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Zinc in PDB 5zj1: Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14

Enzymatic activity of Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14

All present enzymatic activity of Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14:
3.5.2.6;

Protein crystallography data

The structure of Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14, PDB code: 5zj1 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) 27.94 / 0.96
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 41.449, 59.944, 41.964, 90.00, 98.42, 90.00
R / Rfree (%) 13.1 / 15

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14 (pdb code 5zj1). 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 D-Captopril Derivative Cyt- 14, PDB code: 5zj1:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5zj1

Go back to Zinc Binding Sites List in 5zj1
Zinc binding site 1 out of 2 in the Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14


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 D-Captopril Derivative Cyt- 14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn301

b:16.8
occ:1.00
NE2 A:HIS189 2.0 17.0 1.0
ND1 A:HIS122 2.0 16.6 1.0
NE2 A:HIS120 2.1 16.7 1.0
SG A:YT4303 2.3 17.1 1.0
CE1 A:HIS122 3.0 17.3 1.0
CE1 A:HIS189 3.0 17.8 1.0
CE1 A:HIS120 3.0 17.1 1.0
CD2 A:HIS120 3.0 16.6 1.0
CD2 A:HIS189 3.1 17.3 1.0
CG A:HIS122 3.1 16.4 1.0
CB A:YT4303 3.1 17.4 1.0
CB A:HIS122 3.4 16.3 1.0
ZN A:ZN302 3.7 16.9 1.0
SG A:CYS208 4.0 16.6 1.0
NE2 A:HIS122 4.1 17.8 1.0
ND1 A:HIS120 4.1 17.4 1.0
ND1 A:HIS189 4.1 17.9 1.0
OD1 A:ASP124 4.1 17.0 1.0
CB A:CYS208 4.1 17.4 1.0
CG A:HIS120 4.2 16.1 1.0
CD2 A:HIS122 4.2 17.1 1.0
CG A:HIS189 4.2 17.3 1.0
ND2 A:ASN220 4.4 23.8 1.0
CG2 A:THR190 4.5 18.1 1.0
CA A:YT4303 4.6 17.5 1.0
OD2 A:ASP124 4.8 17.8 1.0
CG A:ASP124 4.9 16.0 1.0
CA A:HIS122 4.9 15.7 1.0
O A:HOH500 4.9 20.4 1.0

Zinc binding site 2 out of 2 in 5zj1

Go back to Zinc Binding Sites List in 5zj1
Zinc binding site 2 out of 2 in the Crystal Structure of Ndm-1 in Complex with D-Captopril Derivative Cyt- 14


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 D-Captopril Derivative Cyt- 14 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:16.9
occ:1.00
OD2 A:ASP124 1.9 17.8 1.0
NE2 A:HIS250 2.0 17.0 1.0
SG A:CYS208 2.3 16.6 1.0
SG A:YT4303 2.3 17.1 1.0
CG A:ASP124 2.9 16.0 1.0
CE1 A:HIS250 3.0 17.8 1.0
CD2 A:HIS250 3.1 17.5 1.0
OD1 A:ASP124 3.2 17.0 1.0
CB A:YT4303 3.4 17.4 1.0
CB A:CYS208 3.5 17.4 1.0
ZN A:ZN301 3.7 16.8 1.0
CA A:YT4303 3.8 17.5 1.0
O A:HOH537 4.0 21.5 1.0
ND1 A:HIS250 4.1 18.1 1.0
CG A:HIS250 4.2 17.3 1.0
CB A:ASP124 4.2 16.2 1.0
OAJ A:YT4303 4.3 23.3 1.0
CB A:SER249 4.3 17.3 1.0
NE2 A:HIS189 4.5 17.0 1.0
O A:HOH481 4.5 27.6 1.0
NE2 A:HIS120 4.6 16.7 1.0
CE1 A:HIS120 4.6 17.1 1.0
N A:YT4303 4.6 19.4 1.0
CE1 A:HIS189 4.6 17.8 1.0
OG A:SER249 4.6 17.0 1.0
CA A:CYS208 4.7 17.2 1.0
CAI A:YT4303 4.8 31.6 1.0
CE A:LYS125 4.9 18.1 1.0

Reference:

H.Zhang, Q.Hao. Crystal Structure of Ndm-1 To Be Published.
Page generated: Wed Dec 16 11:26:57 2020

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