4NPM

Crystal structure of Zebrafish ALKBH5 in complex with succinic acid

Summary for 4NPM

• Entry DOI: 10.2210/pdb4npm/pdb
• Related: 4NPL
• Descriptor: RNA demethylase ALKBH5, MANGANESE (II) ION, SUCCINIC ACID, ... (4 entities in total)
• Functional Keywords: oxidoreductase
• Biological source: Danio rerio (leopard danio,zebra danio,zebra fish)
• Cellular location: Nucleus speckle (By similarity): Q08BA6
• Total number of polymer chains: 2
• Total formula weight: 57056.90

Authors

He, C.,Chen, W.,Zhang, L. (deposition date: 2013-11-21, release date: 2014-02-19, Last modification date: 2024-02-28)

Primary citation

Chen, W.,Zhang, L.,Zheng, G.,Fu, Y.,Ji, Q.,Liu, F.,Chen, H.,He, C.
Crystal structure of the RNA demethylase ALKBH5 from zebrafish.
Febs Lett., 588:892-898, 2014

PubMed Abstract: ALKBH5, a member of AlkB family proteins, has been reported as a mammalian N(6)-methyladenosine (m(6)A) RNA demethylase. Here we report the crystal structure of zebrafish ALKBH5 (fALKBH5) with the resolution of 1.65Å. Structural superimposition shows that fALKBH5 is comprised of a conserved jelly-roll motif. However, it possesses a loop that interferes potential binding of a duplex nucleic acid substrate, suggesting an important role in substrate selection. In addition, several active site residues are different between the two known m(6)A RNA demethylases, ALKBH5 and FTO, which may result in their slightly different pathways of m(6)A demethylation.

PubMed: 24561204
DOI: 10.1016/j.febslet.2014.02.021

Experimental method

X-RAY DIFFRACTION (1.803 Å)