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Zinc in PDB 5aeb: Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.

Enzymatic activity of Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.

All present enzymatic activity of Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.:
3.5.2.6;

Protein crystallography data

The structure of Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome., PDB code: 5aeb was solved by P.Power, R.Herman, F.Kerff, F.Bouillenne, M.M.Rodriguez, M.Galleni, J.Handelsman, G.Gutkind, P.Charlier, E.Sauvage, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.93 / 2.10
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 47.148, 80.616, 78.288, 90.00, 98.83, 90.00
R / Rfree (%) 18.4 / 23.5

Other elements in 5aeb:

The structure of Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome. also contains other interesting chemical elements:

Cobalt (Co) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome. (pdb code 5aeb). 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 of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome., PDB code: 5aeb:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 5aeb

Go back to Zinc Binding Sites List in 5aeb
Zinc binding site 1 out of 4 in the Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.


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 Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1307

b:2.0
occ:0.70
 O A:HOH2041 1.9 4.1 1.0
O A:HOH2040 1.9 2.0 1.0
NE2 A:HIS121 1.9 19.6 1.0
OD2 A:ASP120 2.0 20.5 1.0
NE2 A:HIS263 2.0 20.1 1.0
CE1 A:HIS121 2.8 19.5 1.0
CD2 A:HIS263 3.0 19.8 1.0
CG A:ASP120 3.0 20.9 1.0
CD2 A:HIS121 3.0 19.5 1.0
CE1 A:HIS263 3.1 20.5 1.0
OD1 A:ASP120 3.4 20.9 1.0
O A:HOH2098 3.4 14.6 1.0
ZN A:ZN1308 3.6 4.3 0.7
OE1 A:GLN116 3.6 19.5 1.0
NE2 A:GLN116 3.9 19.2 1.0
O A:HOH2086 4.0 10.8 1.0
ND1 A:HIS121 4.0 19.3 1.0
CG A:HIS121 4.1 19.3 1.0
CG A:HIS263 4.2 20.1 1.0
CD A:GLN116 4.2 19.2 1.0
O A:HOH2045 4.2 17.4 1.0
ND1 A:HIS263 4.2 20.5 1.0
CB A:ASP120 4.3 20.9 1.0
NE2 A:HIS196 4.7 20.8 1.0

Zinc binding site 2 out of 4 in 5aeb

Go back to Zinc Binding Sites List in 5aeb
Zinc binding site 2 out of 4 in the Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.


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 Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome. within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1308

b:4.3
occ:0.70
 NE2 A:HIS196 1.8 20.8 1.0
OE1 A:GLN116 1.8 19.5 1.0
O A:HOH2040 1.9 2.0 1.0
ND1 A:HIS118 1.9 20.9 1.0
O A:HOH2045 2.7 17.4 1.0
CD2 A:HIS196 2.8 20.3 1.0
CE1 A:HIS118 2.8 21.2 1.0
CE1 A:HIS196 2.8 20.9 1.0
CD A:GLN116 2.9 19.2 1.0
CG A:HIS118 3.0 21.0 1.0
O A:HOH2041 3.2 4.1 1.0
CB A:HIS118 3.5 20.5 1.0
NE2 A:GLN116 3.6 19.2 1.0
ZN A:ZN1307 3.6 2.0 0.7
ND1 A:HIS196 3.9 20.5 1.0
CG A:GLN116 3.9 18.9 1.0
CG A:HIS196 3.9 20.1 1.0
NE2 A:HIS118 4.0 21.4 1.0
OD1 A:ASP120 4.1 20.9 1.0
CD2 A:HIS118 4.1 21.1 1.0
CD2 A:HIS121 4.2 19.5 1.0
NE2 A:HIS121 4.3 19.6 1.0
O A:HOH2098 4.3 14.6 1.0
O A:HOH2086 4.3 10.8 1.0
OD2 A:ASP120 4.6 20.5 1.0
CG2 A:VAL225 4.7 29.9 1.0
CG A:ASP120 4.8 20.9 1.0
CB A:GLN116 4.9 18.7 1.0
CA A:HIS118 4.9 20.3 1.0

Zinc binding site 3 out of 4 in 5aeb

Go back to Zinc Binding Sites List in 5aeb
Zinc binding site 3 out of 4 in the Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1307

b:2.0
occ:0.70
 OE1 B:GLN116 1.8 18.3 1.0
ND1 B:HIS118 1.8 18.9 1.0
NE2 B:HIS196 1.9 18.4 1.0
O B:HOH2050 2.0 3.4 1.0
O B:HOH2054 2.2 10.6 1.0
CE1 B:HIS118 2.7 19.2 1.0
CD B:GLN116 2.8 18.1 1.0
CD2 B:HIS196 2.9 18.0 1.0
CE1 B:HIS196 3.0 18.4 1.0
CG B:HIS118 3.0 18.8 1.0
O B:HOH2049 3.0 7.8 1.0
CB B:HIS118 3.5 18.6 1.0
NE2 B:GLN116 3.5 18.1 1.0
ZN B:ZN1308 3.7 2.0 0.7
O B:HOH2057 3.8 29.2 1.0
NE2 B:HIS118 3.9 19.3 1.0
CG B:GLN116 3.9 18.0 1.0
CD2 B:HIS118 4.0 19.1 1.0
CG B:HIS196 4.1 17.8 1.0
ND1 B:HIS196 4.1 18.1 1.0
OD1 B:ASP120 4.1 18.7 1.0
NE2 B:HIS121 4.1 18.2 1.0
CD2 B:HIS121 4.1 18.0 1.0
OD2 B:ASP120 4.4 18.8 1.0
O B:HOH2094 4.4 12.2 1.0
CG B:ASP120 4.7 18.8 1.0
CG1 B:VAL225 4.8 32.9 1.0
CA B:HIS118 4.9 18.5 1.0

Zinc binding site 4 out of 4 in 5aeb

Go back to Zinc Binding Sites List in 5aeb
Zinc binding site 4 out of 4 in the Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome.


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra- 12 From An Alaskan Soil Metagenome. within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1308

b:2.0
occ:0.70
 O B:HOH2049 1.8 7.8 1.0
OD2 B:ASP120 1.9 18.8 1.0
NE2 B:HIS121 1.9 18.2 1.0
O B:HOH2050 1.9 3.4 1.0
NE2 B:HIS263 2.0 18.9 1.0
O B:HOH2057 2.3 29.2 1.0
CE1 B:HIS121 2.7 18.1 1.0
CE1 B:HIS263 2.9 19.5 1.0
CG B:ASP120 2.9 18.8 1.0
CD2 B:HIS121 3.0 18.0 1.0
CD2 B:HIS263 3.0 18.5 1.0
OD1 B:ASP120 3.5 18.7 1.0
ZN B:ZN1307 3.7 2.0 0.7
OE1 B:GLN116 3.7 18.3 1.0
ND1 B:HIS121 3.8 17.9 1.0
O B:HOH2054 4.0 10.6 1.0
CG B:HIS121 4.0 17.8 1.0
O B:HOH2094 4.0 12.2 1.0
NE2 B:GLN116 4.1 18.1 1.0
ND1 B:HIS263 4.1 19.5 1.0
CG B:HIS263 4.2 18.9 1.0
CB B:ASP120 4.2 18.8 1.0
CD B:GLN116 4.3 18.1 1.0
NE2 B:HIS196 4.8 18.4 1.0

Reference:

M.M.Rodriguez, R.Herman, B.Ghiglione, F.Kerff, G.D'amico Gonzalez, F.Bouillenne, M.Galleni, J.Handelsman, P.Charlier, G.Gutkind, E.Sauvage, P.Power. Crystal Structure and Kinetic Analysis of the Class B3 Di-Zinc Metallo-Beta-Lactamase Lra-12 From An Alaskan Soil Metagenome. Plos One V. 12 82043 2017.
ISSN: ESSN 1932-6203
PubMed: 28750094
DOI: 10.1371/JOURNAL.PONE.0182043
Page generated: Sun Oct 27 12:56:47 2024

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