Sodium in PDB 8p3m: The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus

The structure of The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus, PDB code: 8p3m was solved by L.A.Varfolomeeva, K.M.Polyakov, A.S.Komolov, T.V.Rakitina, N.I.Dergousova, P.V.Dorovatovskii, K.M.Boyko, T.V.Tikhonova, V.O.Popov, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.12 / 2.07
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	98.15, 142.42, 294.4, 90, 90.07, 90
R / Rfree (%)	17.9 / 23.4

The structure of The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus also contains other interesting chemical elements:

Copper

(Cu)

32 atoms

The binding sites of Sodium atom in the The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus (pdb code 8p3m). 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 Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus, PDB code: 8p3m:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus within 5.0Å range: probe atom residue distance (Å) B Occ P:Na705 b:27.7 occ:0.50 OD1 P:ASP412 2.0 67.9 1.0 CG P:ASP412 3.2 55.4 1.0 ND1 P:HIS411 3.7 36.2 1.0 OD2 P:ASP412 3.8 45.7 1.0 CB P:HIS411 4.0 24.5 1.0 CG P:HIS411 4.3 31.4 1.0 N P:ASP412 4.3 35.1 1.0 CB P:ASP412 4.4 30.9 1.0 C P:HIS411 4.5 32.3 1.0 CA P:ASP412 4.6 36.2 1.0 CE1 P:HIS411 4.8 35.6 1.0 CA P:HIS411 4.8 30.4 1.0 O P:HIS411 4.9 33.9 1.0

Sodium binding site 2 out of 2 in the The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The Structure of Thiocyanate Dehydrogenase Mutant Form with Lys 281 Replaced By Ala From Thioalkalivibrio Paradoxus within 5.0Å range: probe atom residue distance (Å) B Occ V:Na604 b:25.0 occ:0.50 OD1 V:ASP412 2.2 56.3 1.0 CG V:ASP412 3.5 54.6 1.0 ND1 V:HIS411 3.6 36.9 1.0 CB V:HIS411 4.1 25.9 1.0 CG V:HIS411 4.3 27.7 1.0 OD2 V:ASP412 4.3 41.0 1.0 N V:ASP412 4.5 30.9 1.0 CB V:ASP412 4.6 36.2 1.0 CA V:ASP412 4.6 32.3 1.0 CE1 V:HIS411 4.7 31.3 1.0 C V:HIS411 4.7 33.4 1.0 CA V:HIS411 4.9 28.4 1.0

L.A.Varfolomeeva, K.M.Polyakov, A.S.Komolov, T.V.Rakitina, N.I.Dergousova, P.V.Dorovatovskii, K.M.Boyko, T.V.Tikhonova, V.O.Popov. Improvement of Diffraction Properties of Thiocyanate Dehydrogenase Crystals To Be Published.