ISDA: 6ZOT

Deposition Date 2020-07-07

Release Date 2020-10-28

Last Version Date 2026-06-24

Entry Detail

PDB ID:

6ZOT

Keywords:

RNA BINDING PROTEIN

Title:

Crystal structure of YTHDF3 YTH domain in complex with m6A RNA

Biological Source:

Source Organism(s):

Homo sapiens (Taxon ID: 9606)

Expression System(s):

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

2.70 Å

R-Value Free:

0.27

R-Value Work:

0.21

R-Value Observed:

0.21

Space Group:

P 4 21 2

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Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:YTH domain-containing family
Gene (Uniprot):YTHDF3
Chain IDs:A (auth: B), B (auth: A)
Chain Length:199
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q7Z739 Pfam ID:PF04146

Polymer Type:polyribonucleotide
Molecule:RNA
Chain IDs:C
Chain Length:5
Number of Molecules:1
Biological Source:Homo sapiens

Primary Citation

Structural and Dynamic Insights into Redundant Function of YTHDF Proteins.

Li, Y, Bedi, R.K, Moroz-Omori, E.V, Caflisch, A.Show

J.Chem.Inf.Model. 60 5932 5935 (2020)

PMID: 33073985 DOI: 10.1021/acs.jcim.0c01029

Abstact

Three YTH-domain family proteins (YTHDF1, YTHDF2, and YTHDF3) recognize the N6-methyladenosine (m6A) modification of mRNA in cells. However, the redundancy of their cellular functions has been disputed. We investigate their interactions with m6A-containing RNA using X-ray crystallography and molecular dynamics (MD). The new X-ray structures and MD simulations show that the three proteins share identical interactions with the m6A-containing RNA and have similar intrinsic plasticity, thus evidencing the redundant roles of the three proteins in cellular functions.

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Primary Citation of related structures

Abstact

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