Kihara Laboratory
@kiharalab.bsky.social
Bioinformatics, protein modeling, cryoEM, drug screening, function prediction. Daisuke Kihara, professor of Biol/CS, Purdue U. https://kiharalab.org/ YouTube: http://alturl.com/gxvah
October release of DAQ Score DB of cryo-EM str validation! Now includes 255,199 protein chains from 17,283 EMDB maps. Fig is an example with an entire helix having a residue shift.
daqdb.kiharalab.org
Easy to use DAQ for structure validation in your paper: em.kiharalab.org
daqdb.kiharalab.org
Easy to use DAQ for structure validation in your paper: em.kiharalab.org
October 26, 2025 at 7:23 PM
October release of DAQ Score DB of cryo-EM str validation! Now includes 255,199 protein chains from 17,283 EMDB maps. Fig is an example with an entire helix having a residue shift.
daqdb.kiharalab.org
Easy to use DAQ for structure validation in your paper: em.kiharalab.org
daqdb.kiharalab.org
Easy to use DAQ for structure validation in your paper: em.kiharalab.org
New paper released! "Distance-AF improves predicted protein structure models by AlphaFold2 with user-specified distance constraints" Yuanyuan Zhang, Zicong Zhang, Y Kagaya, G Terashi, B Zhao, Y Xiong & D Kihara, Communications Biology.
www.nature.com/articles/s42...
www.nature.com/articles/s42...
October 2, 2025 at 11:52 PM
New paper released! "Distance-AF improves predicted protein structure models by AlphaFold2 with user-specified distance constraints" Yuanyuan Zhang, Zicong Zhang, Y Kagaya, G Terashi, B Zhao, Y Xiong & D Kihara, Communications Biology.
www.nature.com/articles/s42...
www.nature.com/articles/s42...
New paper from our lab! Introducing EQAFold: "AlphaFold model quality self‐assessment improvement via deep graph learning" Jacob Verburgt, Zicong Zhang & D. Kihara, Protein Science. onlinelibrary.wiley.com/doi/10.1002/...
August 22, 2025 at 6:09 PM
New paper from our lab! Introducing EQAFold: "AlphaFold model quality self‐assessment improvement via deep graph learning" Jacob Verburgt, Zicong Zhang & D. Kihara, Protein Science. onlinelibrary.wiley.com/doi/10.1002/...
PNCC Cryo-EM modeling and validation workshop on Sep 3-5, 2025. Register now! tinyurl.com/Cryo-EMModel...
August 20, 2025 at 11:36 PM
PNCC Cryo-EM modeling and validation workshop on Sep 3-5, 2025. Register now! tinyurl.com/Cryo-EMModel...
Joon Hong Park received the RCSB poster Prize Award for his presentation at Meeting of the American Crystallographic Association. "EMSuite server: Advanced tools for cryo-EM str modeling, validation and refinement". Congratulations!!
The server: em.kiharalab.org
The server: em.kiharalab.org
August 20, 2025 at 11:14 PM
Joon Hong Park received the RCSB poster Prize Award for his presentation at Meeting of the American Crystallographic Association. "EMSuite server: Advanced tools for cryo-EM str modeling, validation and refinement". Congratulations!!
The server: em.kiharalab.org
The server: em.kiharalab.org
Summer update of DAQ-Score DB, cryo-EM model quality assessment! Now includes assessment for 251,375 PDB chains from 16,852 EM maps. CCC+Overlap value is now displayed at each entry. daqdb.kiharalab.org
August 19, 2025 at 10:14 PM
Summer update of DAQ-Score DB, cryo-EM model quality assessment! Now includes assessment for 251,375 PDB chains from 16,852 EM maps. CCC+Overlap value is now displayed at each entry. daqdb.kiharalab.org
Joon Hong Park presenting his poster at American Crystallographic Association (ACA) 2025 meeting. It is about our cryo-EM structure modeling server.
Visit the server for easy and accurate modeling at em.kiharalab.org
Visit the server for easy and accurate modeling at em.kiharalab.org
July 23, 2025 at 1:00 AM
Joon Hong Park presenting his poster at American Crystallographic Association (ACA) 2025 meeting. It is about our cryo-EM structure modeling server.
Visit the server for easy and accurate modeling at em.kiharalab.org
Visit the server for easy and accurate modeling at em.kiharalab.org
Distpepfold, our new peptide docking method is available as a source code and Google Colab notebook!
Paper: pubs.acs.org/doi/10.1021/...
Github: github.com/kiharalab/Di...
Google Colab: colab.research.google.com/drive/1Q1ecU...
Paper: pubs.acs.org/doi/10.1021/...
Github: github.com/kiharalab/Di...
Google Colab: colab.research.google.com/drive/1Q1ecU...
June 21, 2025 at 4:59 PM
Distpepfold, our new peptide docking method is available as a source code and Google Colab notebook!
Paper: pubs.acs.org/doi/10.1021/...
Github: github.com/kiharalab/Di...
Google Colab: colab.research.google.com/drive/1Q1ecU...
Paper: pubs.acs.org/doi/10.1021/...
Github: github.com/kiharalab/Di...
Google Colab: colab.research.google.com/drive/1Q1ecU...
May update of DAQ-Score DB! Now includes validation reports for 242,447 protein structures from 16190 EMDB maps.
Each entry shows modeling errors in red on the structure plus chain-wise plots.
Check it out: daqdb.kiharalab.org
You can compute DAQ at: em.kiharalab.org
Each entry shows modeling errors in red on the structure plus chain-wise plots.
Check it out: daqdb.kiharalab.org
You can compute DAQ at: em.kiharalab.org
May 30, 2025 at 12:17 AM
May update of DAQ-Score DB! Now includes validation reports for 242,447 protein structures from 16190 EMDB maps.
Each entry shows modeling errors in red on the structure plus chain-wise plots.
Check it out: daqdb.kiharalab.org
You can compute DAQ at: em.kiharalab.org
Each entry shows modeling errors in red on the structure plus chain-wise plots.
Check it out: daqdb.kiharalab.org
You can compute DAQ at: em.kiharalab.org
New paper by many people in our lab led by Charles Christoffer and Yuki Kagaya. This is an invited paper for the CAPRI protein docking special issue on Proteins: "Integrative Protein Assembly With LZerD and Deep Learning in CAPRI 47–55"
onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com/doi/10.1002/...
March 20, 2025 at 6:17 PM
New paper by many people in our lab led by Charles Christoffer and Yuki Kagaya. This is an invited paper for the CAPRI protein docking special issue on Proteins: "Integrative Protein Assembly With LZerD and Deep Learning in CAPRI 47–55"
onlinelibrary.wiley.com/doi/10.1002/...
onlinelibrary.wiley.com/doi/10.1002/...