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 …
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 …
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 …
regulation of heterochromatin, gene expression, and developmental programs. They are …
[HTML][HTML] Recognition of multivalent histone states associated with heterochromatin by UHRF1 protein
Histone modifications and DNA methylation represent two layers of heritable epigenetic
information that regulate eukaryotic chromatin structure and gene activity. UHRF1 is a unique …
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 …
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 …
methylation. While the interaction properties of its specific domains are well characterized, little …
Simultaneous prediction of protein folding and docking at high resolution
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 …
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. …
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 …
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 …
involved in a negative-feedback loop with p53. Using NMR spectroscopy, we show that …