×	365 1.0×	275 0.8×	150 0.6×	113	3.7k
Julien Maupetit France	12	1.9k 1.0×	295 0.8×	276 0.7×	201 0.6×	182 0.7×	13	2.4k
Anna Vangone Netherlands	19	1.9k 1.0×	353 0.9×	279 0.7×	434 1.2×	158 0.6×	30	2.6k
Tanggis Bohnuud United States	11	1.5k 0.8×	343 0.9×	271 0.7×	232 0.7×	137 0.6×	14	2.0k
Adrien S. J. Melquiond Netherlands	19	2.4k 1.4×	304 0.8×	302 0.8×	312 0.9×	146 0.6×	23	3.2k

Countries citing papers authored by Dzmitry Padhorny

Since Specialization

Citations

This map shows the geographic impact of Dzmitry Padhorny's research. It shows the number of citations coming from papers published by authors working in each country. You can also color the map by specialization and compare the number of citations received by Dzmitry Padhorny with the expected number of citations based on a country's size and research output (numbers larger than one mean the country cites Dzmitry Padhorny more than expected).

Fields of papers citing papers by Dzmitry Padhorny

Since Specialization

Physical SciencesHealth SciencesLife SciencesSocial Sciences

This network shows the impact of papers produced by Dzmitry Padhorny. Nodes represent research fields, and links connect fields that are likely to share authors. Colored nodes show fields that tend to cite the papers produced by Dzmitry Padhorny. The network helps show where Dzmitry Padhorny may publish in the future.

Co-authorship network of co-authors of Dzmitry Padhorny

This figure shows the co-authorship network connecting the top 25 collaborators of Dzmitry Padhorny. A scholar is included among the top collaborators of Dzmitry Padhorny based on the total number of citations received by their joint publications. Widths of edges represent the number of papers authors have co-authored together. Node borders signify the number of papers an author published with Dzmitry Padhorny. Dzmitry Padhorny is excluded from the visualization to improve readability, since they are connected to all nodes in the network.

All Works

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20 of 20 papers shown

Liu, Yan, Dzmitry Padhorny, Rosa Catera, et al.. (2025). Conventional and non-conventional antigen-binding sites promote the development and function of chronic lymphocytic leukemia stereotyped subset #4 clones. Frontiers in Immunology. 16. 1607189–1607189.

Blum, Benjamin C., Weiwei Lin, Jacob Porter, et al.. (2024). Multiomic profiling of chronically activated CD4+ T cells identifies drivers of exhaustion and metabolic reprogramming. PLoS Biology. 22(12). e3002943–e3002943. 4 indexed citations

Zhu, Y., George Jones, Carlos Simmerling, et al.. (2024). MHC-Fine: Fine-tuned AlphaFold for precise MHC-peptide complex prediction. Biophysical Journal. 123(17). 2902–2909. 5 indexed citations

Padhorny, Dzmitry, et al.. (2024). Predicting multiple conformations of ligand binding sites in proteins suggests that AlphaFold2 may remember too much. Proceedings of the National Academy of Sciences. 121(48). e2412719121–e2412719121. 8 indexed citations

Kotelnikov, Sergei, Konstantin I. Popov, Mikhail Ignatov, et al.. (2023). Accurate ligand–protein docking in CASP15 using the ClusPro LigTBM server. Proteins Structure Function and Bioinformatics. 91(12). 1822–1828. 3 indexed citations

Havugimana, Pierre C., Raghuveera Kumar Goel, Sadhna Phanse, et al.. (2022). Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery. Nature Communications. 13(1). 4043–4043. 48 indexed citations

Jones, George, Usman Ghani, Sergei Kotelnikov, et al.. (2022). Elucidation of protein function using computational docking and hotspot analysis by ClusPro and FTMap. Acta Crystallographica Section D Structural Biology. 78(6). 690–697. 29 indexed citations

Egbert, Megan, Usman Ghani, Sergei Kotelnikov, et al.. (2021). Assessing the binding properties of CASP14 targets and models. Proteins Structure Function and Bioinformatics. 89(12). 1922–1939. 8 indexed citations

Kotelnikov, Sergei, Dzmitry Padhorny, Dima Kozakov, et al.. (2021). Side-chain Packing Using SE(3)-Transformer. PubMed. 27. 46–55. 4 indexed citations

10.

Padhorny, Dzmitry, Kathryn A. Porter, Mikhail Ignatov, et al.. (2020). ClusPro in rounds 38 to 45 of CAPRI: Toward combining template‐based methods with free docking. Proteins Structure Function and Bioinformatics. 88(8). 1082–1090. 8 indexed citations

11.

Khramushin, Alisa, Orly Marcu, Nawsad Alam, et al.. (2019). Modeling beta‐sheet peptide‐protein interactions: Rosetta FlexPepDock in CAPRI rounds 38‐45. Proteins Structure Function and Bioinformatics. 88(8). 1037–1049. 12 indexed citations

12.

Porter, Kathryn A., Dzmitry Padhorny, Israel Desta, et al.. (2019). Template‐based modeling by ClusPro in CASP13 and the potential for using co‐evolutionary information in docking. Proteins Structure Function and Bioinformatics. 87(12). 1241–1248. 15 indexed citations

13.

Kotelnikov, Sergei, Andrey Alekseenko, Mikhail Ignatov, et al.. (2019). Sampling and refinement protocols for template-based macrocycle docking: 2018 D3R Grand Challenge 4. Journal of Computer-Aided Molecular Design. 34(2). 179–189. 7 indexed citations

14.

Padhorny, Dzmitry, Kostyantyn Dmytruk, Dima Kozakov, et al.. (2018). Glucose regulation in the methylotrophic yeast Hansenula (Ogataea) polymorpha is mediated by a putative transceptor Gcr1. The International Journal of Biochemistry & Cell Biology. 103. 25–34. 2 indexed citations

15.

Ignatov, Mikhail, Andrey Alekseenko, Dzmitry Padhorny, et al.. (2018). Monte Carlo on the manifold and MD refinement for binding pose prediction of protein–ligand complexes: 2017 D3R Grand Challenge. Journal of Computer-Aided Molecular Design. 33(1). 119–127. 10 indexed citations

16.

Padhorny, Dzmitry, David R. Hall, Artem B. Mamonov, et al.. (2017). Protein–ligand docking using FFT based sampling: D3R case study. Journal of Computer-Aided Molecular Design. 32(1). 225–230. 11 indexed citations

17.

Kozakov, Dima, David R. Hall, Bing Xia, et al.. (2017). The ClusPro web server for protein–protein docking. Nature Protocols. 12(2). 255–278. 2162 indexed citations breakdown →

18.

Padhorny, Dzmitry, Andrey Kazennov, Brandon S. Zerbe, et al.. (2016). Protein–protein docking by fast generalized Fourier transforms on 5D rotational manifolds. Proceedings of the National Academy of Sciences. 113(30). E4286–93. 44 indexed citations

19.

Yueh, Christine, David R. Hall, Bing Xia, et al.. (2016). ClusPro-DC: Dimer Classification by the Cluspro Server for Protein–Protein Docking. Journal of Molecular Biology. 429(3). 372–381. 34 indexed citations

20.

Kazennov, Andrey, Andrey Alekseenko, Dima Kozakov, Dzmitry Padhorny, & Yaroslav Kholodov. (2015). Efficient search for the possible mutual arrangements of two rigid bodies with the use of the generalized five-dimensional Fourier transform. Mathematical Models and Computer Simulations. 7(4). 315–322. 1 indexed citations

Rankless uses publication and citation data sourced from OpenAlex, an open and comprehensive bibliographic database. While OpenAlex provides broad and valuable coverage of the global research landscape, it—like all bibliographic datasets—has inherent limitations. These include incomplete records, variations in author disambiguation, differences in journal indexing, and delays in data updates. As a result, some metrics and network relationships displayed in Rankless may not fully capture the entirety of a scholar's output or impact.

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