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Zinc in PDB 3e4z: Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II

Enzymatic activity of Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II

All present enzymatic activity of Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II:
3.4.24.56;

Protein crystallography data

The structure of Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II, PDB code: 3e4z was solved by Q.Guo, M.Manolopoulou, W.-J.Tang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.28
Space group P 65
Cell size a, b, c (Å), α, β, γ (°) 263.033, 263.033, 90.816, 90.00, 90.00, 120.00
R / Rfree (%) 19.6 / 23

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II (pdb code 3e4z). 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 in Complex with Insulin-Like Growth Factor II, PDB code: 3e4z:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3e4z

Go back to Zinc Binding Sites List in 3e4z
Zinc binding site 1 out of 2 in the Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II


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 in Complex with Insulin-Like Growth Factor II within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn2

b:2.0
occ:1.00
NE2 B:HIS108 2.0 26.3 1.0
OE1 B:GLU189 2.0 32.6 1.0
NE2 B:HIS112 2.0 26.8 1.0
O D:THR16 2.1 72.7 1.0
CE1 B:HIS108 2.8 28.4 1.0
CD B:GLU189 2.9 32.1 1.0
CE1 B:HIS112 3.0 28.4 1.0
OE2 B:GLU189 3.0 34.3 1.0
C D:THR16 3.1 73.2 1.0
CD2 B:HIS112 3.1 28.0 1.0
CD2 B:HIS108 3.1 25.1 1.0
N D:THR16 3.8 73.7 1.0
N D:LEU17 3.8 73.0 1.0
CA D:LEU17 4.0 72.9 1.0
ND1 B:HIS108 4.0 27.3 1.0
CA D:THR16 4.0 73.5 1.0
ND1 B:HIS112 4.1 25.8 1.0
CG B:HIS108 4.2 26.4 1.0
CG B:HIS112 4.2 27.6 1.0
C D:ASP15 4.2 73.8 1.0
OE1 B:GLN111 4.3 32.9 1.0
CG B:GLU189 4.3 30.6 1.0
CE1 B:TYR831 4.5 35.6 1.0
CB D:ASP15 4.5 74.0 1.0
O D:ASP15 4.5 73.5 1.0
NE2 B:GLN111 4.7 30.1 1.0
C D:LEU17 4.7 73.0 1.0
O D:LEU17 4.7 72.8 1.0
OH B:TYR831 4.8 37.9 1.0
CA D:ASP15 4.9 74.0 1.0
CB B:GLU189 4.9 30.2 1.0
CD B:GLN111 4.9 30.6 1.0

Zinc binding site 2 out of 2 in 3e4z

Go back to Zinc Binding Sites List in 3e4z
Zinc binding site 2 out of 2 in the Crystal Structure of Human Insulin Degrading Enzyme in Complex with Insulin-Like Growth Factor II


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 in Complex with Insulin-Like Growth Factor II within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn68

b:2.0
occ:1.00
O C:THR16 1.4 65.8 1.0
OE1 A:GLU189 1.9 30.2 1.0
NE2 A:HIS108 2.0 27.9 1.0
NE2 A:HIS112 2.0 26.9 1.0
C C:THR16 2.5 66.3 1.0
CD A:GLU189 2.7 31.1 1.0
CE1 A:HIS108 2.8 26.2 1.0
OE2 A:GLU189 2.8 35.4 1.0
N C:LEU17 3.0 66.4 1.0
CE1 A:HIS112 3.0 26.3 1.0
CD2 A:HIS112 3.1 25.4 1.0
CD2 A:HIS108 3.2 27.0 1.0
CA C:THR16 3.8 66.5 1.0
N C:THR16 3.9 66.2 1.0
ND1 A:HIS108 4.0 25.2 1.0
ND1 A:HIS112 4.1 27.1 1.0
CG A:HIS108 4.2 26.4 1.0
CG A:GLU189 4.2 31.1 1.0
CG A:HIS112 4.2 24.8 1.0
C C:ASP15 4.2 65.9 1.0
CA C:LEU17 4.4 66.5 1.0
CE1 A:TYR831 4.5 30.4 1.0
O C:ASP15 4.5 65.4 1.0
CB C:ASP15 4.5 66.0 1.0
OE1 A:GLN111 4.6 33.9 1.0
NE2 A:GLN111 4.6 29.9 1.0
O A:HOH1311 4.7 52.6 1.0
CB A:GLU189 4.7 29.2 1.0
OH A:TYR831 4.9 31.0 1.0
CA C:ASP15 4.9 66.1 1.0
CG2 A:VAL186 4.9 26.8 1.0
OG1 C:THR16 4.9 67.7 1.0
CB C:THR16 5.0 66.7 1.0

Reference:

Q.Guo, M.Manolopoulou, Y.Bian, A.B.Schilling, W.J.Tang. Molecular Basis For the Recognition and Cleavages of Igf-II, Tgf-Alpha, and Amylin By Human Insulin-Degrading Enzyme. J.Mol.Biol. V. 395 430 2010.
ISSN: ISSN 0022-2836
PubMed: 19896952
DOI: 10.1016/J.JMB.2009.10.072
Page generated: Wed Dec 16 04:15:00 2020

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