5YZ9

zinc finger domain of METTL3-METTL14 N6-methyladenosine methyltransferase


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 960 
  • Conformers Submitted: 25 
  • Selection Criteria: structures with the lowest energy 

  • Method: SOLUTION SCATTERING

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Solution structure of the RNA recognition domain of METTL3-METTL14 N6-methyladenosine methyltransferase.

Huang, J.Dong, X.Gong, Z.Qin, L.Y.Yang, S.Zhu, Y.L.Wang, X.Zhang, D.Zou, T.Yin, P.Tang, C.

(2019) Protein Cell 10: 272-284

  • DOI: 10.1007/s13238-018-0518-7
  • Primary Citation of Related Structures:  
    5YZ9

  • PubMed Abstract: 
  • N 6 -methyladenosine (m 6 A), a ubiquitous RNA modification, is installed by METTL3-METTL14 complex. The structure of the heterodimeric complex between the methyltransferase domains (MTDs) of METTL3 and METTL14 has been previously determined ...

    N 6 -methyladenosine (m 6 A), a ubiquitous RNA modification, is installed by METTL3-METTL14 complex. The structure of the heterodimeric complex between the methyltransferase domains (MTDs) of METTL3 and METTL14 has been previously determined. However, the MTDs alone possess no enzymatic activity. Here we present the solution structure for the zinc finger domain (ZFD) of METTL3, the inclusion of which fulfills the methyltransferase activity of METTL3-METTL14. We show that the ZFD specifically binds to an RNA containing 5'-GGACU-3' consensus sequence, but does not to one without. The ZFD thus serves as the target recognition domain, a structural feature previously shown for DNA methyltransferases, and cooperates with the MTDs of METTL3-METTL14 for catalysis. However, the interaction between the ZFD and the specific RNA is extremely weak, with the binding affinity at several hundred micromolar under physiological conditions. The ZFD contains two CCCH-type zinc fingers connected by an anti-parallel β-sheet. Mutational analysis and NMR titrations have mapped the functional interface to a contiguous surface. As a division of labor, the RNA-binding interface comprises basic residues from zinc finger 1 and hydrophobic residues from β-sheet and zinc finger 2. Further we show that the linker between the ZFD and MTD of METTL3 is flexible but partially folded, which may permit the cooperation between the two domains during catalysis. Together, the structural characterization of METTL3 ZFD paves the way to elucidate the atomic details of the entire process of RNA m 6 A modification.


    Organizational Affiliation

    CAS Key Laboratory of Magnetic Resonance in Biological Systems, State Key Laboratory of Magnetic Resonance and Atomic Molecular Physics, and National Center for Magnetic Resonance at Wuhan, Wuhan Institute of Physics and Mathematics of the Chinese Academy of Sciences, Wuhan, 430071, China. tanglab@wipm.ac.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
N6-adenosine-methyltransferase catalytic subunit A102Homo sapiensMutation(s): 1 
Gene Names: METTL3MTA70
EC: 2.1.1.62 (PDB Primary Data), 2.1.1.348 (UniProt)
Find proteins for Q86U44 (Homo sapiens)
Explore Q86U44 
Go to UniProtKB:  Q86U44
NIH Common Fund Data Resources
PHAROS:  Q86U44
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download Ideal Coordinates CCD File 
A
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 960 
  • Conformers Submitted: 25 
  • Selection Criteria: structures with the lowest energy 
  • OLDERADO: 5YZ9 Olderado
  • Method: SOLUTION SCATTERING

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Key R&D Program of ChinaChina2016YFA0501200
National Natural Science Foundation of ChinaChina2015CB910900
National Natural Science Foundation of ChinaChina31770799
National Natural Science Foundation of ChinaChina81573400
National Natural Science Foundation of ChinaChina31400644
National Natural Science Foundation of ChinaChina31400735

Revision History  (Full details and data files)

  • Version 1.0: 2018-03-28
    Type: Initial release
  • Version 1.1: 2019-03-27
    Changes: Data collection, Database references