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Zinc in PDB 5onr: Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin

Enzymatic activity of Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin

All present enzymatic activity of Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin:
3.4.24.27;

Protein crystallography data

The structure of Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin, PDB code: 5onr was solved by J.P.Leite, L.Gales, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.37 / 1.39
Space group P 61 2 2
Cell size a, b, c (Å), α, β, γ (°) 92.696, 92.696, 129.368, 90.00, 90.00, 120.00
R / Rfree (%) 17.9 / 19.9

Other elements in 5onr:

The structure of Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin also contains other interesting chemical elements:

Calcium (Ca) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin (pdb code 5onr). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin, PDB code: 5onr:

Zinc binding site 1 out of 1 in 5onr

Go back to Zinc Binding Sites List in 5onr
Zinc binding site 1 out of 1 in the Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Alzheimer'S Amyloid-Beta Peptide Fragment 1-40 in Complex with Thermolysin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn405

b:13.8
occ:1.00
 NE2 A:HIS142 2.0 11.7 1.0
OE1 A:GLU166 2.0 14.7 1.0
NE2 A:HIS146 2.1 12.0 1.0
O A:HOH726 2.1 12.9 1.0
O A:HOH511 2.4 23.3 1.0
CD A:GLU166 2.9 13.8 1.0
CD2 A:HIS142 3.0 10.6 1.0
CE1 A:HIS142 3.0 13.4 1.0
CE1 A:HIS146 3.0 13.2 1.0
OE2 A:GLU166 3.1 14.3 1.0
CD2 A:HIS146 3.1 13.0 1.0
OH A:TYR157 3.9 15.4 1.0
ND1 A:HIS142 4.1 11.9 1.0
CG A:HIS142 4.1 10.5 1.0
NE2 A:HIS231 4.1 13.8 1.0
ND1 A:HIS146 4.1 12.8 1.0
OE1 A:GLU143 4.2 16.4 1.0
CG A:HIS146 4.2 13.1 1.0
CG A:GLU166 4.3 13.7 1.0
O A:HOH682 4.3 20.3 1.0
CA B:ILE31 4.5 16.4 1.0
N B:ILE31 4.5 18.6 1.0
CB A:SER169 4.5 12.4 1.0
CD2 A:HIS231 4.7 14.5 1.0
OG A:SER169 4.7 13.0 1.0
O A:HOH817 4.8 40.3 1.0
O B:ILE31 4.8 17.7 1.0
C B:ILE31 4.8 17.2 1.0
CZ A:TYR157 4.9 14.0 1.0
CA A:GLU166 4.9 11.1 1.0
CE1 A:TYR157 4.9 15.2 1.0
CD A:GLU143 5.0 13.7 1.0

Reference:

J.P.Leite, L.Gales. Alzheimer'S A BETA1-40PEPTIDE Degradation By Thermolysin: Evidence of Inhibition By A C-Terminal A Beta Product. Febs Lett. V. 593 128 2019.
ISSN: ISSN 1873-3468
PubMed: 30403288
DOI: 10.1002/1873-3468.13285
Page generated: Wed Dec 16 06:39:09 2020

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