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Zinc in PDB 4re9: Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290

Enzymatic activity of Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290

All present enzymatic activity of Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290:
3.4.24.56;

Protein crystallography data

The structure of Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290, PDB code: 4re9 was solved by W.G.Liang, R.Deprez, B.Deprez, W.J.Tang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.70 / 2.91
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 262.981, 262.981, 90.508, 90.00, 90.00, 120.00
R / Rfree (%) 15.9 / 21.3

Other elements in 4re9:

The structure of Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290 also contains other interesting chemical elements:

Fluorine (F) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290 (pdb code 4re9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290, PDB code: 4re9:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4re9

Go back to Zinc Binding Sites List in 4re9
Zinc binding site 1 out of 2 in the Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1101

b:43.0
occ:1.00
O08 A:3M91102 2.1 58.7 1.0
NE2 A:HIS108 2.1 33.7 1.0
OE1 A:GLU189 2.1 49.2 1.0
NE2 A:HIS112 2.1 43.9 1.0
O07 A:3M91102 2.7 84.4 1.0
CD A:GLU189 2.8 54.9 1.0
OE2 A:GLU189 2.9 59.0 1.0
CE1 A:HIS108 3.0 36.5 1.0
N06 A:3M91102 3.0 62.5 1.0
CD2 A:HIS112 3.1 48.2 1.0
CE1 A:HIS112 3.1 49.6 1.0
CD2 A:HIS108 3.2 41.5 1.0
C05 A:3M91102 3.3 77.7 1.0
ND1 A:HIS108 4.1 37.9 1.0
ND1 A:HIS112 4.2 50.2 1.0
CG A:HIS112 4.2 48.2 1.0
CG A:HIS108 4.3 41.1 1.0
CE1 A:TYR831 4.3 56.0 1.0
CG A:GLU189 4.3 42.9 1.0
OH A:TYR831 4.3 70.3 1.0
OE2 A:GLU111 4.6 46.7 1.0
CZ A:TYR831 4.7 57.2 1.0
C04 A:3M91102 4.8 95.4 1.0
CB A:GLU189 4.8 40.8 1.0
OE1 A:GLU111 4.9 47.1 1.0

Zinc binding site 2 out of 2 in 4re9

Go back to Zinc Binding Sites List in 4re9
Zinc binding site 2 out of 2 in the Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Human Insulin Degrading Enzyme (Ide) in Complex with Compound 71290 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1101

b:35.5
occ:1.00
OE1 B:GLU189 2.0 32.7 1.0
NE2 B:HIS112 2.1 41.8 1.0
O08 B:3M91102 2.1 48.5 1.0
NE2 B:HIS108 2.2 34.4 1.0
CD B:GLU189 2.7 35.3 1.0
OE2 B:GLU189 2.8 44.0 1.0
O07 B:3M91102 2.8 65.6 1.0
CE1 B:HIS112 3.0 36.6 1.0
N06 B:3M91102 3.0 68.3 1.0
CE1 B:HIS108 3.1 34.8 1.0
CD2 B:HIS112 3.1 45.8 1.0
CD2 B:HIS108 3.2 38.1 1.0
C05 B:3M91102 3.3 65.3 1.0
ND1 B:HIS112 4.1 41.2 1.0
CG B:GLU189 4.1 33.6 1.0
OH B:TYR831 4.2 50.7 1.0
CE1 B:TYR831 4.2 35.5 1.0
ND1 B:HIS108 4.2 35.6 1.0
CG B:HIS112 4.2 40.5 1.0
CG B:HIS108 4.3 27.7 1.0
CZ B:TYR831 4.6 40.2 1.0
OE1 B:GLU111 4.7 40.5 1.0
CB B:GLU189 4.7 36.5 1.0
C04 B:3M91102 4.8 70.2 1.0
OE2 B:GLU111 4.8 43.9 1.0
CG2 B:VAL186 4.9 28.3 1.0

Reference:

R.Deprez-Poulain, N.Hennuyer, D.Bosc, W.G.Liang, E.Enee, X.Marechal, J.Charton, J.Totobenazara, G.Berte, J.Jahklal, T.Verdelet, J.Dumont, S.Dassonneville, E.Woitrain, M.Gauriot, C.Paquet, I.Duplan, P.Hermant, F.X.Cantrelle, E.Sevin, M.Culot, V.Landry, A.Herledan, C.Piveteau, G.Lippens, F.Leroux, W.J.Tang, P.Van Endert, B.Staels, B.Deprez. Catalytic Site Inhibition of Insulin-Degrading Enzyme By A Small Molecule Induces Glucose Intolerance in Mice. Nat Commun V. 6 8250 2015.
ISSN: ESSN 2041-1723
PubMed: 26394692
DOI: 10.1038/NCOMMS9250
Page generated: Wed Dec 16 05:45:40 2020

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