Bonvin AMJJ - Search Results

1

Pre- and post-docking sampling of conformational changes using ClustENM and HADDOCK for protein-protein and protein-DNA systems.

Kurkcuoglu Z, Bonvin AMJJ. Kurkcuoglu Z, et al. Among authors: bonvin amjj. Proteins. 2020 Feb;88(2):292-306. doi: 10.1002/prot.25802. Epub 2019 Sep 3. Proteins. 2020. PMID: 31441121 Free PMC article.

2

"Ensemble" iterative relaxation matrix approach: a new NMR refinement protocol applied to the solution structure of crambin.

Bonvin AM, Rullmann JA, Lamerichs RM, Boelens R, Kaptein R. Bonvin AM, et al. Proteins. 1993 Apr;15(4):385-400. doi: 10.1002/prot.340150406. Proteins. 1993. PMID: 8460109

3

DRESS: a database of REfined solution NMR structures.

Nabuurs SB, Nederveen AJ, Vranken W, Doreleijers JF, Bonvin AM, Vuister GW, Vriend G, Spronk CA. Nabuurs SB, et al. Proteins. 2004 May 15;55(3):483-6. doi: 10.1002/prot.20118. Proteins. 2004. PMID: 15103611

4

Atomic insight into the CD4 binding-induced conformational changes in HIV-1 gp120.

Hsu ST, Bonvin AM. Hsu ST, et al. Proteins. 2004 May 15;55(3):582-93. doi: 10.1002/prot.20061. Proteins. 2004. PMID: 15103622

5

RECOORD: a recalculated coordinate database of 500+ proteins from the PDB using restraints from the BioMagResBank.

Nederveen AJ, Doreleijers JF, Vranken W, Miller Z, Spronk CA, Nabuurs SB, Güntert P, Livny M, Markley JL, Nilges M, Ulrich EL, Kaptein R, Bonvin AM. Nederveen AJ, et al. Proteins. 2005 Jun 1;59(4):662-72. doi: 10.1002/prot.20408. Proteins. 2005. PMID: 15822098

6

Various strategies of using residual dipolar couplings in NMR-driven protein docking: application to Lys48-linked di-ubiquitin and validation against 15N-relaxation data.

van Dijk AD, Fushman D, Bonvin AM. van Dijk AD, et al. Proteins. 2005 Aug 15;60(3):367-81. doi: 10.1002/prot.20476. Proteins. 2005. PMID: 15937902

7

Data-driven docking: HADDOCK's adventures in CAPRI.

van Dijk AD, de Vries SJ, Dominguez C, Chen H, Zhou HX, Bonvin AM. van Dijk AD, et al. Proteins. 2005 Aug 1;60(2):232-8. doi: 10.1002/prot.20563. Proteins. 2005. PMID: 15981252

8

NMR analysis of protein interactions.

Bonvin AM, Boelens R, Kaptein R. Bonvin AM, et al. Curr Opin Chem Biol. 2005 Oct;9(5):501-8. doi: 10.1016/j.cbpa.2005.08.011. Curr Opin Chem Biol. 2005. PMID: 16122968 Review.

9

WHISCY: what information does surface conservation yield? Application to data-driven docking.

de Vries SJ, van Dijk AD, Bonvin AM. de Vries SJ, et al. Proteins. 2006 May 15;63(3):479-89. doi: 10.1002/prot.20842. Proteins. 2006. PMID: 16450362

10

Flexible protein-protein docking.

Bonvin AM. Bonvin AM. Curr Opin Struct Biol. 2006 Apr;16(2):194-200. doi: 10.1016/j.sbi.2006.02.002. Epub 2006 Feb 17. Curr Opin Struct Biol. 2006. PMID: 16488145 Review.

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