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Structure paper

TitleStructures of cell wall arabinosyltransferases with the anti-tuberculosis drug ethambutol.
Journal, issue, pagesScience, Vol. 368, Issue 6496, Page 1211-1219, Year 2020
Publish dateJun 12, 2020
AuthorsLu Zhang / Yao Zhao / Yan Gao / Lijie Wu / Ruogu Gao / Qi Zhang / Yinan Wang / Chengyao Wu / Fangyu Wu / Sudagar S Gurcha / Natacha Veerapen / Sarah M Batt / Wei Zhao / Ling Qin / Xiuna Yang / Manfu Wang / Yan Zhu / Bing Zhang / Lijun Bi / Xian'en Zhang / Haitao Yang / Luke W Guddat / Wenqing Xu / Quan Wang / Jun Li / Gurdyal S Besra / Zihe Rao /
PubMed AbstractThe arabinosyltransferases EmbA, EmbB, and EmbC are involved in cell wall synthesis and are recognized as targets for the anti-tuberculosis drug ethambutol. In this study, we determined cryo- ...The arabinosyltransferases EmbA, EmbB, and EmbC are involved in cell wall synthesis and are recognized as targets for the anti-tuberculosis drug ethambutol. In this study, we determined cryo-electron microscopy and x-ray crystal structures of mycobacterial EmbA-EmbB and EmbC-EmbC complexes in the presence of their glycosyl donor and acceptor substrates and with ethambutol. These structures show how the donor and acceptor substrates bind in the active site and how ethambutol inhibits arabinosyltransferases by binding to the same site as both substrates in EmbB and EmbC. Most drug-resistant mutations are located near the ethambutol binding site. Collectively, our work provides a structural basis for understanding the biochemical function and inhibition of arabinosyltransferases and the development of new anti-tuberculosis agents.
External linksScience / PubMed:32327601
MethodsEM (single particle) / X-ray diffraction
Resolution2.81 - 3.3 Å
Structure data

30216

7bvc

EMDB-30216, PDB-7bvc:
Cryo-EM structure of Mycobacterium smegmatis arabinosyltransferase EmbA-EmbB-AcpM2 in complex with ethambutol
Method: EM (single particle) / Resolution: 2.9 Å

30217

7bve

EMDB-30217, PDB-7bve:
Cryo-EM structure of Mycobacterium smegmatis arabinosyltransferase EmbC2-AcpM2 in complex with ethambutol
Method: EM (single particle) / Resolution: 2.81 Å

30218

7bvf

EMDB-30218, PDB-7bvf:
Cryo-EM structure of Mycobacterium tuberculosis arabinosyltransferase EmbA-EmbB-AcpM2 in complex with ethambutol
Method: EM (single particle) / Resolution: 2.97 Å

30219

7bvg

EMDB-30219, PDB-7bvg:
Cryo-EM structure of Mycobacterium smegmatis arabinosyltransferase EmbA-EmbB-AcpM2 in complex with di-arabinose.
Method: EM (single particle) / Resolution: 3.1 Å

PDB-7bvh:
Crystal structure of arabinosyltransferase EmbC2-AcpM2 complex from Mycobacterium smegmatis complexed with di-arabinose
Method: X-RAY DIFFRACTION / Resolution: 3.3 Å

Chemicals

ChemComp-CDL:
CARDIOLIPIN / phospholipid*YM

ChemComp-F8L:
[(2Z,6E,10E,14Z,18E,22Z,26Z)-3,7,11,15,19,23,27,31,35,39-decamethyltetraconta-2,6,10,14,18,22,26,30,34,38-decaenyl] [(2S,3S,4S,5R)-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl] hydrogen phosphate

ChemComp-CA:
Unknown entry

ChemComp-PNS:
4'-PHOSPHOPANTETHEINE

ChemComp-PO4:
PHOSPHATE ION

ChemComp-95E:
Ethambutol / medication*YM

ChemComp-PN7:
N~3~-[(2S)-2-hydroxy-3,3-dimethyl-4-(phosphonooxy)butanoyl]-N-(2-sulfanylethyl)-beta-alaninamide

ChemComp-DSL:
MONO-TRANS, OCTA-CIS DECAPRENYL-PHOSPHATE

ChemComp-BXY:
alpha-D-arabinofuranose

Source
  • mycolicibacterium smegmatis mc2 155 (bacteria)
  • mycolicibacterium smegmatis (strain atcc 700084 / mc(2)155) (bacteria)
  • mycobacterium tuberculosis h37rv (bacteria)
KeywordsTRANSFERASE / Mycobacterium smegmatis / cell wall synthesis / drug target / ethambutol / arabinosyltransferase / EmbA / EmbB / EmbC / acyl carrier protein / arabinogalactan / lipoarabinomannan / drug resistance / Mycobacterium tuberculosis

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