dGMP Binding to Thymidylate Kinase from Plasmodium falciparum Shows Half-Site Binding and Induces Protein Dynamics at the Dimer Interface

Biochemistry ◽  
2020 ◽  
Vol 59 (5) ◽  
pp. 694-703
Author(s):  
Mengshen David Chen ◽  
Ian J. Fucci ◽  
Kaustubh Sinha ◽  
Gordon S. Rule
Biochemistry ◽  
1987 ◽  
Vol 26 (13) ◽  
pp. 3938-3943 ◽  
Author(s):  
Paul M. Anderson ◽  
Warren V. Johnson ◽  
James A. Endrizzi ◽  
Richard M. Little ◽  
Joseph J. Korte
Keyword(s):  

2010 ◽  
Vol 18 (20) ◽  
pp. 7302-7309 ◽  
Author(s):  
Huaqing Cui ◽  
Luis M. Ruiz-Pérez ◽  
Dolores González-Pacanowska ◽  
Ian H. Gilbert

2013 ◽  
Vol 62 (4) ◽  
pp. 368-371 ◽  
Author(s):  
Yoshihiro Noguchi ◽  
Yuri Yasuda ◽  
Makoto Tashiro ◽  
Tadashi Kataoka ◽  
Yoshiaki Kitamura ◽  
...  

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
V. Ambrus ◽  
Gy. Hoffka ◽  
M. Fuxreiter

Abstract The importance of dynamic factors in enzyme evolution is gaining recognition. Here we study how the evolution of a new enzymatic activity exploits conformational tinkering and demonstrate that conversion of a dimeric phosphotriesterase to an arylesterase in Pseudomonas diminuta is accompanied by structural divergence between the two subunits. Deviations in loop conformations increase with promiscuity, leading to functionally distinct states, while they decrease during specialisation for the new function. We show that opposite loop movements in the two subunits are due to a dynamic coupling with the dimer interface, the importance of which is also corroborated by the co-evolution of the loop and interface residues. These results illuminate how protein dynamics promotes conformational heterogeneity in a dimeric enzyme, leading to alternative evolutionary pathways for the emergence of a new function.


Biochemistry ◽  
2018 ◽  
Vol 57 (19) ◽  
pp. 2868-2875 ◽  
Author(s):  
Mengshen “David” Chen ◽  
Kaustubh Sinha ◽  
Gordon S. Rule ◽  
Danith H. Ly

2003 ◽  
Vol 327 (4) ◽  
pp. 819-832 ◽  
Author(s):  
Micah D. Gearhart ◽  
Signe M.A. Holmbeck ◽  
Ronald M. Evans ◽  
H.Jane Dyson ◽  
Peter E. Wright

2012 ◽  
Vol 61 (3) ◽  
pp. 501-503 ◽  
Author(s):  
Aya Kato ◽  
Yuri Yasuda ◽  
Yoshiaki Kitamura ◽  
Mahmoud Kandeel ◽  
Yukio Kitade

2010 ◽  
Vol 428 (3) ◽  
pp. 499-509 ◽  
Author(s):  
Jean L. Whittingham ◽  
Juana Carrero-Lerida ◽  
James A. Brannigan ◽  
Luis M. Ruiz-Perez ◽  
Ana P. G. Silva ◽  
...  

Plasmodium falciparum is the causative agent of malaria, a disease where new drug targets are required due to increasing resistance to current anti-malarials. TMPK (thymidylate kinase) is a good candidate as it is essential for the synthesis of dTTP, a critical precursor of DNA and has been much studied due to its role in prodrug activation and as a drug target. Type I TMPKs, such as the human enzyme, phosphorylate the substrate AZT (3′-azido-3′-deoxythymidine)-MP (monophosphate) inefficiently compared with type II TMPKs (e.g. Escherichia coli TMPK). In the present paper we report that eukaryotic PfTMPK (P. falciparum TMPK) presents sequence features of a type I enzyme yet the kinetic parameters for AZT-MP phosphorylation are similar to those of the highly efficient E. coli enzyme. Structural information shows that this is explained by a different juxtaposition of the P-loop and the azide of AZT-MP. Subsequent formation of the transition state requires no further movement of the PfTMPK P-loop, with no steric conflicts for the azide moiety, allowing efficient phosphate transfer. Likewise, we present results that confirm the ability of the enzyme to uniquely accept dGMP as a substrate and shed light on the basis for its wider substrate specificity. Information resulting from two ternary complexes (dTMP–ADP and AZT-MP–ADP) and a binary complex with the transition state analogue AP5dT [P1-(5′-adenosyl)-P5-(5′-thymidyl) pentaphosphate] all reveal significant differences with the human enzyme, notably in the lid region and in the P-loop which may be exploited in the rational design of Plasmodium-specific TMPK inhibitors with therapeutic potential.


Author(s):  
D.J.P. Ferguson ◽  
A.R. Berendt ◽  
J. Tansey ◽  
K. Marsh ◽  
C.I. Newbold

In human malaria, the most serious clinical manifestation is cerebral malaria (CM) due to infection with Plasmodium falciparum. The pathology of CM is thought to relate to the fact that red blood cells containing mature forms of the parasite (PRBC) cytoadhere or sequester to post capillary venules of various tissues including the brain. This in vivo phenomenon has been studied in vitro by examining the cytoadherence of PRBCs to various cell types and purified proteins. To date, three Ijiost receptor molecules have been identified; CD36, ICAM-1 and thrombospondin. The specific changes in the PRBC membrane which mediate cytoadherence are less well understood, but they include the sub-membranous deposition of electron-dense material resulting in surface deformations called knobs. Knobs were thought to be essential for cytoadherence, lput recent work has shown that certain knob-negative (K-) lines can cytoadhere. In the present study, we have used electron microscopy to re-examine the interactions between K+ PRBCs and both C32 amelanotic melanoma cells and human umbilical vein endothelial cells (HUVEC).We confirm previous data demonstrating that C32 cells possess numerous microvilli which adhere to the PRBC, mainly via the knobs (Fig. 1). In contrast, the HUVEC were relatively smooth and the PRBCs appeared partially flattened onto the cell surface (Fig. 2). Furthermore, many of the PRBCs exhibited an invagination of the limiting membrane in the attachment zone, often containing a cytoplasmic process from the endothelial cell (Fig. 2).


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