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Zinc in PDB 5zio: Crystal Structure of Ndm-1 in Complex with L-Captopril

Enzymatic activity of Crystal Structure of Ndm-1 in Complex with L-Captopril

All present enzymatic activity of Crystal Structure of Ndm-1 in Complex with L-Captopril:
3.5.2.6;

Protein crystallography data

The structure of Crystal Structure of Ndm-1 in Complex with L-Captopril, PDB code: 5zio was solved by H.Zhang, Q.Hao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 41.13 / 0.98
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 41.506, 59.948, 41.904, 90.00, 98.06, 90.00
R / Rfree (%) 12.4 / 13.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Ndm-1 in Complex with L-Captopril (pdb code 5zio). 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 Ndm-1 in Complex with L-Captopril, PDB code: 5zio:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5zio

Go back to Zinc Binding Sites List in 5zio
Zinc binding site 1 out of 2 in the Crystal Structure of Ndm-1 in Complex with L-Captopril


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 Ndm-1 in Complex with L-Captopril within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:8.9
occ:1.00
ND1 A:HIS95 2.1 9.1 1.0
NE2 A:HIS93 2.1 8.3 1.0
NE2 A:HIS162 2.1 9.7 1.0
S A:X8Z303 2.3 10.3 1.0
CE1 A:HIS95 3.0 9.3 1.0
CE1 A:HIS93 3.0 8.4 1.0
CE1 A:HIS162 3.0 10.6 1.0
CD2 A:HIS93 3.1 8.0 1.0
CG A:HIS95 3.1 8.5 1.0
CD2 A:HIS162 3.1 9.7 1.0
C1 A:X8Z303 3.3 12.3 1.0
CB A:HIS95 3.4 8.2 1.0
ZN A:ZN302 3.8 9.0 1.0
SG A:CYS181 4.1 8.2 1.0
NE2 A:HIS95 4.1 9.7 1.0
ND1 A:HIS93 4.1 8.1 1.0
CB A:CYS181 4.1 8.6 1.0
ND1 A:HIS162 4.2 11.2 1.0
CD2 A:HIS95 4.2 9.1 1.0
CG A:HIS93 4.2 7.4 1.0
OD1 A:ASP97 4.2 9.4 1.0
CG A:HIS162 4.2 10.2 1.0
CG2 A:THR163 4.4 9.7 1.0
C2 A:X8Z303 4.7 17.4 1.0
CA A:HIS95 4.9 7.8 1.0
OD2 A:ASP97 4.9 9.6 1.0
O1 A:X8Z303 4.9 22.6 1.0
O A:HOH405 4.9 33.5 1.0
CG A:ASP97 5.0 7.9 1.0

Zinc binding site 2 out of 2 in 5zio

Go back to Zinc Binding Sites List in 5zio
Zinc binding site 2 out of 2 in the Crystal Structure of Ndm-1 in Complex with L-Captopril


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 Ndm-1 in Complex with L-Captopril within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:9.0
occ:1.00
OD2 A:ASP97 2.0 9.6 1.0
NE2 A:HIS223 2.1 9.3 1.0
SG A:CYS181 2.3 8.2 1.0
S A:X8Z303 2.3 10.3 1.0
CG A:ASP97 2.9 7.9 1.0
CE1 A:HIS223 3.0 9.5 1.0
CD2 A:HIS223 3.1 9.6 1.0
OD1 A:ASP97 3.2 9.4 1.0
C1 A:X8Z303 3.4 12.3 1.0
CB A:CYS181 3.4 8.6 1.0
ZN A:ZN301 3.8 8.9 1.0
C2 A:X8Z303 3.9 17.4 1.0
ND1 A:HIS223 4.1 9.5 1.0
CB A:SER222 4.2 8.2 1.0
CG A:HIS223 4.2 9.2 1.0
CB A:ASP97 4.2 7.5 1.0
C4 A:X8Z303 4.4 21.5 1.0
OG A:SER222 4.5 8.0 1.0
CE1 A:HIS93 4.5 8.4 1.0
C5 A:X8Z303 4.6 28.3 1.0
NE2 A:HIS93 4.6 8.3 1.0
NE2 A:HIS162 4.6 9.7 1.0
N A:X8Z303 4.6 27.1 1.0
CA A:CYS181 4.6 8.6 1.0
CE A:LYS98 4.7 7.4 1.0
CE1 A:HIS162 4.8 10.6 1.0
CD A:LYS98 4.9 7.5 1.0
CG A:LYS98 5.0 7.3 1.0
OG A:SER48 5.0 8.3 1.0

Reference:

H.Zhang, Q.Hao. Crystal Structure of Ndm-1 To Be Published.
Page generated: Wed Dec 16 11:26:55 2020

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