Sodium in PDB 8h2b: Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans

Protein crystallography data

The structure of Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans, PDB code: 8h2b was solved by S.Brott, U.T.Bornscheuer, K.H.Nam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.58 / 2.10
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 90.569, 92.67, 154.118, 90, 90, 90
R / Rfree (%) 16.1 / 20.5

Other elements in 8h2b:

The structure of Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans also contains other interesting chemical elements:

Zinc (Zn) 8 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans (pdb code 8h2b). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans, PDB code: 8h2b:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 8h2b

Go back to Sodium Binding Sites List in 8h2b
Sodium binding site 1 out of 2 in the Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans


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 Alcohol Dehydrogenase From Zobellia Galactanivorans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na404

b:17.4
occ:1.00
 O D:ILE209 2.7 21.9 1.0
O A:ILE209 2.7 22.1 1.0
O D:HOH601 2.8 41.0 1.0
O A:GLU208 3.0 23.0 1.0
O D:GLU208 3.0 28.3 1.0
C D:ILE209 3.3 22.7 1.0
O D:HOH605 3.3 39.0 1.0
C A:ILE209 3.3 19.8 1.0
O A:HOH612 3.4 50.7 1.0
CA A:ILE209 3.6 23.2 1.0
CA D:ILE209 3.6 25.4 1.0
C A:GLU208 4.0 23.1 1.0
C D:GLU208 4.0 29.2 1.0
N A:GLY211 4.0 26.5 1.0
N D:GLY211 4.1 25.2 1.0
N A:ILE209 4.3 25.3 1.0
CA A:GLY211 4.3 19.9 1.0
N D:ILE209 4.3 25.6 1.0
N D:SER210 4.3 20.8 1.0
CA D:GLY211 4.4 25.0 1.0
N A:SER210 4.4 22.5 1.0
C D:SER210 4.6 21.2 1.0
C A:SER210 4.7 21.9 1.0
O A:HOH503 4.7 43.2 1.0
OD2 A:ASP336 4.8 57.8 1.0
CB A:ILE209 4.9 22.5 1.0
CA D:SER210 4.9 23.4 1.0
CB D:ILE209 4.9 22.2 1.0
CA A:SER210 5.0 23.4 1.0

Sodium binding site 2 out of 2 in 8h2b

Go back to Sodium Binding Sites List in 8h2b
Sodium binding site 2 out of 2 in the Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans


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 Alcohol Dehydrogenase From Zobellia Galactanivorans within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Na404

b:12.6
occ:1.00
 O B:ILE209 2.7 19.4 1.0
O C:ILE209 2.7 23.1 1.0
O B:GLU208 2.9 20.2 1.0
O C:GLU208 3.0 21.1 1.0
O B:HOH614 3.0 41.5 1.0
C B:ILE209 3.3 21.6 1.0
C C:ILE209 3.4 23.1 1.0
CA B:ILE209 3.6 19.4 1.0
CA C:ILE209 3.8 22.8 1.0
C B:GLU208 3.9 18.2 1.0
C C:GLU208 4.0 23.1 1.0
N C:GLY211 4.0 15.5 1.0
N B:GLY211 4.1 21.6 1.0
N B:ILE209 4.2 18.6 1.0
CA C:GLY211 4.3 15.5 1.0
N B:SER210 4.4 17.7 1.0
N C:ILE209 4.4 21.9 1.0
N C:SER210 4.4 17.7 1.0
CA B:GLY211 4.4 19.6 1.0
C C:SER210 4.6 17.3 1.0
C B:SER210 4.7 20.8 1.0
OE2 C:GLU208 4.8 63.4 1.0
CB B:ILE209 4.9 19.5 1.0
O B:HOH526 4.9 36.2 1.0
CA C:SER210 4.9 18.4 1.0
CA B:SER210 5.0 17.9 1.0

Reference:

S.Brott, U.T.Bornscheuer, K.H.Nam. Crystal Structure of Alcohol Dehydrogenase From Zobellia Galactanivorans To Be Published.
Page generated: Wed Oct 9 12:08:12 2024

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