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Zinc in PDB 1zkp: 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease

Protein crystallography data

The structure of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease, PDB code: 1zkp was solved by J.S.Brunzelle, G.Minasov, L.Shuvalova, F.R.Collart, W.F.Anderson, Midwestcenter For Structural Genomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.50
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 73.375, 91.190, 78.466, 90.00, 115.31, 90.00
R / Rfree (%) 14.7 / 18

Other elements in 1zkp:

The structure of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease also contains other interesting chemical elements:

Chlorine (Cl) 1 atom
Sodium (Na) 4 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease (pdb code 1zkp). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease, PDB code: 1zkp:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Zinc binding site 1 out of 8 in 1zkp

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Zinc binding site 1 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn245

b:13.8
occ:1.00
O A:HOH260 2.0 11.4 1.0
ND1 A:HIS61 2.1 12.6 1.0
NE2 A:HIS134 2.1 13.5 1.0
NE2 A:HIS59 2.1 14.3 1.0
OD2 A:ASP155 2.5 14.7 1.0
CE1 A:HIS61 3.0 15.1 1.0
CD2 A:HIS59 3.0 11.6 1.0
CD2 A:HIS134 3.1 12.8 1.0
CE1 A:HIS134 3.1 14.8 1.0
CG A:HIS61 3.1 12.7 1.0
CE1 A:HIS59 3.2 11.8 1.0
ZN A:ZN246 3.3 12.9 1.0
CB A:HIS61 3.5 11.8 1.0
CG A:ASP155 3.6 14.3 1.0
O A:HOH280 3.7 22.8 1.0
CB A:ASP155 4.0 12.6 1.0
NE2 A:HIS64 4.0 12.4 1.0
NE2 A:HIS61 4.2 15.1 1.0
CD2 A:HIS64 4.2 9.4 1.0
ND1 A:HIS134 4.2 13.5 1.0
CG A:HIS134 4.2 14.0 1.0
CG A:HIS59 4.2 9.4 1.0
CD2 A:HIS61 4.2 13.2 1.0
ND1 A:HIS59 4.3 9.7 1.0
OD1 A:ASP63 4.3 11.1 1.0
O A:HOH419 4.4 34.0 1.0
OD1 A:ASP155 4.6 16.7 1.0
OD2 A:ASP63 4.9 12.2 1.0
CA A:HIS61 5.0 11.4 1.0

Zinc binding site 2 out of 8 in 1zkp

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Zinc binding site 2 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn246

b:12.9
occ:1.00
O A:HOH260 1.9 11.4 1.0
NE2 A:HIS211 2.0 11.2 1.0
NE2 A:HIS64 2.1 12.4 1.0
OD2 A:ASP155 2.1 14.7 1.0
OD2 A:ASP63 2.4 12.2 1.0
CD2 A:HIS64 2.9 9.4 1.0
CD2 A:HIS211 3.0 13.4 1.0
CG A:ASP155 3.0 14.3 1.0
CE1 A:HIS211 3.0 12.4 1.0
CE1 A:HIS64 3.1 11.0 1.0
OD1 A:ASP155 3.2 16.7 1.0
CG A:ASP63 3.3 12.2 1.0
ZN A:ZN245 3.3 13.8 1.0
OD1 A:ASP63 3.4 11.1 1.0
O A:HOH280 3.7 22.8 1.0
O A:HOH259 3.9 13.7 1.0
NE2 A:HIS59 4.1 14.3 1.0
ND1 A:HIS211 4.1 12.5 1.0
CG A:HIS211 4.1 10.8 1.0
CE1 A:HIS59 4.1 11.8 1.0
CG A:HIS64 4.1 10.2 1.0
ND1 A:HIS64 4.2 10.5 1.0
CB A:ASP155 4.4 12.6 1.0
CB A:ASP63 4.6 10.0 1.0
N A:GLY11 4.8 11.0 1.0
NE2 A:HIS134 4.8 13.5 1.0
CE1 A:HIS189 4.8 20.4 1.0
OG A:SER20 4.8 13.6 1.0
ND1 A:HIS61 5.0 12.6 1.0
O A:HOH520 5.0 40.3 1.0

Zinc binding site 3 out of 8 in 1zkp

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Zinc binding site 3 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn245

b:13.7
occ:1.00
O B:HOH275 2.0 13.0 1.0
ND1 B:HIS61 2.1 13.9 1.0
NE2 B:HIS59 2.1 11.4 1.0
NE2 B:HIS134 2.1 14.7 1.0
OD2 B:ASP155 2.5 13.9 1.0
CE1 B:HIS61 3.0 14.1 1.0
CD2 B:HIS59 3.0 13.3 1.0
CD2 B:HIS134 3.1 13.2 1.0
CG B:HIS61 3.1 13.5 1.0
CE1 B:HIS134 3.1 12.5 1.0
CE1 B:HIS59 3.2 9.7 1.0
ZN B:ZN246 3.3 12.0 1.0
CB B:HIS61 3.5 12.0 1.0
CG B:ASP155 3.5 15.0 1.0
O B:HOH390 3.7 22.4 1.0
CB B:ASP155 4.0 14.3 1.0
NE2 B:HIS64 4.1 10.2 1.0
NE2 B:HIS61 4.2 14.0 1.0
CD2 B:HIS64 4.2 10.5 1.0
CG B:HIS59 4.2 11.6 1.0
ND1 B:HIS134 4.2 12.7 1.0
CD2 B:HIS61 4.2 13.5 1.0
ND1 B:HIS59 4.2 10.5 1.0
CG B:HIS134 4.2 11.9 1.0
OD1 B:ASP63 4.3 12.1 1.0
OD1 B:ASP155 4.6 15.2 1.0
O B:HOH522 4.7 33.7 0.8
OD2 B:ASP63 4.9 11.5 1.0
CA B:HIS61 4.9 11.6 1.0

Zinc binding site 4 out of 8 in 1zkp

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Zinc binding site 4 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn246

b:12.0
occ:1.00
O B:HOH275 1.9 13.0 1.0
NE2 B:HIS211 2.0 8.9 1.0
NE2 B:HIS64 2.1 10.2 1.0
OD2 B:ASP155 2.1 13.9 1.0
OD2 B:ASP63 2.4 11.5 1.0
CD2 B:HIS64 3.0 10.5 1.0
CE1 B:HIS211 3.0 11.5 1.0
CD2 B:HIS211 3.0 11.2 1.0
CG B:ASP155 3.0 15.0 1.0
CE1 B:HIS64 3.1 10.7 1.0
OD1 B:ASP155 3.2 15.2 1.0
CG B:ASP63 3.2 10.7 1.0
ZN B:ZN245 3.3 13.7 1.0
OD1 B:ASP63 3.4 12.1 1.0
O B:HOH390 3.7 22.4 1.0
O B:HOH253 3.9 12.2 1.0
NE2 B:HIS59 4.1 11.4 1.0
ND1 B:HIS211 4.1 11.2 1.0
CE1 B:HIS59 4.1 9.7 1.0
CG B:HIS211 4.1 11.9 1.0
CG B:HIS64 4.1 10.3 1.0
ND1 B:HIS64 4.2 10.6 1.0
CB B:ASP155 4.4 14.3 1.0
CB B:ASP63 4.6 10.4 1.0
CE1 B:HIS189 4.8 18.6 1.0
NE2 B:HIS134 4.8 14.7 1.0
N B:GLY11 4.8 10.9 1.0
OG B:SER20 4.9 12.1 1.0
ND1 B:HIS61 5.0 13.9 1.0

Zinc binding site 5 out of 8 in 1zkp

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Zinc binding site 5 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn245

b:12.5
occ:1.00
O C:HOH254 2.0 10.9 1.0
ND1 C:HIS61 2.1 11.8 1.0
NE2 C:HIS134 2.1 11.9 1.0
NE2 C:HIS59 2.1 12.1 1.0
OD2 C:ASP155 2.5 13.9 1.0
CD2 C:HIS59 3.0 12.4 1.0
CE1 C:HIS61 3.1 13.9 1.0
CD2 C:HIS134 3.1 10.5 1.0
CE1 C:HIS134 3.1 10.4 1.0
CG C:HIS61 3.1 11.8 1.0
CE1 C:HIS59 3.2 9.2 1.0
ZN C:ZN246 3.3 11.2 1.0
O C:HOH300 3.5 21.2 1.0
CB C:HIS61 3.5 10.3 1.0
CG C:ASP155 3.6 14.3 1.0
CB C:ASP155 4.0 11.0 1.0
NE2 C:HIS64 4.0 11.2 1.0
CD2 C:HIS64 4.1 7.1 1.0
NE2 C:HIS61 4.2 14.1 1.0
ND1 C:HIS134 4.2 11.4 1.0
CG C:HIS59 4.2 11.1 1.0
CG C:HIS134 4.2 11.1 1.0
ND1 C:HIS59 4.2 9.8 1.0
CD2 C:HIS61 4.2 13.2 1.0
O C:HOH508 4.3 35.6 0.5
OD1 C:ASP63 4.3 11.4 1.0
O C:HOH445 4.3 38.1 1.0
OD1 C:ASP155 4.6 15.7 1.0
OD2 C:ASP63 4.9 10.8 1.0
CA C:HIS61 5.0 8.9 1.0

Zinc binding site 6 out of 8 in 1zkp

Go back to Zinc Binding Sites List in 1zkp
Zinc binding site 6 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Zn246

b:11.2
occ:1.00
O C:HOH254 1.9 10.9 1.0
NE2 C:HIS211 2.0 8.8 1.0
NE2 C:HIS64 2.0 11.2 1.0
OD2 C:ASP155 2.1 13.9 1.0
OD2 C:ASP63 2.4 10.8 1.0
CD2 C:HIS64 3.0 7.1 1.0
CD2 C:HIS211 3.0 11.5 1.0
CE1 C:HIS211 3.0 10.9 1.0
CG C:ASP155 3.0 14.3 1.0
CE1 C:HIS64 3.1 9.4 1.0
OD1 C:ASP155 3.2 15.7 1.0
CG C:ASP63 3.2 11.0 1.0
ZN C:ZN245 3.3 12.5 1.0
OD1 C:ASP63 3.4 11.4 1.0
O C:HOH300 3.7 21.2 1.0
O C:HOH249 3.9 11.1 1.0
NE2 C:HIS59 4.0 12.1 1.0
CE1 C:HIS59 4.1 9.2 1.0
ND1 C:HIS211 4.1 9.1 1.0
CG C:HIS64 4.1 7.8 1.0
CG C:HIS211 4.1 10.4 1.0
ND1 C:HIS64 4.2 8.6 1.0
O C:HOH508 4.3 35.6 0.5
CB C:ASP155 4.4 11.0 1.0
CB C:ASP63 4.6 10.2 1.0
NE2 C:HIS134 4.8 11.9 1.0
CE1 C:HIS189 4.8 16.3 1.0
N C:GLY11 4.8 11.0 1.0
OG C:SER20 4.8 12.2 1.0
ND1 C:HIS61 5.0 11.8 1.0

Zinc binding site 7 out of 8 in 1zkp

Go back to Zinc Binding Sites List in 1zkp
Zinc binding site 7 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn245

b:14.8
occ:1.00
O D:HOH258 2.0 11.1 1.0
NE2 D:HIS134 2.1 14.4 1.0
ND1 D:HIS61 2.1 15.5 1.0
NE2 D:HIS59 2.2 12.7 1.0
OD2 D:ASP155 2.6 16.2 1.0
CE1 D:HIS61 3.1 15.5 1.0
CE1 D:HIS134 3.1 15.2 1.0
CD2 D:HIS134 3.1 13.8 1.0
CD2 D:HIS59 3.1 11.7 1.0
CG D:HIS61 3.1 13.2 1.0
CE1 D:HIS59 3.2 11.5 1.0
ZN D:ZN246 3.3 13.0 1.0
CB D:HIS61 3.5 12.3 1.0
CG D:ASP155 3.6 16.5 1.0
O D:HOH299 3.7 23.5 1.0
CB D:ASP155 4.0 13.3 1.0
NE2 D:HIS64 4.0 11.8 1.0
CD2 D:HIS64 4.2 9.6 1.0
ND1 D:HIS134 4.2 15.6 1.0
NE2 D:HIS61 4.2 15.2 1.0
CG D:HIS134 4.2 14.9 1.0
CD2 D:HIS61 4.2 13.9 1.0
CG D:HIS59 4.3 11.7 1.0
O D:HOH485 4.3 30.1 1.0
ND1 D:HIS59 4.3 11.4 1.0
OD1 D:ASP63 4.3 11.6 1.0
OD1 D:ASP155 4.6 18.3 1.0
OD2 D:ASP63 4.9 11.8 1.0
CA D:HIS61 4.9 11.7 1.0
CE1 D:HIS64 5.0 9.9 1.0

Zinc binding site 8 out of 8 in 1zkp

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Zinc binding site 8 out of 8 in the 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 8 of 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn246

b:13.0
occ:1.00
O D:HOH258 1.9 11.1 1.0
NE2 D:HIS64 2.0 11.8 1.0
NE2 D:HIS211 2.0 10.9 1.0
OD2 D:ASP155 2.1 16.2 1.0
OD2 D:ASP63 2.4 11.8 1.0
CD2 D:HIS64 3.0 9.6 1.0
CD2 D:HIS211 3.0 13.4 1.0
CG D:ASP155 3.0 16.5 1.0
CE1 D:HIS211 3.0 12.7 1.0
CE1 D:HIS64 3.1 9.9 1.0
OD1 D:ASP155 3.2 18.3 1.0
CG D:ASP63 3.3 10.4 1.0
ZN D:ZN245 3.3 14.8 1.0
OD1 D:ASP63 3.4 11.6 1.0
O D:HOH299 3.7 23.5 1.0
O D:HOH249 3.9 13.0 1.0
NE2 D:HIS59 4.1 12.7 1.0
ND1 D:HIS211 4.1 12.0 1.0
CE1 D:HIS59 4.1 11.5 1.0
CG D:HIS64 4.1 9.3 1.0
CG D:HIS211 4.1 10.8 1.0
ND1 D:HIS64 4.2 11.3 1.0
CB D:ASP155 4.4 13.3 1.0
CB D:ASP63 4.6 10.1 1.0
CE1 D:HIS189 4.7 20.9 1.0
NE2 D:HIS134 4.8 14.4 1.0
OG D:SER20 4.8 12.3 1.0
N D:GLY11 4.8 11.2 1.0
ND1 D:HIS61 5.0 15.5 1.0

Reference:

J.S.Brunzelle, G.Minasov, L.Shuvalova, F.R.Collart, W.F.Anderson, Midwest Center For Structural Genomics (Mcsg). 1.5A Resolution Crystal Structure of A Metallo Beta Lactamase Family Protein, the Elac Homolgue of Bacillus Anthracis, A Putative Ribonuclease To Be Published.
Page generated: Wed Dec 16 03:15:49 2020

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