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Sodium in PDB 6f9o: Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5

Enzymatic activity of Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5

All present enzymatic activity of Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5:
3.8.1.5;

Protein crystallography data

The structure of Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5, PDB code: 6f9o was solved by K.Tratsiak, T.Prudnikova, I.Drienovska, J.Damborsky, J.Brynda, P.Pachl, M.Kuty, R.Chaloupkova, I.Kuta Smatanova, P.Rezacova, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 20.00 / 1.05
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 41.332, 79.451, 43.489, 90.00, 94.98, 90.00
R / Rfree (%) 11 / 13.2

Other elements in 6f9o:

The structure of Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5 also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5 (pdb code 6f9o). 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 Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5, PDB code: 6f9o:

Sodium binding site 1 out of 1 in 6f9o

Go back to Sodium Binding Sites List in 6f9o
Sodium binding site 1 out of 1 in the Crystal Structure of Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5


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 Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na408

b:18.3
occ:1.00
 O A:HOH906 2.4 28.3 1.0
O A:HOH892 2.6 18.6 1.0
OG1 A:THR267 2.8 5.5 1.0
O A:HOH727 2.9 22.2 1.0
O A:GLN261 3.0 8.2 1.0
CD A:LYS268 3.4 9.1 0.6
CB A:THR267 3.7 5.3 1.0
CB A:GLN261 3.7 6.0 1.0
C A:THR267 3.7 5.3 1.0
C A:GLN261 3.7 6.6 1.0
N A:LYS268 3.7 6.0 0.6
O A:THR267 3.7 5.8 1.0
N A:LYS268 3.7 6.1 0.4
CA A:GLN261 3.8 5.9 1.0
NZ A:LYS268 3.8 10.6 0.4
CE A:LYS268 3.8 12.0 0.6
CG A:LYS268 3.8 8.2 0.6
CA A:LYS268 3.8 6.5 0.6
CG A:LYS268 3.9 9.4 0.4
CA A:LYS268 3.9 7.2 0.4
O A:HOH757 3.9 32.6 1.0
NZ A:LYS268 4.0 10.2 0.6
O A:HOH992 4.1 24.6 1.0
O A:HOH928 4.1 20.9 1.0
CG A:GLN261 4.2 6.0 1.0
NE2 A:HIS272 4.3 5.1 1.0
CA A:THR267 4.3 5.7 1.0
CB A:LYS268 4.4 7.6 0.6
CB A:LYS268 4.5 8.0 0.4
O A:HOH944 4.6 35.6 1.0
O A:HOH758 4.9 14.9 1.0
N A:LYS262 4.9 7.4 1.0
CE A:LYS268 4.9 10.3 0.4
CD2 A:HIS272 4.9 5.0 1.0
CG2 A:THR267 4.9 5.6 1.0
CD A:LYS268 5.0 10.0 0.4
O A:ILE264 5.0 6.2 1.0

Reference:

K.Tratsiak, T.Prudnikova, I.Drienovska, J.Damborsky, J.Brynda, P.Pachl, M.Kuty, R.Chaloupkova, P.Rezacova, I.Kuta Smatanova. Crystal Structure of the Cold-Adapted Haloalkane Dehalogenase Dpca From Psychrobacter Cryohalolentis K5. Acta Crystallogr.,Sect.F V. 75 324 2019.
ISSN: ESSN 2053-230X
PubMed: 31045561
DOI: 10.1107/S2053230X19002796
Page generated: Tue Oct 8 08:42:38 2024

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