Magnesium in PDB 6e36: The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas)

Protein crystallography data

The structure of The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas), PDB code: 6e36 was solved by N.Schormann, C.Deivanayagam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.65 / 1.70
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 71.038, 91.308, 71.893, 90.00, 116.78, 90.00
R / Rfree (%) 21.8 / 24.7

Magnesium Binding Sites:

The binding sites of Magnesium atom in the The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas) (pdb code 6e36). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas), PDB code: 6e36:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 6e36

Go back to Magnesium Binding Sites List in 6e36
Magnesium binding site 1 out of 2 in the The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg701

b:32.0
occ:1.00
O A:HOH928 2.0 40.9 1.0
OD1 A:ASN537 2.0 28.3 1.0
O A:HOH822 2.1 30.9 1.0
OG A:SER535 2.1 28.3 1.0
O A:SER535 2.1 24.7 1.0
OE1 A:GLU544 2.2 28.0 1.0
C A:SER535 3.1 26.0 1.0
CB A:SER535 3.2 27.3 1.0
CG A:ASN537 3.2 28.0 1.0
CD A:GLU544 3.3 27.0 1.0
CA A:SER535 3.6 27.1 1.0
OE2 A:GLU544 3.7 29.0 1.0
O A:HOH815 3.8 53.9 1.0
O A:HOH844 3.9 32.5 1.0
CB A:ASN537 4.0 27.6 1.0
N A:ASN537 4.0 26.5 1.0
OD2 A:ASP598 4.0 40.8 1.0
O A:HOH940 4.1 30.0 1.0
ND2 A:ASN537 4.2 28.2 1.0
N A:LEU536 4.3 25.9 1.0
O A:TRP649 4.4 27.3 1.0
CG A:GLU544 4.5 26.0 1.0
CA A:ASN537 4.6 27.6 1.0
O A:HOH951 4.6 42.5 1.0
CA A:LEU536 4.7 26.2 1.0
CB A:GLU544 4.8 25.2 1.0
C A:LEU536 4.8 26.3 1.0
O A:ALA534 4.9 27.3 1.0
CG A:ASP598 4.9 39.2 1.0
N A:SER535 5.0 27.5 1.0

Magnesium binding site 2 out of 2 in 6e36

Go back to Magnesium Binding Sites List in 6e36
Magnesium binding site 2 out of 2 in the The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg701

b:29.9
occ:1.00
OD1 B:ASN537 1.9 24.5 1.0
O B:HOH870 2.0 37.8 1.0
O B:HOH948 2.0 31.1 1.0
O B:SER535 2.1 24.4 1.0
OE1 B:GLU544 2.1 26.2 1.0
OG B:SER535 2.3 24.3 1.0
C B:SER535 3.1 24.4 1.0
CG B:ASN537 3.1 24.1 1.0
CB B:SER535 3.2 24.6 1.0
CD B:GLU544 3.2 26.5 1.0
CA B:SER535 3.7 24.9 1.0
OE2 B:GLU544 3.7 27.5 1.0
CB B:ASN537 3.9 23.7 1.0
N B:ASN537 3.9 23.4 1.0
O B:HOH980 4.0 34.6 1.0
O B:HOH911 4.1 27.6 1.0
OD2 B:ASP598 4.1 31.7 1.0
ND2 B:ASN537 4.2 23.9 1.0
N B:LEU536 4.2 23.9 1.0
O B:TRP649 4.3 24.0 1.0
CG B:GLU544 4.5 25.7 1.0
CA B:ASN537 4.5 23.9 1.0
CA B:LEU536 4.6 24.2 1.0
CB B:GLU544 4.7 25.2 1.0
C B:LEU536 4.8 23.7 1.0
O B:ALA534 4.9 27.7 1.0
N B:SER535 5.0 25.6 1.0

Reference:

N.Schormann, C.Deivanayagam. The Structure of the Variable Domain of Streptococcus Intermedius Antigen I/II (Pas) To Be Published.
Page generated: Mon Dec 14 22:37:54 2020

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