8Q3T

HsNMT1 in complex with both MyrCoA and GNCFSKPRVPTK inhibitor peptide

• PDB DOI: https://doi.org/10.2210/pdb8Q3T/pdb

• Classification: TRANSFERASE
• Organism(s): Homo sapiens, synthetic construct
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-08-04 Released: 2024-08-14 
• Deposition Author(s): Dian, C., Giglione, C., Meinnel, T.
• Funding Organization(s): Agence Nationale de la Recherche (ANR), Fondation ARC, French Infrastructure for Integrated Structural Biology (FRISBI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 0.196 
• R-Value Work: 0.151 
• R-Value Observed: 0.153 

Starting Model: experimental

Literature

HsNMT1 in complex with both MyrCoA and GNCFSKPR inhibitor peptide

Dian, C., Giglione, C., Meinnel, T., Riviere, F., Dutheil, F.R., Monassa, P.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 97.37 kDa 
• Atom Count: 7,658 
• Modelled Residue Count: 806 
• Deposited Residue Count: 822 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Glycylpeptide N-tetradecanoyltransferase 1	A, B	401	Homo sapiens	Mutation(s): 0  Gene Names: NMT1
UniProt & NIH Common Fund Data Resources
Find proteins for P30419 (Homo sapiens) Go to UniProtKB:  P30419
PHAROS:  P30419 GTEx:  ENSG00000136448

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
MYR-GLY-ASN-CYS-PHE-SER-LYS-PRO-ARG-VAL-PRO	C, D	10	synthetic construct	Mutation(s): 0

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
COA	E [auth A], J [auth B]	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N
MYR (Subject of Investigation/LOI)	L [auth C], M [auth D]	MYRISTIC ACID C14 H28 O2 TUNFSRHWOTWDNC-UHFFFAOYSA-N
GOL	F [auth A], G [auth A], K [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL	H [auth A], I [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.96 Å
• R-Value Free: 0.196 
• R-Value Work: 0.151 
• R-Value Observed: 0.153 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.61	α = 90
b = 178.58	β = 90
c = 58.13	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-08-14 
Deposition Author(s): Dian, C., Giglione, C., Meinnel, T.

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Funding Organization	Location	Grant Number
Agence Nationale de la Recherche (ANR)	France	ANR-20-CE44-0013
Agence Nationale de la Recherche (ANR)	France	ANR-2010-BLAN-1611-01
Fondation ARC	France	ARCPJA32020060002137
French Infrastructure for Integrated Structural Biology (FRISBI)	France	ANR-10-INSB-05-01

Revision History  

• Version 1.0: 2024-08-14
  Type: Initial release
  
• Version 1.1: 2024-10-23
  Changes: Structure summary