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Sodium in PDB 4fus: The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase

Enzymatic activity of The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase

All present enzymatic activity of The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase:
3.2.1.4;

Protein crystallography data

The structure of The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase, PDB code: 4fus was solved by P.M.Alahuhta, V.V.Lunin, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.00 / 1.75
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 61.690, 78.389, 67.075, 90.00, 98.94, 90.00
R / Rfree (%) 15.4 / 20.5

Other elements in 4fus:

The structure of The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase also contains other interesting chemical elements:

Calcium (Ca) 1 atom

Sodium Binding Sites:

The binding sites of Sodium atom in the The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase (pdb code 4fus). 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 X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase, PDB code: 4fus:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 4fus

Go back to Sodium Binding Sites List in 4fus
Sodium binding site 1 out of 2 in the The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na827

b:14.9
occ:1.00
O A:GLU113 2.4 13.5 1.0
O A:ILE117 2.4 9.5 1.0
O A:HOH911 2.5 12.2 1.0
O A:HOH1036 2.5 27.9 1.0
O A:HOH1309 2.8 36.2 1.0
O A:GLU114 3.3 9.7 1.0
CG2 A:THR119 3.3 13.2 1.0
C A:GLU113 3.6 11.7 1.0
C A:ILE117 3.6 7.4 1.0
C A:GLU114 3.7 9.3 1.0
N A:THR119 3.8 10.8 1.0
CA A:GLU114 3.9 10.6 1.0
CE A:MET122 3.9 10.8 0.5
N A:GLU114 4.2 10.1 1.0
C A:PRO118 4.2 10.0 1.0
OH A:TYR202 4.3 5.9 1.0
CA A:THR119 4.3 11.3 1.0
N A:ILE117 4.4 6.0 1.0
CB A:THR119 4.4 12.2 1.0
N A:HIS115 4.4 7.2 1.0
CA A:ILE117 4.4 7.0 1.0
CA A:PRO118 4.5 9.1 1.0
N A:PRO118 4.5 9.0 1.0
O A:HOH1285 4.6 37.4 1.0
O A:HOH1266 4.7 47.8 1.0
CB A:ILE117 4.7 7.0 1.0
CA A:GLU113 4.8 10.5 1.0
O A:PRO118 4.8 9.1 1.0
N A:ILE116 4.9 6.0 1.0
O A:HOH1138 4.9 43.5 1.0
SD A:MET122 4.9 13.8 0.5
C A:HIS115 5.0 6.6 1.0

Sodium binding site 2 out of 2 in 4fus

Go back to Sodium Binding Sites List in 4fus
Sodium binding site 2 out of 2 in the The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of The X-Ray Structure of Hahella Chejuensis Family 48 Glycosyl Hydrolase within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na828

b:23.5
occ:1.00
OD2 A:ASP441 2.3 20.9 1.0
OE1 A:GLN211 2.4 22.5 1.0
O A:GLN211 2.4 17.4 1.0
OE2 A:GLU216 2.5 19.0 1.0
O A:HOH1127 2.8 33.1 1.0
CG A:ASP441 3.2 21.7 1.0
CD A:GLU216 3.3 18.2 1.0
OE1 A:GLU216 3.3 18.5 1.0
C A:GLN211 3.5 17.2 1.0
CB A:ASP441 3.5 21.8 1.0
CD A:GLN211 3.5 23.1 1.0
CB A:GLN211 3.8 21.6 1.0
CA A:GLN211 3.9 22.7 1.0
CG A:GLN211 4.3 25.0 1.0
NH1 A:ARG589 4.3 20.0 1.0
N A:SER213 4.3 14.2 1.0
OD1 A:ASP441 4.4 23.7 1.0
CB A:SER213 4.5 13.5 1.0
OG A:SER213 4.5 14.2 1.0
NE2 A:GLN211 4.5 23.7 1.0
N A:GLU212 4.6 18.3 1.0
CG A:GLU216 4.7 18.1 1.0
CA A:GLU212 4.9 15.6 1.0

Reference:

L.O.Sukharnikov, M.Alahuhta, R.Brunecky, A.Upadhyay, M.E.Himmel, V.V.Lunin, I.B.Zhulin. Sequence, Structure, and Evolution of Cellulases in Glycoside Hydrolase Family 48. J.Biol.Chem. V. 287 41068 2012.
ISSN: ISSN 0021-9258
PubMed: 23055526
DOI: 10.1074/JBC.M112.405720
Page generated: Tue Dec 15 06:41:06 2020

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