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Zinc in PDB 6en6: Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.

Enzymatic activity of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.

All present enzymatic activity of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.:
3.4.15.1;

Protein crystallography data

The structure of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor., PDB code: 6en6 was solved by G.E.Cozier, K.R.Acharya, S.Fienberg, K.Chibale, E.D.Sturrock, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 79.70 / 1.80
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 74.445, 103.373, 115.646, 84.48, 85.50, 81.61
R / Rfree (%) 19.3 / 22.6

Other elements in 6en6:

The structure of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor. also contains other interesting chemical elements:

Magnesium (Mg) 4 atoms
Chlorine (Cl) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor. (pdb code 6en6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor., PDB code: 6en6:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 6en6

Go back to Zinc Binding Sites List in 6en6
Zinc binding site 1 out of 4 in the Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn710

b:16.7
occ:1.00
OE1 A:GLU389 1.9 13.5 1.0
O07 A:BJ2711 2.0 16.0 1.0
NE2 A:HIS365 2.2 16.8 1.0
NE2 A:HIS361 2.2 16.1 1.0
O06 A:BJ2711 2.4 16.3 1.0
C05 A:BJ2711 2.6 17.8 1.0
CD A:GLU389 2.8 17.5 1.0
CD2 A:HIS361 3.1 17.3 1.0
CE1 A:HIS361 3.1 15.6 1.0
OE2 A:GLU389 3.1 17.7 1.0
CE1 A:HIS365 3.1 17.9 1.0
CD2 A:HIS365 3.1 15.6 1.0
HD2 A:HIS361 3.3 20.8 1.0
HE1 A:HIS361 3.3 18.7 1.0
HE1 A:HIS365 3.3 21.4 1.0
HD2 A:HIS365 3.3 18.7 1.0
HE1 A:TYR501 3.3 21.2 1.0
HA A:GLU389 3.6 19.7 1.0
HH A:TYR501 3.7 19.7 1.0
H171 A:BJ2711 3.7 24.5 1.0
H021 A:BJ2711 3.9 22.9 1.0
H241 A:BJ2711 4.0 21.8 1.0
C04 A:BJ2711 4.1 17.5 1.0
ND1 A:HIS361 4.2 14.5 1.0
CE1 A:TYR501 4.2 17.7 1.0
CG A:HIS361 4.2 17.3 1.0
ND1 A:HIS365 4.2 17.3 1.0
CG A:GLU389 4.3 17.0 1.0
CG A:HIS365 4.3 17.2 1.0
H041 A:BJ2711 4.4 21.0 1.0
OH A:TYR501 4.5 16.4 1.0
HB3 A:GLU389 4.5 20.3 1.0
CA A:GLU389 4.5 16.4 1.0
O A:HOH942 4.6 21.1 1.0
C17 A:BJ2711 4.6 20.4 1.0
HG3 A:GLU389 4.7 20.4 1.0
CB A:GLU389 4.7 16.9 1.0
C02 A:BJ2711 4.7 19.1 1.0
CZ A:TYR501 4.8 17.4 1.0
H112 A:BJ2711 4.8 24.1 1.0
HG2 A:GLU389 4.8 20.4 1.0
H172 A:BJ2711 4.9 24.5 1.0
OE2 A:GLU362 4.9 19.4 1.0
N03 A:BJ2711 4.9 17.5 1.0
N12 A:BJ2711 4.9 18.6 1.0
C13 A:BJ2711 4.9 20.1 1.0
HD1 A:HIS361 4.9 17.4 1.0
C24 A:BJ2711 4.9 18.2 1.0
O14 A:BJ2711 5.0 19.9 1.0

Zinc binding site 2 out of 4 in 6en6

Go back to Zinc Binding Sites List in 6en6
Zinc binding site 2 out of 4 in the Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn709

b:17.4
occ:1.00
OE1 B:GLU389 1.9 19.7 1.0
O07 B:BJ2710 2.0 16.9 1.0
NE2 B:HIS365 2.1 18.2 1.0
NE2 B:HIS361 2.2 17.6 1.0
O06 B:BJ2710 2.6 16.9 1.0
C05 B:BJ2710 2.6 17.4 1.0
CD B:GLU389 2.9 17.2 1.0
CE1 B:HIS365 2.9 19.2 1.0
HE1 B:HIS365 3.0 23.0 1.0
CE1 B:HIS361 3.1 16.6 1.0
CD2 B:HIS361 3.1 17.4 1.0
OE2 B:GLU389 3.2 18.2 1.0
CD2 B:HIS365 3.2 19.2 1.0
HE1 B:TYR501 3.2 19.3 1.0
HD2 B:HIS361 3.3 20.9 1.0
HE1 B:HIS361 3.3 19.9 1.0
HD2 B:HIS365 3.4 23.1 1.0
HA B:GLU389 3.6 22.2 1.0
HH B:TYR501 3.6 19.4 1.0
H171 B:BJ2710 3.8 24.2 1.0
H021 B:BJ2710 3.8 21.3 1.0
C04 B:BJ2710 4.1 17.1 1.0
ND1 B:HIS365 4.1 19.4 1.0
H241 B:BJ2710 4.1 22.9 1.0
CE1 B:TYR501 4.1 16.1 1.0
ND1 B:HIS361 4.2 17.6 1.0
CG B:HIS361 4.2 16.6 1.0
CG B:GLU389 4.2 18.9 1.0
CG B:HIS365 4.2 19.3 1.0
H041 B:BJ2710 4.4 20.5 1.0
OH B:TYR501 4.4 16.1 1.0
CA B:GLU389 4.5 18.5 1.0
HB3 B:GLU389 4.5 21.8 1.0
O B:HOH986 4.6 23.7 1.0
HG3 B:GLU389 4.6 22.6 1.0
CB B:GLU389 4.7 18.1 1.0
C02 B:BJ2710 4.7 17.7 1.0
C17 B:BJ2710 4.7 20.2 1.0
CZ B:TYR501 4.8 16.6 1.0
H112 B:BJ2710 4.8 24.1 1.0
N03 B:BJ2710 4.8 18.1 1.0
N12 B:BJ2710 4.8 18.4 1.0
HD1 B:HIS365 4.8 23.3 1.0
HG2 B:GLU389 4.9 22.6 1.0
C13 B:BJ2710 4.9 18.7 1.0
OE2 B:GLU362 4.9 19.6 1.0
O14 B:BJ2710 4.9 18.5 1.0
HD1 B:HIS361 5.0 21.1 1.0
C24 B:BJ2710 5.0 19.0 1.0

Zinc binding site 3 out of 4 in 6en6

Go back to Zinc Binding Sites List in 6en6
Zinc binding site 3 out of 4 in the Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor. within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn708

b:18.6
occ:1.00
OE1 C:GLU389 2.0 17.7 1.0
NE2 C:HIS365 2.1 19.4 1.0
NE2 C:HIS361 2.1 17.8 1.0
O07 C:BJ2709 2.1 20.7 1.0
O06 C:BJ2709 2.3 17.2 1.0
C05 C:BJ2709 2.6 20.3 1.0
CD C:GLU389 2.9 19.4 1.0
CE1 C:HIS365 3.0 20.4 1.0
CD2 C:HIS361 3.1 19.3 1.0
CE1 C:HIS361 3.1 21.8 1.0
HE1 C:HIS365 3.1 24.4 1.0
CD2 C:HIS365 3.1 19.4 1.0
OE2 C:GLU389 3.2 19.1 1.0
HE1 C:TYR501 3.2 21.6 1.0
HD2 C:HIS361 3.2 23.2 1.0
HE1 C:HIS361 3.3 26.2 1.0
HD2 C:HIS365 3.4 23.3 1.0
HH C:TYR501 3.6 22.2 1.0
HA C:GLU389 3.7 25.2 1.0
H171 C:BJ2709 3.7 26.2 1.0
H021 C:BJ2709 3.9 25.9 1.0
H241 C:BJ2709 4.0 27.5 1.0
CE1 C:TYR501 4.1 18.0 1.0
ND1 C:HIS365 4.1 19.6 1.0
C04 C:BJ2709 4.1 21.1 1.0
ND1 C:HIS361 4.2 19.4 1.0
CG C:HIS361 4.2 19.5 1.0
CG C:HIS365 4.2 20.3 1.0
CG C:GLU389 4.3 19.4 1.0
OH C:TYR501 4.4 18.5 1.0
H041 C:BJ2709 4.4 25.3 1.0
HB3 C:GLU389 4.5 25.5 1.0
CA C:GLU389 4.5 21.0 1.0
O C:HOH952 4.6 24.8 1.0
C17 C:BJ2709 4.7 21.9 1.0
CB C:GLU389 4.7 21.2 1.0
HG3 C:GLU389 4.7 23.3 1.0
CZ C:TYR501 4.7 19.0 1.0
C02 C:BJ2709 4.7 21.6 1.0
O14 C:BJ2709 4.8 23.0 1.0
C13 C:BJ2709 4.8 22.4 1.0
OE2 C:GLU362 4.9 21.3 1.0
HD1 C:HIS365 4.9 23.5 1.0
H252 C:BJ2709 4.9 27.1 1.0
C24 C:BJ2709 4.9 22.9 1.0
HG2 C:GLU389 4.9 23.3 1.0
N03 C:BJ2709 4.9 21.6 1.0
HD1 C:HIS361 4.9 23.2 1.0
H172 C:BJ2709 4.9 26.2 1.0
N12 C:BJ2709 5.0 20.8 1.0

Zinc binding site 4 out of 4 in 6en6

Go back to Zinc Binding Sites List in 6en6
Zinc binding site 4 out of 4 in the Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure B of the Angiotensin-1 Converting Enzyme N-Domain in Complex with A Diprolyl Inhibitor. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn709

b:17.7
occ:1.00
OE2 D:GLU389 1.9 20.5 1.0
NE2 D:HIS365 2.1 17.2 1.0
O07 D:BJ2710 2.1 20.2 1.0
NE2 D:HIS361 2.1 16.9 1.0
O06 D:BJ2710 2.5 15.9 1.0
C05 D:BJ2710 2.6 17.6 1.0
CD D:GLU389 2.9 17.3 1.0
CE1 D:HIS365 2.9 17.4 1.0
HE1 D:HIS365 3.0 20.9 1.0
CD2 D:HIS361 3.1 17.5 1.0
CE1 D:HIS361 3.1 17.4 1.0
OE1 D:GLU389 3.1 17.7 1.0
CD2 D:HIS365 3.2 17.1 1.0
HD2 D:HIS361 3.3 21.1 1.0
HE1 D:TYR501 3.3 21.3 1.0
HE1 D:HIS361 3.3 20.9 1.0
HD2 D:HIS365 3.4 20.5 1.0
HA D:GLU389 3.7 21.7 1.0
HH D:TYR501 3.7 21.0 1.0
H171 D:BJ2710 3.7 21.4 1.0
H021 D:BJ2710 3.9 22.7 1.0
H241 D:BJ2710 4.0 25.0 1.0
ND1 D:HIS365 4.1 17.9 1.0
C04 D:BJ2710 4.2 18.4 1.0
CE1 D:TYR501 4.2 17.8 1.0
ND1 D:HIS361 4.2 16.5 1.0
CG D:HIS361 4.2 17.6 1.0
CG D:HIS365 4.2 17.5 1.0
CG D:GLU389 4.3 17.9 1.0
OH D:TYR501 4.5 17.5 1.0
H041 D:BJ2710 4.5 22.0 1.0
CA D:GLU389 4.5 18.1 1.0
O D:HOH1041 4.6 18.6 1.0
HB3 D:GLU389 4.6 20.6 1.0
C17 D:BJ2710 4.6 17.8 1.0
HG3 D:GLU389 4.7 21.4 1.0
C02 D:BJ2710 4.7 18.9 1.0
CB D:GLU389 4.7 17.2 1.0
CZ D:TYR501 4.8 17.8 1.0
H112 D:BJ2710 4.8 24.3 1.0
OE2 D:GLU362 4.8 19.6 1.0
H172 D:BJ2710 4.8 21.4 1.0
HD1 D:HIS365 4.9 21.5 1.0
HG2 D:GLU389 4.9 21.4 1.0
N12 D:BJ2710 4.9 18.7 1.0
N03 D:BJ2710 4.9 18.6 1.0
C24 D:BJ2710 4.9 20.9 1.0
C13 D:BJ2710 4.9 18.6 1.0
H252 D:BJ2710 4.9 23.6 1.0
HD1 D:HIS361 5.0 19.8 1.0
O14 D:BJ2710 5.0 17.9 1.0

Reference:

S.Fienberg, G.E.Cozier, K.R.Acharya, K.Chibale, E.D.Sturrock. The Design and Development of A Potent and Selective Novel Diprolyl Derivative That Binds to the N-Domain of Angiotensin-I Converting Enzyme. J. Med. Chem. V. 61 344 2018.
ISSN: ISSN 1520-4804
PubMed: 29206036
DOI: 10.1021/ACS.JMEDCHEM.7B01478
Page generated: Mon Oct 28 20:13:15 2024

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