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Sodium in PDB 3lp5: The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1

Protein crystallography data

The structure of The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1, PDB code: 3lp5 was solved by R.Zhang, H.Li, G.Cobb, A.Joachimiak, Midwest Center For Structuralgenomics (Mcsg), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 61.08 / 2.00
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 51.680, 122.154, 38.659, 90.00, 90.00, 90.00
R / Rfree (%) 17.5 / 23.6

Sodium Binding Sites:

The binding sites of Sodium atom in the The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1 (pdb code 3lp5). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1, PDB code: 3lp5:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 3lp5

Go back to Sodium Binding Sites List in 3lp5
Sodium binding site 1 out of 2 in the The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na250

b:60.1
occ:1.00
NE1 A:TRP82 4.3 11.5 1.0
CG A:LYS78 4.5 11.4 1.0
CE2 A:TRP82 4.7 13.2 1.0
CB A:LYS78 4.8 9.9 1.0
CG1 A:VAL81 4.8 12.7 1.0
CZ2 A:TRP82 4.8 12.3 1.0

Sodium binding site 2 out of 2 in 3lp5

Go back to Sodium Binding Sites List in 3lp5
Sodium binding site 2 out of 2 in the The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na251

b:32.7
occ:1.00
O A:LYS32 2.2 18.4 1.0
OG1 A:THR30 2.3 16.6 1.0
O A:HOH281 2.4 19.7 1.0
O A:GLY27 2.4 19.9 1.0
O A:THR30 2.5 19.1 1.0
C A:LYS32 3.3 19.9 1.0
C A:THR30 3.3 19.8 1.0
CB A:THR30 3.4 19.9 1.0
C A:GLY27 3.4 20.1 1.0
CA A:THR30 3.8 19.5 1.0
CA A:GLY27 3.9 19.0 1.0
CA A:LYS33 4.0 21.2 1.0
CD2 A:HIS34 4.0 18.3 1.0
N A:LYS33 4.1 19.6 1.0
N A:THR30 4.1 19.5 1.0
N A:HIS34 4.2 18.7 1.0
N A:LYS32 4.3 19.1 1.0
C A:PRO31 4.4 20.3 1.0
O A:LEU26 4.4 14.6 1.0
CA A:LYS32 4.4 20.4 1.0
N A:PRO31 4.4 20.7 1.0
C A:LYS33 4.5 20.3 1.0
O A:PRO31 4.6 21.1 1.0
N A:LYS28 4.6 20.7 1.0
CG2 A:THR30 4.7 19.5 1.0
O A:HOH292 4.8 14.6 1.0
CA A:PRO31 4.9 20.7 1.0
NE2 A:HIS34 4.9 19.6 1.0
O A:HOH287 4.9 40.3 1.0
CG A:HIS34 5.0 17.7 1.0
C A:LYS28 5.0 22.4 1.0

Reference:

R.Zhang, H.Li, G.Cobb, A.Joachimiak. The Crystal Structure of the Putative Cell Surface Hydrolase From Lactobacillus Plantarum WCFS1 To Be Published.
Page generated: Tue Dec 15 06:16:54 2020

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