Sodium in PDB 6fop: Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A

The structure of Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A, PDB code: 6fop was solved by M.A.S.C.Correia, A.L.Carvalho, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.15 / 1.40
Space group	I 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	61.917, 139.033, 197.909, 90.00, 90.00, 90.00
R / Rfree (%)	10.8 / 13.3

The structure of Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A also contains other interesting chemical elements:

Nickel	(Ni)	2 atoms
Magnesium	(Mg)	4 atoms
Calcium	(Ca)	3 atoms
Chlorine	(Cl)	4 atoms

The binding sites of Sodium atom in the Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A (pdb code 6fop). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A, PDB code: 6fop:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na820 b:21.1 occ:1.00 O A:HOH1443 2.9 30.9 1.0 N A:ASN593 3.2 15.8 1.0 OD1 A:ASN593 3.2 21.8 1.0 CA A:THR592 3.6 16.6 1.0 CB A:THR592 3.7 16.4 1.0 CA A:CYS629 3.7 17.6 1.0 C A:THR592 3.9 15.5 1.0 SG A:CYS629 3.9 17.7 1.0 CG A:ASN593 3.9 17.3 1.0 CB A:ASN593 4.1 16.5 1.0 O A:GLU628 4.1 19.8 1.0 CB A:CYS629 4.1 16.7 1.0 CA A:ASN593 4.2 15.6 1.0 CG2 A:THR592 4.4 17.3 1.0 N A:CYS629 4.5 17.5 1.0 O A:CYS629 4.5 21.4 1.0 C A:CYS629 4.6 18.4 1.0 C A:GLU628 4.6 17.4 1.0 OG1 A:THR592 4.9 16.1 1.0 N A:THR592 4.9 17.5 1.0

Sodium binding site 2 out of 2 in the Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Glycoside Hydrolase Family 81 From Clostridium Thermocellum (CTLAM81A), Mutant E515A within 5.0Å range: probe atom residue distance (Å) B Occ A:Na821 b:20.4 occ:1.00 O A:HOH1465 2.7 37.4 1.0 O A:HOH1254 3.0 14.6 1.0 N A:LYS669 3.2 13.0 1.0 O A:HOH1504 3.5 45.9 1.0 CA A:SER668 3.7 12.9 1.0 CG A:LYS669 3.8 15.2 1.0 CB A:SER668 3.9 13.3 1.0 CG A:PRO663 3.9 15.8 1.0 C A:SER668 4.0 12.2 1.0 CB A:LYS669 4.0 13.9 1.0 CA A:LYS669 4.2 13.2 1.0 CD A:LYS669 4.4 17.5 1.0 O A:HOH1003 4.6 43.9 1.0 CB A:LEU350 4.7 15.4 1.0 CD1 A:LEU350 4.7 17.1 1.0 CE A:LYS669 4.7 20.3 1.0 CB A:PRO663 4.8 14.8 1.0 O A:HOH1450 4.8 33.7 1.0 CD A:PRO663 4.8 15.0 1.0 O A:GLU667 4.9 14.9 1.0 N A:ALA670 4.9 12.3 1.0 CA A:LEU350 5.0 14.5 1.0 O A:TYR346 5.0 13.7 1.0

K.Kumar, M.A.S.Correia, V.M.R.Pires, A.Dhillon, K.Sharma, V.Rajulapati, C.M.G.A.Fontes, A.L.Carvalho, A.Goyal. Novel Insights Into the Degradation of Beta-1,3-Glucans By the Cellulosome of Clostridium Thermocellum Revealed By Structure and Function Studies of A Family 81 Glycoside Hydrolase. Int.J.Biol.Macromol. V. 117 890 2018.
ISSN: ISSN 0141-8130
PubMed: 29870811
DOI: 10.1016/J.IJBIOMAC.2018.06.003