Credits

Over the years, 3DNA had benefited greatly from interactions with the NDB project led by Professor Helen Berman. Zukang Feng at the PDB/NDB, A. R. Srinivarsan, Andrew Colasanti, Guofei Zheng, Mauricio Esguerra and other members of the Olson laboratory, Surjit Dixit (Wesleyan University), Pascal Auffinger (IBMC/CNRS, France), Ben Eisenbraun (SBGrid Consortium, Harvard Medical School), and numerous users have helped in making 3DNA a better tool to serve the scientific community.

The 3DNA software, its homepage and forum have been created and maintained by Xiang-Jun Lu. Unless specified explicitly otherwise, all posts at x3dna.org are written by Xiang-Jun Lu. The favicon and logo of the homepage and the forum were designed by Jessalyn Lu. The three 3DNA-related services — w3DNA, 3DNALandscapes and BPS — are supported by the Olson laboratory at Rutgers University.

The 3DNA project is supported by the NIH grant R01GM096889.

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Comment

Dear Dr Lu,

We are a research team specializing in the development of web-based tools for the academic community in structural biology (e.g., the ESPript web server since 1999, http://ESPript.ibcp.fr), and we hold an academic license for X3DNA/DSSR.

We would first like to thank you for making your fantastic program, X3DNA/DSSR, available to the scientific community.

We are also writing to inform you that we have integrated X3DNA/DSSR into our new server, called N.ESPript, which we hope will be useful to the RNA/DNA community.
This server displays both sequence and structural information (for which X3DNA/DSSR is used). It is now accessible at https://nespript.ibcp.fr and we are currently finalizing the documentation.
A tutorial already citing the use of X3DNA/DSSR is available here: https://nespript.ibcp.fr/ESPript/NESPript/nesp_tutorial.php

We therefore hope that our use of X3DNA/DSSR complies with its academic license, as is done by other servers such as RNAvista, and we would like to know whether you would be interested in being a co-author of the reference paper describing N.ESPript, which we plan to submit to RNA or Bioinformatics in late 2025 or early 2026.

Sincerely
Patrice

— gouet · 2025-10-15 15:43 · #

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Hi Patrice,

Thank you so much for reaching out. I’m glad to hear that you’ve found X3DNA/DSSR useful for your work. It has been my hope to make the software tool as widely accessible as possible to the scientific community, and I see so problems with your usage of it.

I’ll certainly like to read more about N.ESPript. Let’s communicate offline to see how I can contribute to the project to justify a co-authorship.

—-
Due to a technical issue, I was not notified of your message, thus the delay in my response. Sorry for not being able to reply earlier.

Xiang-Jun

— Xiang-Jun Lu · 2025-11-02 07:16 · #

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Thank you for printing this article from http://home.x3dna.org/. Please do not forget to visit back for more 3DNA-related information. — Xiang-Jun Lu