4LEC

Human Methyltransferase-Like Protein 21A

• PDB DOI: https://doi.org/10.2210/pdb4LEC/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2013-06-25 Released: 2013-07-17 
• Deposition Author(s): Dong, A., Zeng, H., Fenner, M., Wernimont, A., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Brown, P.J., Wu, H., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 0.256 
• R-Value Work: 0.219 
• R-Value Observed: 0.220 

Starting Model: experimental

Literature

The Crystal Structure of Human Methyltransferase-Like Protein 21A in Complex with SAH

Zeng, H., Dong, A., Wu, H.

To be published.

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 48.54 kDa 
• Atom Count: 3,368 
• Modelled Residue Count: 403 
• Deposited Residue Count: 424 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein-lysine methyltransferase METTL21A	A, B	212	Homo sapiens	Mutation(s): 0  Gene Names: METTL21A, FAM119A, HCA557B EC: 2.1.1
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WXB1 (Homo sapiens) Explore Q8WXB1  Go to UniProtKB:  Q8WXB1
PHAROS:  Q8WXB1 GTEx:  ENSG00000144401

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAH	C [auth A], I [auth B]	S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N
UNX	D [auth A], E [auth A], F [auth A], G [auth A], H [auth A], J [auth B], K [auth B], L [auth B], M [auth B], N [auth B], O [auth B]	UNKNOWN ATOM OR ION X

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.28 Å
• R-Value Free: 0.256 
• R-Value Work: 0.219 
• R-Value Observed: 0.220 
• Space Group: P 3₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 72.166	α = 90
b = 72.166	β = 90
c = 102.954	γ = 120

Software Package:

Software Name	Purpose
BUSTER-TNT	refinement
PDB_EXTRACT	data extraction
JDirector	data collection
HKL-3000	data reduction
HKL-3000	data scaling
MOLREP	phasing
BUSTER	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-07-17 
Deposition Author(s): Dong, A., Zeng, H., Fenner, M., Wernimont, A., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Brown, P.J., Wu, H., Structural Genomics Consortium (SGC)

Revision History  

• Version 1.0: 2013-07-17
  Type: Initial release
  
• Version 1.1: 2017-11-15
  Changes: Refinement description
• Version 1.2: 2023-09-20
  Changes: Data collection, Database references, Derived calculations, Refinement description