Consistent blind protein structure generation from NMR chemical shift data

…, Y Wu, KK Singarapu, A Lemak… - Proceedings of the …, 2008 - National Acad Sciences
Protein NMR chemical shifts are highly sensitive to local structure. A robust protocol is
described that exploits this relation for de novo protein structure generation, using as input …

Global analysis of protein folding using massively parallel design, synthesis, and testing

…, I Goreshnik, A Ford, S Houliston, A Lemak… - Science, 2017 - science.org
Proteins fold into unique native structures stabilized by thousands of weak interactions that
collectively overcome the entropic cost of folding. Although these forces are “encoded” in the …

[HTML][HTML] Recognition and specificity determinants of the human cbx chromodomains

L Kaustov, H Ouyang, M Amaya, A Lemak… - Journal of Biological …, 2011 - ASBMB
The eight mammalian Cbx proteins are chromodomain-containing proteins involved in
regulation of heterochromatin, gene expression, and developmental programs. They are …

[HTML][HTML] Recognition of multivalent histone states associated with heterochromatin by UHRF1 protein

N Nady, A Lemak, JR Walker, GV Avvakumov… - Journal of Biological …, 2011 - ASBMB
Histone modifications and DNA methylation represent two layers of heritable epigenetic
information that regulate eukaryotic chromatin structure and gene activity. UHRF1 is a unique …

On the Berendsen thermostat

AS Lemak, NK Balabaev - Molecular Simulation, 1994 - Taylor & Francis
The behaviour of the total momentum of a system immersed in the Berendsen thermostat is
analyzed. It has been found that under certain conditions the kinetic energy of the system can …

[HTML][HTML] Accessibility of different histone H3-binding domains of UHRF1 is allosterically regulated by phosphatidylinositol 5-phosphate

…, S Winter, K Hiragami-Hamada, J Sindlinger, A Lemak… - Molecular cell, 2014 - cell.com
UHRF1 is a multidomain protein crucially linking histone H3 modification states and DNA
methylation. While the interaction properties of its specific domains are well characterized, little …

Simultaneous prediction of protein folding and docking at high resolution

…, I André, Y Shen, Y Wu, A Lemak… - Proceedings of the …, 2009 - National Acad Sciences
Interleaved dimers and higher order symmetric oligomers are ubiquitous in biology but
present a challenge to de novo structure prediction methodology: The structure adopted by a …

[HTML][HTML] NleG Type 3 Effectors from Enterohaemorrhagic Escherichia coli Are U-Box E3 Ubiquitin Ligases

…, R DiLeo, A Semesi, C Fares, A Lemak… - PLoS …, 2010 - journals.plos.org
NleG homologues constitute the largest family of type 3 effectors delivered by pathogenic E.
coli, with fourteen members in the enterohaemorrhagic (EHEC) O157:H7 strain alone. …

Transient structure and dynamics in the disordered c-Myc transactivation domain affect Bin1 binding

C Andresen, S Helander, A Lemak, C Farès… - Nucleic acids …, 2012 - academic.oup.com
The crucial role of Myc as an oncoprotein and as a key regulator of cell growth makes it
essential to understand the molecular basis of Myc function. The N-terminal region of c-Myc …

Molecular basis of Pirh2-mediated p53 ubiquitylation

Y Sheng, RC Laister, A Lemak, B Wu, E Tai… - Nature structural & …, 2008 - nature.com
Pirh2 (p53-induced RING-H2 domain protein; also known as Rchy1) is an E3 ubiquitin ligase
involved in a negative-feedback loop with p53. Using NMR spectroscopy, we show that …