Published December 5, 2025 | Version v1
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Molecular dynamics trajectories of HOMER1 EVH1 domain variants (wild type, M65I, S97L)

  • 1. ROR icon Pázmány Péter Catholic University

Description

The data set contains PDB format files corresponding to three independent trajectories of three HOMER1 EVH1 variants, the wild type, M65I and S97L mutants.
The calculations are described in the following paper:

Fanni Farkas, Brigitta Maruzs, Zsófia E. Kálmán, Tomas Klumpler, Gyula Batta, Bálint Péterfia, Zoltán Gáspári:
Modulation of Homer1 EVH1 domain internal dynamics by putative autism-associated mutations
FEBS Lett, accepted for publication

The corresponding preprint is available at:
https://doi.org/10.64898/2025.12.17.694870

The files are PDB format structures corresponding to the molecular dynamics trajectories analyzed in the paper above.
Note that the structures contain a 3-residue expression tag at their N-terminus, thus, residue numbering is shifted accordingly with respect to the corresponding UniProt entry Q9Z2Y3 (mouse Homer1 protein). The structures contain residues 1-118 of the protein, corresponding to the EVH1 domain (residue numbers 4-121 in the files).

The molecular dynamics protocol is described in the paper above. 
Software: GROMACS 2023.2
Force field: AMBER99SB-ILDN
Production run length: 1,000 ns
Number of frames extracted: 501
Runs were performed on the Komondor supercomputer (access provided by the Digital Government Development and Project Management Ltd., Hungary)

Three independent production run trajectories are deposited for each of the wild type, the M65I and the S97L variants (because of the numbering, the mutated residues in the files are ILE68 and LEU100).

Files

Files (686.5 MB)

Name Size Download all
md5:02ddceed3ea50fb1a2fdbc44782febbf
76.2 MB Download
md5:cdfa00578f642b6493bcee2391e643e0
76.2 MB Download
md5:bc256d37d18a9829220988c8bf24d46e
76.2 MB Download
md5:e9b7da16fde9cee5e47cc5b0b1dfaf1c
76.5 MB Download
md5:921e9e927c8bba84bb501a6ba09e0c01
76.5 MB Download
md5:d51700a74ea3e56f342b118e6773c4f6
76.5 MB Download
md5:81e855dac0bec4af229d590cbb4faaa8
76.1 MB Download
md5:56d05c4ddf06623ee93388d28b3614f9
76.1 MB Download
md5:238829a53e02b324a4c4291cbf8027cb
76.1 MB Download

Additional details

Related works

Is described by
Preprint: 10.64898/2025.12.17.694870 (DOI)

Funding

National Research, Development and Innovation Office
137947

Dates

Submitted
2026-05-14