Sodium in PDB 1jry: Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina

All present enzymatic activity of Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina:
1.3.99.1;

The structure of Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina, PDB code: 1jry was solved by C.G.Mowat, R.Moysey, C.S.Miles, D.Leys, M.K.Doherty, P.Taylor, M.D.Walkinshaw, G.A.Reid, S.K.Chapman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.00
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	76.612, 86.916, 88.985, 90.00, 104.48, 90.00
R / Rfree (%)	15.7 / 23.6

The structure of Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina also contains other interesting chemical elements:

Iron

(Fe)

8 atoms

The binding sites of Sodium atom in the Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina (pdb code 1jry). 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 ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina, PDB code: 1jry:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina


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 ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1810 b:11.0 occ:1.00 O A:GLU534 2.4 4.7 1.0 O A:THR506 2.5 4.2 1.0 O A:HOH1067 2.5 4.8 1.0 O A:THR536 2.5 4.8 1.0 O A:GLY508 2.6 4.5 1.0 O A:MET507 3.1 5.8 1.0 C A:MET507 3.2 5.2 1.0 O A:HOH1018 3.3 7.1 1.0 C A:GLU534 3.4 6.1 1.0 C A:GLY508 3.4 6.7 1.0 C A:THR506 3.6 6.3 1.0 C A:THR536 3.6 7.7 1.0 N A:GLY508 3.7 3.9 1.0 CA A:MET507 3.7 5.4 1.0 CA A:GLU534 3.9 4.7 1.0 CG A:GLU534 4.0 6.8 1.0 O A:HOH1193 4.0 9.7 1.0 CA A:GLY508 4.1 5.8 1.0 N A:THR536 4.1 6.8 1.0 O A:HOH1256 4.1 10.2 1.0 N A:MET507 4.1 7.2 1.0 C A:VAL535 4.3 5.5 1.0 N A:GLY509 4.3 6.0 1.0 N A:VAL535 4.4 4.0 1.0 CA A:THR536 4.5 7.4 1.0 CA A:GLY537 4.5 8.4 1.0 CA A:GLY509 4.5 6.8 1.0 N A:GLY537 4.5 6.0 1.0 CB A:GLU534 4.5 6.3 1.0 OG1 A:THR506 4.6 7.7 1.0 NE2 A:HIS505 4.6 5.8 1.0 O A:VAL535 4.6 5.2 1.0 CA A:VAL535 4.7 4.8 1.0 CA A:THR506 4.7 5.7 1.0 O A:GLY533 4.8 6.1 1.0 CB A:THR506 5.0 6.8 1.0

Sodium binding site 2 out of 2 in the Crystal Structure of ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina


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 ARG402LYS Mutant Flavocytochrome C3 From Shewanella Frigidimarina within 5.0Å range: probe atom residue distance (Å) B Occ B:Na2810 b:11.5 occ:1.00 O B:GLU534 2.5 5.1 1.0 O B:THR536 2.5 4.3 1.0 O B:HOH2847 2.5 4.3 1.0 O B:THR506 2.5 4.5 1.0 O B:GLY508 2.6 5.3 1.0 O B:MET507 3.0 5.8 1.0 C B:MET507 3.3 6.8 1.0 C B:GLU534 3.4 5.5 1.0 C B:GLY508 3.4 7.6 1.0 O B:HOH2833 3.5 4.6 1.0 C B:THR536 3.6 7.7 1.0 C B:THR506 3.6 6.8 1.0 CA B:MET507 3.7 7.5 1.0 N B:GLY508 3.8 5.3 1.0 CA B:GLU534 3.8 4.4 1.0 CG B:GLU534 4.0 5.4 1.0 O B:HOH2889 4.0 8.0 1.0 O B:HOH2925 4.1 9.0 1.0 N B:THR536 4.1 5.1 1.0 CA B:GLY508 4.1 6.3 1.0 N B:MET507 4.2 5.8 1.0 C B:VAL535 4.3 4.9 1.0 N B:GLY509 4.4 7.7 1.0 N B:VAL535 4.4 2.3 1.0 CA B:GLY537 4.5 8.2 1.0 N B:GLY537 4.5 8.1 1.0 CB B:GLU534 4.5 5.0 1.0 CA B:THR536 4.5 7.5 1.0 CA B:GLY509 4.6 8.0 1.0 NE2 B:HIS505 4.6 5.6 1.0 OG1 B:THR506 4.6 7.6 1.0 O B:GLY533 4.7 3.9 1.0 CA B:VAL535 4.7 4.2 1.0 O B:VAL535 4.8 5.5 1.0 CA B:THR506 4.8 5.8 1.0

C.G.Mowat, R.Moysey, C.S.Miles, D.Leys, M.K.Doherty, P.Taylor, M.D.Walkinshaw, G.A.Reid, S.K.Chapman. Kinetic and Crystallographic Analysis of the Key Active Site Acid/Base Arginine in A Soluble Fumarate Reductase. Biochemistry V. 40 12292 2001.
ISSN: ISSN 0006-2960
PubMed: 11591148
DOI: 10.1021/BI011360H