7CV6

RNA methyltransferase METTL4

• PDB DOI: https://doi.org/10.2210/pdb7CV6/pdb

• Classification: NUCLEAR PROTEIN
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2020-08-25 Released: 2021-09-01 
• Deposition Author(s): Luo, Q., Ma, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.300 
• R-Value Work: 0.240 
• R-Value Observed: 0.243 

Starting Model: experimental

Literature

Structural insights into molecular mechanism for N6-adenosine methylation by MT-A70 family methyltransferase METTL4

Luo, Q., Mo, J., Chen, H., Hu, Z., Wang, B., Wu, J., Liang, Z., Xie, W., Du, K., Peng, M., Li, Y., Li, T., Zhang, Y., Shi, X., Shen, W.H., Shi, Y., Dong, A., Wang, H., Ma, J.

(2022) Nat Commun 13: 5636

• DOI: https://doi.org/10.1038/s41467-022-33277-x

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 49.06 kDa 
• Atom Count: 2,970 
• Modelled Residue Count: 347 
• Deposited Residue Count: 414 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methyltransferase-like protein 2	A [auth B]	414	Arabidopsis thaliana	Mutation(s): 0  Gene Names: At1g19340, F18O14.6 EC: 2.1.1
UniProt
Find proteins for Q8LFA9 (Arabidopsis thaliana) Explore Q8LFA9  Go to UniProtKB:  Q8LFA9

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAH (Subject of Investigation/LOI)	B	S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N
A2M (Subject of Investigation/LOI)	C [auth B], D [auth B]	2'-O-methyladenosine 5'-(dihydrogen phosphate) C11 H16 N5 O7 P TVGFEBXIZUYVFR-IOSLPCCCSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.01 Å
• R-Value Free: 0.300 
• R-Value Work: 0.240 
• R-Value Observed: 0.243 
• Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.821	α = 90
b = 130.022	β = 90
c = 141.322	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data scaling
PDB_EXTRACT	data extraction
HKL-3000	data reduction
REFMAC	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2021-09-01 
Deposition Author(s): Luo, Q., Ma, J.

Revision History  

• Version 1.0: 2021-09-01
  Type: Initial release
  
• Version 1.1: 2022-10-12
  Changes: Database references
• Version 1.2: 2023-11-29
  Changes: Data collection, Refinement description