Magnesium in PDB 4c2y: Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor

All present enzymatic activity of Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor:
2.3.1.97;

The structure of Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor, PDB code: 4c2y was solved by E.Thinon, R.A.Serwa, J.A.Brannigan, U.Brassat, M.H.Wright, W.P.Heal, A.J.Wilkinson, D.J.Mann, E.W.Tate, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	89.24 / 1.64
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	78.740, 178.480, 58.550, 90.00, 90.00, 90.00
R / Rfree (%)	17.008 / 22.157

The binding sites of Magnesium atom in the Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor (pdb code 4c2y). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor, PDB code: 4c2y:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1498 b:28.1 occ:1.00 O A:LEU254 2.8 22.1 1.0 O2A A:MYA1497 2.9 19.9 1.0 O4A A:MYA1497 2.9 17.3 1.0 N A:LYS257 3.0 21.1 1.0 N A:VAL259 3.2 19.1 1.0 CB A:VAL259 3.4 17.1 1.0 N A:ARG258 3.5 22.4 1.0 CG2 A:VAL259 3.5 18.5 1.0 N A:SER256 3.5 21.6 1.0 CA A:LYS257 3.6 21.2 1.0 C A:LYS257 3.6 21.6 1.0 CB A:LYS257 3.6 22.8 1.0 C A:ARG255 3.8 20.2 1.0 P1A A:MYA1497 3.8 18.5 1.0 C A:LEU254 3.8 21.7 1.0 CA A:ARG255 3.9 20.7 1.0 CA A:VAL259 3.9 15.1 1.0 CG1 A:VAL250 3.9 15.5 1.0 C A:SER256 4.0 23.4 1.0 O1A A:MYA1497 4.0 19.7 1.0 P2A A:MYA1497 4.1 16.7 1.0 C A:ARG258 4.1 22.1 1.0 CA A:ARG258 4.2 23.2 1.0 CA A:SER256 4.2 23.7 1.0 N A:ALA260 4.3 14.2 1.0 N A:ARG255 4.3 20.3 1.0 O A:LYS257 4.3 24.0 1.0 O3A A:MYA1497 4.4 18.1 1.0 O A:ARG255 4.6 22.2 1.0 C A:VAL259 4.6 15.8 1.0 CG A:LYS257 4.7 25.7 1.0 O6A A:MYA1497 4.7 16.7 1.0 CB A:VAL250 4.8 15.2 1.0 CG1 A:VAL259 4.8 17.0 1.0 CG2 A:VAL250 4.8 13.8 1.0 CB A:LEU254 4.9 25.7 1.0

Magnesium binding site 2 out of 2 in the Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Human N-Myristoyltransferase (NMT1) with Myristoyl-Coa Co-Factor within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1498 b:25.9 occ:1.00 O4A B:MYA1497 2.8 18.5 1.0 O2A B:MYA1497 2.8 17.0 1.0 O B:LEU254 2.8 19.9 1.0 N B:LYS257 2.9 21.0 1.0 N B:VAL259 3.1 16.4 1.0 N B:ARG258 3.4 19.0 1.0 N B:SER256 3.4 19.7 1.0 CA B:LYS257 3.6 19.8 1.0 C B:LYS257 3.6 20.2 1.0 CB B:VAL259 3.6 15.4 1.0 P1A B:MYA1497 3.7 16.4 1.0 C B:ARG255 3.8 18.7 1.0 CG2 B:VAL259 3.8 17.4 1.0 CB B:LYS257 3.8 22.9 1.0 CG1 B:VAL250 3.8 13.1 1.0 O1A B:MYA1497 3.9 19.8 1.0 CA B:ARG255 3.9 18.7 1.0 C B:LEU254 3.9 19.8 1.0 CA B:VAL259 3.9 15.6 1.0 C B:SER256 4.0 20.7 1.0 P2A B:MYA1497 4.0 15.5 1.0 C B:ARG258 4.1 18.4 1.0 CA B:SER256 4.1 19.4 1.0 CA B:ARG258 4.1 19.4 1.0 O3A B:MYA1497 4.2 16.2 1.0 N B:ALA260 4.3 12.4 1.0 N B:ARG255 4.4 20.7 1.0 O B:LYS257 4.4 19.0 1.0 O6A B:MYA1497 4.5 15.7 1.0 O B:ARG255 4.5 20.5 1.0 C B:VAL259 4.6 13.0 1.0 CB B:VAL250 4.7 13.7 1.0 CG2 B:VAL250 4.7 14.3 1.0 CG B:LYS257 4.8 28.9 1.0 CG1 B:VAL259 5.0 14.5 1.0

E.Thinon, R.A.Serwa, M.Broncel, J.A.Brannigan, U.Brassat, M.H.Wright, W.P.Heal, A.J.Wilkinson, D.J.Mann, E.W.Tate. Global Profiling of Co- and Post-Translationally N-Myristoylated Proteomes in Human Cells. Nat.Commun. V. 5 4919 2014.
ISSN: ISSN 2041-1723
PubMed: 25255805
DOI: 10.1038/NCOMMS5919