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Zinc in PDB 7aez: Crystal Structure of the Metallo-Beta-Lactamase Ndm-7 with 407

Protein crystallography data

The structure of Crystal Structure of the Metallo-Beta-Lactamase Ndm-7 with 407, PDB code: 7aez was solved by J.Brem, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 27.72 / 1.02
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 41.746, 58.736, 83.897, 90, 90, 90
R / Rfree (%) 10.4 / 11.3

Other elements in 7aez:

The structure of Crystal Structure of the Metallo-Beta-Lactamase Ndm-7 with 407 also contains other interesting chemical elements:

Sodium (Na) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Metallo-Beta-Lactamase Ndm-7 with 407 (pdb code 7aez). 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 the Metallo-Beta-Lactamase Ndm-7 with 407, PDB code: 7aez:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7aez

Go back to Zinc Binding Sites List in 7aez
Zinc binding site 1 out of 2 in the Crystal Structure of the Metallo-Beta-Lactamase Ndm-7 with 407


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 the Metallo-Beta-Lactamase Ndm-7 with 407 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn302

b:7.7
occ:0.95
O A:HOH435 1.9 8.7 1.0
NE2 A:HIS189 2.0 8.0 1.0
NE2 A:HIS120 2.0 7.5 1.0
ND1 A:HIS122 2.0 8.2 1.0
HB2 A:HIS122 3.0 8.7 1.0
CD2 A:HIS189 3.0 7.4 1.0
CE1 A:HIS120 3.0 7.3 1.0
CE1 A:HIS122 3.0 8.5 1.0
CE1 A:HIS189 3.0 8.1 1.0
CD2 A:HIS120 3.0 7.0 1.0
CG A:HIS122 3.1 7.6 1.0
HD2 A:HIS189 3.1 8.9 1.0
HE1 A:HIS120 3.2 8.8 1.0
HE1 A:HIS122 3.2 10.2 1.0
HE1 A:HIS189 3.2 9.7 1.0
HD2 A:HIS120 3.2 8.3 1.0
CB A:HIS122 3.4 7.3 1.0
H101 A:R8W301 3.5 9.8 0.8
HB3 A:HIS122 3.5 8.7 1.0
ZN A:ZN303 3.5 9.6 0.8
HG23 A:THR190 3.8 9.9 1.0
SG A:CYS208 3.9 8.2 1.0
O27 A:R8W301 3.9 7.1 0.8
OD1 A:ASP124 3.9 8.7 1.0
H033 A:R8W301 4.0 13.9 0.8
H021 A:R8W301 4.0 12.5 0.8
HG21 A:THR190 4.0 9.9 1.0
HB3 A:CYS208 4.0 9.2 1.0
ND1 A:HIS120 4.1 7.3 1.0
NE2 A:HIS122 4.1 8.9 1.0
ND1 A:HIS189 4.1 8.1 1.0
CG A:HIS189 4.1 7.4 1.0
CG A:HIS120 4.2 6.7 1.0
CD2 A:HIS122 4.2 8.5 1.0
CB A:CYS208 4.3 7.7 1.0
CG2 A:THR190 4.4 8.3 1.0
H031 A:R8W301 4.4 13.9 0.8
N10 A:R8W301 4.4 8.2 0.8
C03 A:R8W301 4.5 11.6 0.8
HG3 A:LYS125 4.5 9.5 1.0
OD2 A:ASP124 4.6 10.1 1.0
HG2 A:LYS125 4.6 9.5 1.0
CG A:ASP124 4.7 8.3 1.0
HG22 A:THR190 4.7 9.9 1.0
C02 A:R8W301 4.8 10.4 0.8
C25 A:R8W301 4.8 7.5 0.8
CA A:HIS122 4.9 7.0 1.0
HD1 A:HIS120 4.9 8.7 1.0
HE2 A:HIS122 4.9 10.7 1.0
HD1 A:HIS189 4.9 9.7 1.0

Zinc binding site 2 out of 2 in 7aez

Go back to Zinc Binding Sites List in 7aez
Zinc binding site 2 out of 2 in the Crystal Structure of the Metallo-Beta-Lactamase Ndm-7 with 407


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 the Metallo-Beta-Lactamase Ndm-7 with 407 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn303

b:9.6
occ:0.75
O A:HOH435 2.0 8.7 1.0
OD2 A:ASP124 2.1 10.1 1.0
NE2 A:HIS250 2.1 8.8 1.0
O27 A:R8W301 2.2 7.1 0.8
SG A:CYS208 2.3 8.2 1.0
H101 A:R8W301 2.8 9.8 0.8
C25 A:R8W301 3.1 7.5 0.8
CG A:ASP124 3.1 8.3 1.0
CE1 A:HIS250 3.1 8.6 1.0
CD2 A:HIS250 3.1 8.9 1.0
N10 A:R8W301 3.1 8.2 0.8
HB3 A:CYS208 3.2 9.2 1.0
CB A:CYS208 3.3 7.7 1.0
HD2 A:HIS250 3.3 10.7 1.0
HE1 A:HIS250 3.3 10.4 1.0
C11 A:R8W301 3.3 7.3 0.8
OD1 A:ASP124 3.4 8.7 1.0
ZN A:ZN302 3.5 7.7 0.9
HB3 A:SER249 3.9 10.1 1.0
H021 A:R8W301 4.0 12.5 0.8
HB2 A:SER249 4.0 10.1 1.0
HG A:SER249 4.1 10.5 1.0
HE1 A:HIS120 4.1 8.8 1.0
HE3 A:LYS125 4.1 10.9 1.0
NE2 A:HIS189 4.2 8.0 1.0
O26 A:R8W301 4.2 8.4 0.8
ND1 A:HIS250 4.2 8.6 1.0
C09 A:R8W301 4.2 8.6 0.8
HE1 A:HIS189 4.2 9.7 1.0
CG A:HIS250 4.2 8.8 1.0
CB A:SER249 4.4 8.4 1.0
CE1 A:HIS189 4.4 8.1 1.0
CB A:ASP124 4.4 7.7 1.0
C12 A:R8W301 4.5 8.4 0.8
HG2 A:LYS125 4.5 9.5 1.0
HB2 A:ASP124 4.5 9.2 1.0
HD2 A:LYS125 4.6 10.2 1.0
CA A:CYS208 4.6 7.8 1.0
NE2 A:HIS120 4.6 7.5 1.0
HZ1 A:LYS211 4.6 12.1 1.0
HB3 A:ASP124 4.7 9.2 1.0
H141 A:R8W301 4.7 12.9 0.8
CE1 A:HIS120 4.7 7.3 1.0
OG A:SER249 4.7 8.8 1.0
C02 A:R8W301 4.9 10.4 0.8
C08 A:R8W301 5.0 8.4 0.8
CE A:LYS125 5.0 9.1 1.0
HD1 A:HIS250 5.0 10.3 1.0
C04 A:R8W301 5.0 9.3 0.8

Reference:

J.Brem, C.J.Schofield. Not Available Yet To Be Published.
Page generated: Fri Nov 5 16:44:35 2021

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