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Potassium in PDB 4q2e: Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant)

Enzymatic activity of Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant)

All present enzymatic activity of Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant):
2.7.7.41;

Protein crystallography data

The structure of Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant), PDB code: 4q2e was solved by X.Liu, Y.Yin, J.Wu, Z.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.00 / 3.40
Space group P 65 2 2
Cell size a, b, c (Å), α, β, γ (°) 142.080, 142.080, 198.373, 90.00, 90.00, 120.00
R / Rfree (%) 29.9 / 33.8

Other elements in 4q2e:

The structure of Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant) also contains other interesting chemical elements:

Mercury (Hg) 6 atoms
Magnesium (Mg) 2 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant) (pdb code 4q2e). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant), PDB code: 4q2e:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in 4q2e

Go back to Potassium Binding Sites List in 4q2e
Potassium binding site 1 out of 2 in the Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K305

b:0.7
occ:1.00
 O A:ASP239 2.4 93.5 1.0
OD2 A:ASP239 2.5 0.5 1.0
OD2 A:ASP269 3.0 97.3 1.0
CB A:GLU242 3.0 94.6 1.0
CG A:GLU242 3.1 95.3 1.0
C A:ASP239 3.2 93.7 1.0
CA A:ASP239 3.2 96.1 1.0
CG A:ASP239 3.4 0.2 1.0
N A:CYS243 3.5 98.5 1.0
CB A:ASP239 3.7 0.7 1.0
CA A:GLU242 3.9 94.9 1.0
C A:GLU242 3.9 96.1 1.0
CD A:GLU242 4.0 94.8 1.0
CG A:ASP269 4.0 97.2 1.0
OE1 A:GLU242 4.1 95.5 1.0
CA A:CYS243 4.3 0.6 1.0
N A:GLU242 4.3 93.3 1.0
CB A:CYS243 4.4 0.9 1.0
SG A:CYS243 4.4 0.6 1.0
N A:ILE240 4.4 90.9 1.0
O A:GLY238 4.5 92.1 1.0
CE A:LYS246 4.5 0.3 1.0
N A:ASP239 4.5 95.0 1.0
OD1 A:ASP239 4.5 0.7 1.0
CB A:ASP269 4.5 96.3 1.0
NZ A:LYS246 4.7 0.2 1.0
O A:GLU242 4.8 95.8 1.0
OD1 A:ASP269 4.9 99.6 1.0
C A:GLY238 5.0 92.7 1.0

Potassium binding site 2 out of 2 in 4q2e

Go back to Potassium Binding Sites List in 4q2e
Potassium binding site 2 out of 2 in the Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Crystal Structure of An Intramembrane Cdp-Dag Synthetase Central For Phospholipid Biosynthesis (S200C/S258C, Active Mutant) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K305

b:0.0
occ:1.00
 OD2 B:ASP239 2.5 0.1 1.0
OD2 B:ASP269 3.3 0.3 1.0
O B:ASP239 3.4 93.2 1.0
CG B:GLU242 3.5 95.3 1.0
CG B:ASP239 3.7 0.6 1.0
NZ B:LYS246 3.7 0.2 1.0
CE B:LYS246 3.8 0.0 1.0
CB B:GLU242 4.0 96.5 1.0
SG B:CYS243 4.1 0.6 1.0
N B:CYS243 4.2 99.7 1.0
C B:ASP239 4.2 93.6 1.0
CA B:ASP239 4.2 94.9 1.0
CD B:GLU242 4.3 95.6 1.0
CB B:ASP239 4.3 98.4 1.0
OE1 B:GLU242 4.4 95.9 1.0
CG B:ASP269 4.5 0.1 1.0
CB B:CYS243 4.5 0.3 1.0
CA B:CYS243 4.6 0.5 1.0
C B:GLU242 4.6 98.3 1.0
OD1 B:ASP266 4.7 0.7 1.0
OD1 B:ASP239 4.7 0.3 1.0
CD B:LYS246 4.8 0.6 1.0
CA B:GLU242 4.9 97.0 1.0
CD B:PRO185 5.0 0.6 1.0

Reference:

X.Liu, Y.Yin, J.Wu, Z.Liu. Structure and Mechanism of An Intramembrane Liponucleotide Synthetase Central For Phospholipid Biosynthesis Nat Commun V. 5 4244 2014.
ISSN: ESSN 2041-1723
PubMed: 24968740
DOI: 10.1038/NCOMMS5244
Page generated: Mon Aug 12 11:48:12 2024

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