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Sodium in PDB 5gnd: Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803

Protein crystallography data

The structure of Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803, PDB code: 5gnd was solved by W.Dong, J.Wang, L.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.92 / 2.50
Space group H 3 2
Cell size a, b, c (Å), α, β, γ (°) 135.219, 135.219, 113.754, 90.00, 90.00, 120.00
R / Rfree (%) 24.7 / 30.5

Other elements in 5gnd:

The structure of Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803 also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803 (pdb code 5gnd). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803, PDB code: 5gnd:

Sodium binding site 1 out of 1 in 5gnd

Go back to Sodium Binding Sites List in 5gnd
Sodium binding site 1 out of 1 in the Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of Deg Protease Hhoa From Synechocystis Sp. Pcc 6803 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na502

b:21.8
occ:0.33
O A:HOH642 3.3 13.4 1.0
O A:HOH635 4.5 18.0 1.0
O A:LEU203 4.5 18.9 1.0
CZ3 A:TRP187 4.6 15.6 1.0
CD2 A:LEU203 4.8 17.2 1.0

Reference:

W.Dong, J.Wang, G.Niu, S.Zhao, L.Liu. Crystal Structure of the Zinc-Bound Hhoa Protease From Synechocystis Sp. Pcc 6803 Febs Lett. V. 590 3435 2016.
ISSN: ISSN 0014-5793
PubMed: 27616292
DOI: 10.1002/1873-3468.12416
Page generated: Tue Dec 15 11:01:49 2020

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