Atomistry » Sodium » PDB 1z2u-1zud » 1zkp
Atomistry »
  Sodium »
    PDB 1z2u-1zud »
      1zkp »

Sodium 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:

Zinc (Zn) 8 atoms
Chlorine (Cl) 1 atom

Sodium Binding Sites:

The binding sites of Sodium 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 Sodium atom.
In total 4 binding sites of Sodium 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 Sodium binding site number: 1; 2; 3; 4;

Sodium binding site 1 out of 4 in 1zkp

Go back to Sodium Binding Sites List in 1zkp
Sodium binding site 1 out of 4 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 Sodium with other atoms in the Na 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:Na247

b:26.3
occ:1.00
O A:HOH414 2.3 32.1 1.0
O A:HOH415 2.3 37.7 1.0
O A:HOH274 2.4 15.6 1.0
O A:HOH358 2.4 31.9 1.0
O A:HOH295 2.5 23.5 1.0
O A:HOH319 2.6 27.9 1.0
NH1 A:ARG30 3.9 20.9 1.0
O A:HOH413 4.0 42.8 1.0
O A:HOH416 4.1 31.4 1.0
O A:GLY28 4.2 17.7 1.0
OD1 A:ASP53 4.5 19.2 1.0
O A:ASP51 4.5 14.6 1.0
OD1 A:ASP51 4.5 22.2 1.0
OD2 A:ASP53 4.5 16.7 1.0
O A:HOH401 4.7 31.1 1.0
O A:HOH402 4.8 35.4 1.0
CA A:ASP51 4.8 14.9 1.0
CG A:ASP53 5.0 15.8 1.0

Sodium binding site 2 out of 4 in 1zkp

Go back to Sodium Binding Sites List in 1zkp
Sodium binding site 2 out of 4 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 Sodium with other atoms in the Na 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
B:Na248

b:25.5
occ:1.00
O B:HOH274 2.2 17.2 1.0
O B:HOH466 2.4 34.3 1.0
O B:HOH469 2.4 32.6 1.0
O B:HOH346 2.4 23.4 1.0
O B:HOH437 2.9 34.0 1.0
O B:HOH314 2.9 26.5 1.0
NA B:NA249 3.7 22.7 1.0
OD2 B:ASP53 3.9 19.7 1.0
NH1 B:ARG30 4.0 16.7 1.0
OD1 B:ASP53 4.1 17.0 1.0
O B:ASP51 4.3 13.7 1.0
O B:GLY28 4.4 15.6 1.0
CG B:ASP53 4.4 16.2 1.0
O B:HOH265 4.6 19.1 1.0
CA B:ASP51 4.7 13.9 1.0
O B:HOH551 4.7 41.0 1.0
OD1 B:ASP51 4.7 19.8 1.0
C B:ASP51 4.9 13.1 1.0

Sodium binding site 3 out of 4 in 1zkp

Go back to Sodium Binding Sites List in 1zkp
Sodium binding site 3 out of 4 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 Sodium with other atoms in the Na 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:Na249

b:22.7
occ:1.00
O B:HOH469 2.3 32.6 1.0
O B:HOH265 2.4 19.1 1.0
O B:HOH346 2.4 23.4 1.0
NA B:NA248 3.7 25.5 1.0
O B:HOH438 3.7 26.6 1.0
O B:HOH403 3.9 21.9 1.0
OD2 B:ASP53 4.3 19.7 1.0
O B:GLY28 4.5 15.6 1.0
OD1 B:ASP53 4.6 17.0 1.0
CG B:ASP53 4.7 16.2 1.0
O B:HOH274 4.7 17.2 1.0
O B:HOH588 5.0 40.4 1.0

Sodium binding site 4 out of 4 in 1zkp

Go back to Sodium Binding Sites List in 1zkp
Sodium binding site 4 out of 4 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 Sodium with other atoms in the Na 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
C:Na247

b:21.9
occ:1.00
O C:HOH388 2.4 26.4 1.0
O C:HOH439 2.4 29.4 1.0
O C:HOH315 2.4 22.1 1.0
O C:HOH265 2.4 14.7 1.0
O C:HOH327 2.4 25.2 1.0
O C:HOH270 2.5 21.9 1.0
O C:HOH502 3.3 30.9 1.0
NH1 C:ARG30 3.8 19.8 1.0
O C:HOH297 4.2 25.9 1.0
O C:GLY28 4.3 15.0 1.0
O C:HOH371 4.3 30.2 1.0
OD1 C:ASP53 4.4 18.6 1.0
O C:HOH403 4.4 27.1 1.0
O C:ASP51 4.5 14.6 1.0
O C:HOH390 4.5 27.3 1.0
OD2 C:ASP53 4.5 16.3 1.0
OD1 C:ASP51 4.5 18.8 1.0
O C:HOH427 4.6 32.3 1.0
CA C:ASP51 4.9 14.9 1.0
CG C:ASP53 4.9 15.2 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: Tue Dec 15 05:44:34 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy