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Potassium in PDB 5oey: Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.

Enzymatic activity of Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.

All present enzymatic activity of Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.:
3.1.3.11;

Protein crystallography data

The structure of Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form., PDB code: 5oey was solved by M.Yuan, M.G.Vasquez-Valdivieso, I.W.Mcnae, P.A.M.Michels, L.A.Fothergill-Gilmore, M.D.Walkinshaw, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 55.14 / 2.80
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 92.010, 104.150, 137.740, 90.00, 90.00, 90.00
R / Rfree (%) 19.3 / 24.1

Other elements in 5oey:

The structure of Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form. also contains other interesting chemical elements:

Manganese (Mn) 8 atoms

Potassium Binding Sites:

The binding sites of Potassium atom in the Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form. (pdb code 5oey). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form., PDB code: 5oey:
Jump to Potassium binding site number: 1; 2; 3; 4;

Potassium binding site 1 out of 4 in 5oey

Go back to Potassium Binding Sites List in 5oey
Potassium binding site 1 out of 4 in the Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.


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 Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:K704

b:27.4
occ:1.00
 O1 A:PO4701 2.2 40.8 1.0
OD2 A:ASP68 2.2 46.4 1.0
OE1 A:GLU97 2.7 38.0 1.0
P A:PO4701 3.1 36.7 1.0
O2 A:PO4701 3.3 34.8 1.0
CG A:ASP68 3.4 57.1 1.0
CD A:GLU97 3.5 36.8 1.0
MN A:MN702 3.5 35.3 1.0
O3 A:PO4701 3.6 36.3 1.0
CB A:ASP68 3.8 61.9 1.0
OE2 A:GLU97 4.0 42.2 1.0
ND2 A:ASN64 4.2 72.7 1.0
OG A:SER123 4.2 48.8 1.0
NH1 A:ARG280 4.3 58.0 1.0
OE2 A:GLU98 4.4 38.9 1.0
OD1 A:ASP68 4.5 52.2 1.0
O4 A:PO4701 4.5 34.5 1.0
CG A:GLU97 4.5 36.3 1.0
NH2 A:ARG280 4.5 49.1 1.0
OD1 A:ASP74 4.6 44.7 1.0
OD2 A:ASP74 4.8 44.1 1.0
CZ A:ARG280 4.9 51.4 1.0

Potassium binding site 2 out of 4 in 5oey

Go back to Potassium Binding Sites List in 5oey
Potassium binding site 2 out of 4 in the Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.


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 Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:K704

b:64.0
occ:1.00
 O2 B:PO4701 2.5 40.9 1.0
O B:HOH823 3.4 17.2 1.0
P B:PO4701 3.8 49.3 1.0
NZ B:LYS278 3.8 55.2 1.0
O3 B:PO4701 4.0 42.3 1.0
O1 B:PO4701 4.6 45.3 1.0
O B:HOH835 4.7 20.0 1.0
O4 B:PO4701 4.8 39.1 1.0

Potassium binding site 3 out of 4 in 5oey

Go back to Potassium Binding Sites List in 5oey
Potassium binding site 3 out of 4 in the Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:K704

b:25.9
occ:1.00
 OD2 C:ASP68 2.3 41.2 1.0
O1 C:PO4701 2.4 41.6 1.0
OE2 C:GLU97 2.6 34.7 1.0
P C:PO4701 3.1 38.4 1.0
O4 C:PO4701 3.1 41.5 1.0
O3 C:PO4701 3.2 39.4 1.0
CG C:ASP68 3.3 43.6 1.0
CD C:GLU97 3.5 34.6 1.0
OE1 C:GLU97 3.6 34.1 1.0
CB C:ASP68 3.6 45.9 1.0
MN C:MN702 3.6 31.4 1.0
O C:HOH801 3.8 33.9 1.0
OG C:SER123 4.0 48.9 1.0
ND2 C:ASN64 4.2 48.2 1.0
OE2 C:GLU98 4.3 36.7 1.0
NH1 C:ARG280 4.3 40.8 1.0
OD1 C:ASP74 4.4 37.9 1.0
OD1 C:ASP68 4.4 39.2 1.0
OD2 C:ASP74 4.5 34.1 1.0
O2 C:PO4701 4.5 35.2 1.0
CG C:ASP74 4.7 32.5 1.0
OE1 C:GLU98 4.9 31.1 1.0
CG C:GLU97 4.9 34.1 1.0
O C:LEU120 5.0 25.9 1.0

Potassium binding site 4 out of 4 in 5oey

Go back to Potassium Binding Sites List in 5oey
Potassium binding site 4 out of 4 in the Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form.


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Crystal Structure of Leishmania Major Fructose-1,6-Bisphosphatase in Holo Form. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:K704

b:12.9
occ:1.00
 OD1 D:ASP118 2.2 19.3 1.0
OE2 D:GLU97 2.2 37.6 1.0
O D:LEU120 2.5 27.1 1.0
O4 D:PO4701 2.7 81.5 1.0
OE2 D:GLU98 2.8 56.7 1.0
O2 D:PO4701 2.8 84.7 1.0
P D:PO4701 3.1 83.4 1.0
O3 D:PO4701 3.2 85.5 1.0
CG D:ASP118 3.2 19.9 1.0
CD D:GLU97 3.4 36.9 1.0
C D:LEU120 3.5 27.2 1.0
MN D:MN702 3.5 70.9 1.0
OD2 D:ASP74 3.6 56.1 1.0
OD2 D:ASP118 3.6 20.8 1.0
MN D:MN703 3.8 27.5 1.0
CD D:GLU98 4.0 64.4 1.0
N D:LEU120 4.1 22.6 1.0
CG D:GLU97 4.2 39.2 1.0
OE1 D:GLU97 4.2 36.2 1.0
N D:ASP121 4.3 31.4 1.0
CA D:LEU120 4.3 25.1 1.0
CA D:ASP121 4.4 35.6 1.0
CB D:GLU97 4.4 39.0 1.0
CD D:PRO119 4.5 21.8 1.0
OG D:SER123 4.5 39.0 1.0
CB D:ASP118 4.5 19.6 1.0
O1 D:PO4701 4.5 87.5 1.0
OE1 D:GLU98 4.7 78.8 1.0
CG D:ASP74 4.8 53.4 1.0
CA D:ASP118 4.8 20.1 1.0
N D:PRO119 4.8 20.7 1.0
C D:ASP118 4.9 20.9 1.0
CB D:LEU120 4.9 25.3 1.0
CG D:PRO119 4.9 21.8 1.0
CG D:GLU98 5.0 59.7 1.0

Reference:

M.Yuan, M.G.Vasquez-Valdivieso, I.W.Mcnae, P.A.M.Michels, L.A.Fothergill-Gilmore, M.D.Walkinshaw. Structures of Leishmania Fructose-1,6-Bisphosphatase Reveal Species-Specific Differences in the Mechanism of Allosteric Inhibition. J. Mol. Biol. V. 429 3075 2017.
ISSN: ESSN 1089-8638
PubMed: 28882541
DOI: 10.1016/J.JMB.2017.08.010
Page generated: Mon Aug 12 14:20:29 2024

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