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Sodium in PDB 5axb: Crystal Structure of Mouse Sahh Complexed with Noraristeromycin

Enzymatic activity of Crystal Structure of Mouse Sahh Complexed with Noraristeromycin

All present enzymatic activity of Crystal Structure of Mouse Sahh Complexed with Noraristeromycin:
3.3.1.1;

Protein crystallography data

The structure of Crystal Structure of Mouse Sahh Complexed with Noraristeromycin, PDB code: 5axb was solved by Y.Kusakabe, M.Ishihara, N.Tanaka, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.65
Space group I 2 2 2
Cell size a, b, c (Å), α, β, γ (°) 100.442, 104.459, 176.744, 90.00, 90.00, 90.00
R / Rfree (%) 15.4 / 18.1

Sodium Binding Sites:

The binding sites of Sodium atom in the Crystal Structure of Mouse Sahh Complexed with Noraristeromycin (pdb code 5axb). 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 Mouse Sahh Complexed with Noraristeromycin, PDB code: 5axb:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in 5axb

Go back to Sodium Binding Sites List in 5axb
Sodium binding site 1 out of 2 in the Crystal Structure of Mouse Sahh Complexed with Noraristeromycin


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 Mouse Sahh Complexed with Noraristeromycin within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Na503

b:26.9
occ:1.00
OE2 A:GLU59 2.2 19.5 1.0
O A:HOH767 2.3 24.7 1.0
O A:HOH660 2.3 17.3 1.0
O C:HOH658 2.4 18.1 1.0
O A:HOH1016 2.4 26.7 1.0
CD A:GLU59 3.1 16.8 1.0
OE1 A:GLU59 3.4 16.3 1.0
CB C:ASP208 3.7 15.9 1.0
CG C:ASP208 4.3 21.1 1.0
O A:HOH803 4.3 16.2 1.0
O A:HIS353 4.3 14.2 1.0
O A:HOH941 4.3 31.6 1.0
N A:SER355 4.4 13.5 1.0
O C:HOH610 4.4 30.8 1.0
O C:ASP208 4.4 16.1 1.0
CB A:VAL58 4.4 14.5 1.0
CG A:GLU59 4.5 16.0 1.0
OD2 C:ASP208 4.5 22.5 1.0
O A:MET351 4.6 15.3 1.0
CA A:PRO354 4.7 14.3 1.0
CG1 A:VAL58 4.7 17.3 1.0
O A:HOH793 4.7 17.9 1.0
CB A:MET351 4.8 15.7 1.0
CB A:SER355 4.8 16.4 1.0
C A:PRO354 4.9 14.1 1.0
OD1 C:ASP208 5.0 22.7 1.0
CA C:ASP208 5.0 15.9 1.0

Sodium binding site 2 out of 2 in 5axb

Go back to Sodium Binding Sites List in 5axb
Sodium binding site 2 out of 2 in the Crystal Structure of Mouse Sahh Complexed with Noraristeromycin


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 Mouse Sahh Complexed with Noraristeromycin within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Na503

b:24.4
occ:1.00
O C:HOH711 2.3 18.6 1.0
OE2 C:GLU59 2.3 19.9 1.0
O A:HOH688 2.3 19.1 1.0
O C:HOH723 2.4 24.7 1.0
O C:HOH994 2.4 28.3 1.0
CD C:GLU59 3.2 15.8 1.0
OE1 C:GLU59 3.4 14.7 1.0
CB A:ASP208 3.7 15.8 1.0
O A:HOH610 4.3 33.9 1.0
CG A:ASP208 4.3 20.4 1.0
O C:HOH792 4.3 18.6 1.0
N C:SER355 4.3 14.2 1.0
O C:HIS353 4.3 15.1 1.0
O A:ASP208 4.4 15.8 1.0
O C:HOH941 4.4 30.7 1.0
OD2 A:ASP208 4.5 23.5 1.0
CB C:VAL58 4.5 15.1 1.0
CG C:GLU59 4.6 15.1 1.0
O C:MET351 4.6 15.8 1.0
CA C:PRO354 4.6 15.3 1.0
O C:HOH812 4.7 17.3 1.0
CG1 C:VAL58 4.8 17.7 1.0
CB C:SER355 4.8 15.1 1.0
CB C:MET351 4.8 16.1 1.0
C C:PRO354 4.8 15.6 1.0
OD1 A:ASP208 4.9 22.6 1.0
CA A:ASP208 5.0 15.9 1.0
CA C:SER355 5.0 15.6 1.0

Reference:

Y.Kusakabe, M.Ishihara, N.Tanaka. Crystal Structure of Mouse Sahh Complexed with Noraristeromycin To Be Published.
Page generated: Tue Dec 15 10:23:41 2020

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