Zinc in PDB 3f28: Thermolysin Inhibition

All present enzymatic activity of Thermolysin Inhibition:
3.4.24.27;

The structure of Thermolysin Inhibition, PDB code: 3f28 was solved by L.Englert, A.Heine, G.Klebe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 1.68
Space group	P 61 2 2
Cell size a, b, c (Å), α, β, γ (°)	92.520, 92.520, 128.946, 90.00, 90.00, 120.00
R / Rfree (%)	18.9 / 23.6

The structure of Thermolysin Inhibition also contains other interesting chemical elements:

Calcium

(Ca)

4 atoms

The binding sites of Zinc atom in the Thermolysin Inhibition (pdb code 3f28). 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 Thermolysin Inhibition, PDB code: 3f28:

Zinc binding site 1 out of 1 in the Thermolysin Inhibition


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Thermolysin Inhibition within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn321 b:18.6 occ:1.00 O4 A:S7B5000 2.0 22.5 1.0 NE2 A:HIS142 2.0 17.0 1.0 NE2 A:HIS146 2.0 16.9 1.0 OE2 A:GLU166 2.0 17.3 1.0 O3 A:S7B5000 2.7 25.4 1.0 C2 A:S7B5000 2.7 19.5 1.0 CD A:GLU166 2.8 20.4 1.0 CD2 A:HIS142 3.0 18.3 1.0 CE1 A:HIS146 3.0 15.8 1.0 OE1 A:GLU166 3.0 19.6 1.0 CE1 A:HIS142 3.1 19.1 1.0 CD2 A:HIS146 3.1 24.7 1.0 OH A:TYR157 3.9 24.4 1.0 NE2 A:HIS231 4.1 20.4 1.0 ND1 A:HIS146 4.1 18.4 1.0 C1 A:S7B5000 4.1 18.9 1.0 CG A:HIS142 4.1 19.0 1.0 ND1 A:HIS142 4.1 17.8 1.0 CG A:HIS146 4.2 20.0 1.0 O11 A:S7B5000 4.2 25.0 1.0 CG A:GLU166 4.3 17.1 1.0 O A:HOH1534 4.5 32.5 1.0 CB A:SER169 4.6 20.0 1.0 OE1 A:GLU143 4.6 17.9 1.0 C7 A:S7B5000 4.6 20.6 1.0 CD2 A:HIS231 4.7 18.8 1.0 OG A:SER169 4.9 16.8 1.0 CZ A:TYR157 4.9 22.5 1.0 O6 A:S7B5000 4.9 25.2 1.0 C16 A:S7B5000 4.9 24.5 1.0 CA A:GLU166 5.0 15.6 1.0 CE1 A:TYR157 5.0 21.9 1.0 OE2 A:GLU143 5.0 24.4 1.0 C5 A:S7B5000 5.0 27.1 1.0

L.Englert, K.Silber, H.Steuber, S.Brass, B.Over, H.D.Gerber, A.Heine, W.E.Diederich, G.Klebe. Fragment-Based Lead Discovery: Screening and Optimizing Fragments For Thermolysin Inhibition. Chemmedchem V. 5 930 2010.
ISSN: ISSN 1860-7179
PubMed: 20394106
DOI: 10.1002/CMDC.201000084