Atomistry » Sodium » PDB 8ihy-8jzi » 8ing
Atomistry »
  Sodium »
    PDB 8ihy-8jzi »
      8ing »

Sodium in PDB 8ing: Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution

Enzymatic activity of Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution

All present enzymatic activity of Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution:
1.11.1.7;

Protein crystallography data

The structure of Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution, PDB code: 8ing was solved by M.I.Ahmad, V.Viswanathan, M.Kumar, R.P.Singh, A.K.Singh, M.Sinha, P.Kaur, P.Sharma, S.Sharma, T.P.Singh, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 35.33 / 1.98
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.052, 80.342, 76.121, 90, 102.82, 90
R / Rfree (%) 18.3 / 23.4

Other elements in 8ing:

The structure of Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution also contains other interesting chemical elements:

Calcium (Ca) 1 atom
Iodine (I) 13 atoms
Iron (Fe) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution (pdb code 8ing). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution, PDB code: 8ing:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 8ing

Go back to Sodium Binding Sites List in 8ing
Sodium binding site 1 out of 2 in the Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na637

b:37.5
occ:1.00
 O2 A:NO2605 1.9 16.5 0.7
O A:HOH1007 1.9 42.9 1.0
O A:NO630 2.5 46.8 1.0
O A:HOH706 2.6 53.4 1.0
N A:NO2605 3.0 15.8 0.7
I A:IOD617 3.0 25.3 0.3
O A:HOH992 3.6 46.3 1.0
N A:NO630 3.7 42.1 1.0
CG A:GLU258 3.9 24.6 1.0
O1 A:NO2605 3.9 19.1 0.7
CZ A:PHE381 4.0 30.9 1.0
O A:HOH882 4.1 49.2 1.0
CB A:GLU258 4.2 24.6 1.0
CMA A:HEM626 4.3 26.0 1.0
CG A:ARG255 4.3 27.2 1.0
CB A:ARG255 4.5 27.8 1.0
C3A A:HEM626 4.7 24.6 1.0
CD A:ARG255 4.8 25.6 1.0
CE1 A:PHE381 4.8 31.0 1.0
CE2 A:PHE381 4.8 31.5 1.0

Sodium binding site 2 out of 2 in 8ing

Go back to Sodium Binding Sites List in 8ing
Sodium binding site 2 out of 2 in the Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na638

b:40.0
occ:1.00
 O2P A:SEP198 2.2 61.5 1.0
O3P A:SEP198 2.4 35.5 1.0
P A:SEP198 2.5 44.9 1.0
O1P A:SEP198 3.3 62.0 1.0
NH1 A:ARG202 3.9 83.8 1.0
OG A:SEP198 4.0 54.6 1.0
CD1 A:LEU199 4.2 37.1 1.0
CD A:ARG202 4.3 59.3 1.0
CZ A:ARG202 4.4 80.7 1.0
CA A:LEU199 4.5 35.2 1.0
CB A:LEU199 4.5 36.6 1.0
NE A:ARG202 4.6 69.5 1.0
N A:LEU199 4.7 38.0 1.0
CB A:SEP198 4.7 44.9 1.0
CG A:LEU199 5.0 38.6 1.0
C A:SEP198 5.0 43.1 1.0

Reference:

M.I.Ahmad, V.Viswanathan, M.Kumar, R.P.Singh, A.K.Singh, M.Sinha, P.Kaur, P.Sharma, S.Sharma, T.P.Singh. Structure of the Ternary Complex of Lactoperoxidase with Substrate Nitric Oxide (No) and Product Nitrite Ion (NO2) at 1.98 A Resolution To Be Published.
Page generated: Wed Oct 9 12:34:36 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy