Atomistry » Sodium » PDB 4b1a-4bkr » 4bax
Atomistry »
  Sodium »
    PDB 4b1a-4bkr »
      4bax »

Sodium in PDB 4bax: Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor

Enzymatic activity of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor

All present enzymatic activity of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor:
6.3.1.2;

Protein crystallography data

The structure of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor, PDB code: 4bax was solved by K.Zeth, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.996 / 2.55
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 97.120, 113.000, 194.440, 90.00, 98.55, 90.00
R / Rfree (%) 20.6 / 23.58

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor (pdb code 4bax). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 8 binding sites of Sodium where determined in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor, PDB code: 4bax:
Jump to Sodium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Sodium binding site 1 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 1 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1350

b:42.6
occ:1.00
 OD2 A:ASP158 3.3 34.3 1.0
O A:PHE216 3.9 28.9 1.0
OD1 A:ASP158 3.9 34.1 1.0
CB A:PHE216 4.0 28.1 1.0
CG A:ASP158 4.0 33.8 1.0
CG1 A:VAL218 4.2 38.7 1.0
CD2 A:PHE216 4.2 26.8 1.0
CG2 A:VAL159 4.5 15.4 1.0
CG A:PHE216 4.6 27.4 1.0
C A:PHE216 4.8 29.3 1.0
CA A:PHE216 4.8 29.4 1.0

Sodium binding site 2 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 2 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na1351

b:45.6
occ:1.00
 O A:HOH2007 3.7 35.6 1.0
NZ A:LYS24 3.8 32.9 1.0
CZ A:TYR210 3.9 24.3 1.0
O B:HOH2049 4.1 39.7 1.0
CE1 A:TYR210 4.1 24.4 1.0
O B:VAL149 4.1 26.2 1.0
O A:HOH2008 4.2 41.2 1.0
CE2 A:TYR210 4.2 23.9 1.0
OE1 B:GLU153 4.3 35.3 1.0
OH A:TYR210 4.3 24.7 1.0
O A:HOH2081 4.4 36.5 1.0
CD1 A:TYR210 4.5 24.4 1.0
O B:HOH2048 4.5 34.0 1.0
CD2 A:TYR210 4.5 24.2 1.0
CG A:TYR210 4.7 24.5 1.0
O A:HOH2078 4.9 32.8 1.0
O A:HOH2080 4.9 16.0 1.0
CE A:LYS24 4.9 33.0 1.0
CG1 B:VAL149 5.0 9.6 1.0

Sodium binding site 3 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 3 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na1350

b:37.3
occ:1.00
 OD2 B:ASP158 3.5 29.6 1.0
OD1 B:ASP158 3.6 30.0 1.0
CG B:ASP158 4.0 29.7 1.0
CG1 B:VAL218 4.2 30.1 1.0
CG2 B:VAL159 4.4 24.5 1.0
O B:PHE216 4.8 32.2 1.0
CB B:PHE216 4.8 30.8 1.0
CA B:GLY156 4.8 27.7 1.0
CD2 B:LEU131 4.9 24.3 1.0
CD2 B:PHE216 5.0 29.9 1.0

Sodium binding site 4 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 4 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 4 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na1000

b:34.5
occ:1.00
 O C:HOH2012 3.6 22.4 1.0
O D:HOH2063 3.9 31.6 1.0
O D:VAL149 3.9 26.0 1.0
CZ C:TYR210 3.9 21.3 1.0
CE1 C:TYR210 4.0 21.5 1.0
NZ C:LYS24 4.0 31.1 1.0
CE2 C:TYR210 4.1 21.1 1.0
OE1 D:GLU153 4.2 33.8 1.0
O C:HOH2004 4.3 38.1 1.0
O C:HOH2097 4.3 28.4 1.0
CD1 C:TYR210 4.3 22.0 1.0
O D:HOH2062 4.3 29.6 1.0
CD2 C:TYR210 4.3 21.6 1.0
O C:HOH2013 4.3 42.5 1.0
OH C:TYR210 4.3 21.3 1.0
CG C:TYR210 4.4 22.3 1.0
CG1 D:VAL149 4.5 24.0 1.0
O D:HOH2064 4.6 28.4 1.0
O C:HOH2098 4.7 29.7 1.0
C D:VAL149 4.9 25.2 1.0
O C:HOH2094 4.9 12.5 1.0

Sodium binding site 5 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 5 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 5 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Na1350

b:35.0
occ:1.00
 OD2 D:ASP158 3.3 35.4 1.0
OD1 D:ASP158 3.5 35.6 1.0
CG D:ASP158 3.9 35.6 1.0
CG1 D:VAL218 4.1 33.2 1.0
O D:HOH2052 4.2 36.4 1.0
O D:PHE216 4.5 31.0 1.0
CG2 D:VAL159 4.5 24.1 1.0
CB D:PHE216 4.5 31.8 1.0
CD2 D:PHE216 4.7 32.1 1.0

Sodium binding site 6 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 6 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 6 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Na1350

b:39.1
occ:1.00
 OG E:SER241 3.8 39.4 1.0
CB E:TYR316 4.0 44.2 1.0
CB E:PRO192 4.2 49.5 1.0
O E:ASN239 4.2 35.6 1.0
CB E:ASN239 4.3 37.2 1.0
CG E:TYR316 4.3 44.0 1.0
O E:VAL115 4.3 36.2 1.0
C E:ASN239 4.3 36.4 1.0
CB E:SER241 4.4 40.4 1.0
N E:SER241 4.4 40.5 1.0
N E:PHE240 4.4 37.2 1.0
CG1 E:VAL115 4.4 37.0 1.0
C E:PHE240 4.5 39.6 1.0
CA E:PHE240 4.6 38.2 1.0
C E:VAL115 4.6 36.4 1.0
CD1 E:TYR316 4.7 44.1 1.0
CB E:VAL115 4.8 37.6 1.0
N E:GLY117 4.8 34.1 1.0
CD2 E:TYR316 4.8 43.6 1.0
CG E:PRO192 4.9 49.5 1.0
C E:PHE116 4.9 34.3 1.0
CA E:ASN239 5.0 36.3 1.0

Sodium binding site 7 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 7 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 7 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Na1000

b:43.2
occ:1.00
 NZ J:LYS24 3.6 33.8 1.0
O J:HOH2012 3.7 32.7 1.0
CZ J:TYR210 4.0 26.1 1.0
O F:VAL149 4.1 29.1 1.0
CE1 J:TYR210 4.2 26.2 1.0
CE2 J:TYR210 4.2 25.9 1.0
CD1 J:TYR210 4.4 26.1 1.0
CD2 J:TYR210 4.4 25.8 1.0
OE1 F:GLU153 4.5 37.5 1.0
CG J:TYR210 4.5 25.8 1.0
OH J:TYR210 4.5 26.3 1.0
CG1 F:VAL149 4.6 26.8 1.0
CE J:LYS24 4.6 33.4 1.0
O J:HOH2075 4.8 26.9 1.0
O F:HOH2062 4.8 31.8 1.0

Sodium binding site 8 out of 8 in 4bax

Go back to Sodium Binding Sites List in 4bax
Sodium binding site 8 out of 8 in the Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 8 of Crystal Structure of Glutamine Synthetase From Streptomyces Coelicolor within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Na1000

b:44.7
occ:1.00
 NZ G:LYS24 3.6 34.4 1.0
CZ G:TYR210 4.1 28.0 1.0
O G:HOH2012 4.1 36.1 1.0
OE1 H:GLU153 4.2 36.7 1.0
O H:VAL149 4.2 29.2 1.0
CE1 G:TYR210 4.3 27.6 1.0
CE2 G:TYR210 4.3 28.0 1.0
OH G:TYR210 4.4 28.1 1.0
O G:HOH2070 4.5 27.8 1.0
CE G:LYS24 4.7 34.5 1.0
CD1 G:TYR210 4.7 27.6 1.0
CD2 G:TYR210 4.7 27.9 1.0
O G:HOH2003 4.9 26.5 1.0
CG G:TYR210 4.9 27.7 1.0

Reference:

K.Zeth, K.Zeth. N/A N/A.
Page generated: Mon Oct 7 14:29:35 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy