Magnesium in PDB 6wp6: Pyruvate Kinase M2 Mutant-S37E K433E

Enzymatic activity of Pyruvate Kinase M2 Mutant-S37E K433E

All present enzymatic activity of Pyruvate Kinase M2 Mutant-S37E K433E:
2.7.1.40;

Protein crystallography data

The structure of Pyruvate Kinase M2 Mutant-S37E K433E, PDB code: 6wp6 was solved by S.Nandi, M.Razzaghi, D.Srivastava, M.Dey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 61.27 / 2.45
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 113.065, 92.924, 109.391, 90.00, 94.27, 90.00
R / Rfree (%) 21.5 / 25.4

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Pyruvate Kinase M2 Mutant-S37E K433E (pdb code 6wp6). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Pyruvate Kinase M2 Mutant-S37E K433E, PDB code: 6wp6:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6wp6

Go back to Magnesium Binding Sites List in 6wp6
Magnesium binding site 1 out of 2 in the Pyruvate Kinase M2 Mutant-S37E K433E


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pyruvate Kinase M2 Mutant-S37E K433E within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg602

b:42.1
occ:1.00
OD1 C:ASP296 2.0 42.7 1.0
OE1 C:GLU272 2.1 42.2 1.0
O1 C:OXL603 2.1 43.6 1.0
O C:HOH705 2.2 43.4 1.0
O C:HOH727 2.6 46.2 1.0
O2 C:OXL603 2.7 42.2 1.0
CD C:GLU272 3.0 43.8 1.0
C1 C:OXL603 3.0 43.7 1.0
CG C:ASP296 3.2 42.2 1.0
OE2 C:GLU272 3.3 45.4 1.0
C2 C:OXL603 3.3 44.1 1.0
CB C:ASP296 3.8 44.8 1.0
CZ C:PHE244 4.0 50.7 1.0
CE2 C:PHE244 4.1 51.1 1.0
NZ C:LYS270 4.1 35.2 1.0
OD2 C:ASP296 4.2 41.0 1.0
O3 C:OXL603 4.2 39.7 1.0
CG C:GLU272 4.3 43.1 1.0
O4 C:OXL603 4.5 42.5 1.0
CE1 C:PHE244 4.7 46.2 1.0
CB C:GLU272 4.7 44.3 1.0
N C:ASP296 4.7 35.6 1.0
CE C:LYS270 4.7 41.4 1.0
O C:HOH731 4.8 42.1 1.0
CD2 C:PHE244 4.8 48.7 1.0
CA C:ASP296 4.9 39.0 1.0
CB C:ALA293 4.9 37.3 1.0
OG C:SER243 4.9 45.3 1.0

Magnesium binding site 2 out of 2 in 6wp6

Go back to Magnesium Binding Sites List in 6wp6
Magnesium binding site 2 out of 2 in the Pyruvate Kinase M2 Mutant-S37E K433E


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pyruvate Kinase M2 Mutant-S37E K433E within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg601

b:32.6
occ:1.00
OD1 A:ASP113 2.6 35.3 1.0
OD1 A:ASN75 2.6 39.4 1.0
OG A:SER77 2.7 41.0 1.0
O A:THR114 2.8 36.5 1.0
OG A:SER243 3.6 32.3 1.0
CG A:ASN75 3.6 35.5 1.0
CG A:ASP113 3.7 31.2 1.0
C A:THR114 3.8 36.5 1.0
CB A:SER77 3.9 41.6 1.0
ND2 A:ASN75 4.0 41.6 1.0
NZ A:LYS270 4.1 28.1 1.0
NH2 A:ARG73 4.2 28.6 1.0
OE1 A:GLU118 4.3 56.2 1.0
CA A:LYS115 4.3 39.5 1.0
O A:ASP113 4.4 39.6 1.0
N A:SER77 4.4 39.0 1.0
N A:LYS115 4.4 40.0 1.0
O A:LYS115 4.5 43.7 1.0
OD2 A:ASP113 4.5 36.2 1.0
C A:ASP113 4.5 35.4 1.0
CB A:ASP113 4.6 31.5 1.0
N A:THR114 4.7 34.0 1.0
CA A:SER77 4.7 40.4 1.0
C A:LYS115 4.8 38.6 1.0
CB A:SER243 4.8 35.9 1.0
CA A:THR114 4.9 33.9 1.0
CB A:ASN75 4.9 30.3 1.0
N A:PHE76 5.0 38.5 1.0

Reference:

S.Nandi, M.Razzaghi, D.Srivastava, M.Dey. Structural Basis For Allosteric Regulation of Pyruvate Kinase M2 By Phosphorylation and Acetylation. J.Biol.Chem. 2020.
ISSN: ESSN 1083-351X
PubMed: 32989054
DOI: 10.1074/JBC.RA120.015800
Page generated: Tue Dec 15 01:36:58 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy