scholarly journals Site 2 of the Yersinia pestis substrate-binding protein YfeA is a dynamic surface metal-binding site

Author(s):  
Christopher D. Radka ◽  
Stephen G. Aller

The substrate-binding protein YfeA (also known as YPO2439 or y1897) is a polyspecific metal-binding protein that is crucial for nutrient acquisition and virulence in Yersinia pestis, the causative microbe of plague. YfeA folds into a monomeric c-clamp like other substrate-binding proteins and has two metal-binding sites (sites 1 and 2). Site 2 is a bidentate surface site capable of binding Zn and Mn atoms and is a unique feature of YfeA. Occasionally, the site 2 residues of two YfeA molecules will cooperate with the histidine tag of a third YfeA molecule in coordinating the same metal and lead to metal-dependent crystallographic packing. Here, three crystal structures of YfeA are presented at 1.85, 2.05 and 2.25 Å resolution. A comparison of the structures reveals that the metal can be displaced at five different locations ranging from ∼4 to ∼16 Å away from the canonical site 2. These observations reveal different configurations of site 2 that enable cooperative metal binding and demonstrate how site 2 is dynamic and freely available for inter-protein metal coordination.

1995 ◽  
Vol 270 (51) ◽  
pp. 30353-30358 ◽  
Author(s):  
Timothy D. Veenstra ◽  
Myron D. Gross ◽  
Willi Hunziker ◽  
Rajiv Kumar

FEBS Journal ◽  
2008 ◽  
Vol 275 (20) ◽  
pp. 5048-5061 ◽  
Author(s):  
Shunyi Li ◽  
Wei Yang ◽  
Anna W. Maniccia ◽  
Doyle Barrow Jr ◽  
Harianto Tjong ◽  
...  

MedChemComm ◽  
2016 ◽  
Vol 7 (4) ◽  
pp. 734-734
Author(s):  
Mahesh Aitha ◽  
Sameer Al-Abdul-Wahid ◽  
David L. Tierney ◽  
Michael W. Crowder


MedChemComm ◽  
2016 ◽  
Vol 7 (1) ◽  
pp. 194-201 ◽  
Author(s):  
Mahesh Aitha ◽  
Sameer Al-Adbul-Wahid ◽  
David L. Tierney ◽  
Michael W. Crowder

RFQ-EXAFS studies were used to probe the metal centers in metallo-β-lactamase L1 during catalysis.


2022 ◽  
Vol 8 (2) ◽  
Author(s):  
Yana Bromberg ◽  
Ariel A. Aptekmann ◽  
Yannick Mahlich ◽  
Linda Cook ◽  
Stefan Senn ◽  
...  

Computational exploration of similarities among metal-binding protein structural motifs elucidates the origins of life.


2021 ◽  
Vol 217 ◽  
pp. 111374
Author(s):  
Satoshi Nagao ◽  
Ayaka Idomoto ◽  
Naoki Shibata ◽  
Yoshiki Higuchi ◽  
Shun Hirota

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