Atomistry » Magnesium » PDB 6s43-6ses » 6s6z
Atomistry »
  Magnesium »
    PDB 6s43-6ses »
      6s6z »

Magnesium in PDB 6s6z: Structure of Beta-Galactosidase From Thermotoga Maritima

Enzymatic activity of Structure of Beta-Galactosidase From Thermotoga Maritima

All present enzymatic activity of Structure of Beta-Galactosidase From Thermotoga Maritima:
3.2.1.23;

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of Beta-Galactosidase From Thermotoga Maritima (pdb code 6s6z). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 8 binding sites of Magnesium where determined in the Structure of Beta-Galactosidase From Thermotoga Maritima, PDB code: 6s6z:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Magnesium binding site 1 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 1 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg3001

b:19.3
occ:1.00
 OE1 A:GLU586 2.2 46.9 1.0
O A:ALA511 2.2 34.0 1.0
OE1 A:GLU584 2.3 46.5 1.0
O A:GLY575 2.3 31.0 1.0
O A:HOH3236 2.4 37.2 1.0
O A:GLY513 2.5 31.7 1.0
CD A:GLU586 3.2 53.1 1.0
C A:ALA511 3.5 31.4 1.0
OE2 A:GLU586 3.6 47.6 1.0
C A:GLY575 3.6 33.5 1.0
C A:GLY513 3.6 38.0 1.0
CD A:GLU584 3.6 53.1 1.0
N A:GLY513 3.7 39.1 1.0
CA A:GLY513 4.1 37.1 1.0
CB A:ALA511 4.1 36.1 1.0
C A:MET512 4.2 39.5 1.0
CA A:ALA511 4.3 32.1 1.0
N A:MET512 4.4 33.3 1.0
OE2 A:GLU584 4.4 55.3 1.0
N A:GLY575 4.4 31.3 1.0
N A:VAL576 4.5 32.5 1.0
CG A:GLU586 4.5 44.7 1.0
CA A:MET512 4.5 36.9 1.0
CG A:GLU584 4.6 46.8 1.0
CA A:GLY575 4.6 32.9 1.0
O A:HOH3195 4.7 40.6 1.0
CA A:VAL576 4.7 34.4 1.0
N A:ASN514 4.7 36.2 1.0
C A:ASN574 4.8 38.7 1.0
OD1 A:ASP542 4.9 51.2 1.0
CE1 A:TYR883 4.9 48.1 1.0
CB A:GLU584 4.9 44.6 1.0
O A:MET512 4.9 39.1 1.0
O A:ASN574 5.0 42.8 1.0
O A:HOH3103 5.0 35.9 1.0

Magnesium binding site 2 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 2 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg3001

b:19.3
occ:1.00
 OE1 D:GLU586 2.2 46.9 1.0
O D:ALA511 2.2 34.0 1.0
OE1 D:GLU584 2.3 46.5 1.0
O D:GLY575 2.3 31.0 1.0
O D:HOH3236 2.4 37.2 1.0
O D:GLY513 2.5 31.7 1.0
CD D:GLU586 3.2 53.1 1.0
C D:ALA511 3.5 31.4 1.0
OE2 D:GLU586 3.6 47.6 1.0
C D:GLY575 3.6 33.5 1.0
C D:GLY513 3.6 38.0 1.0
CD D:GLU584 3.6 53.1 1.0
N D:GLY513 3.7 39.1 1.0
CA D:GLY513 4.1 37.1 1.0
CB D:ALA511 4.1 36.1 1.0
C D:MET512 4.2 39.5 1.0
CA D:ALA511 4.3 32.1 1.0
N D:MET512 4.4 33.3 1.0
OE2 D:GLU584 4.4 55.3 1.0
N D:GLY575 4.4 31.3 1.0
N D:VAL576 4.5 32.5 1.0
CG D:GLU586 4.5 44.7 1.0
CA D:MET512 4.5 36.9 1.0
CG D:GLU584 4.6 46.8 1.0
CA D:GLY575 4.6 32.9 1.0
O D:HOH3195 4.7 40.6 1.0
CA D:VAL576 4.7 34.4 1.0
N D:ASN514 4.7 36.2 1.0
C D:ASN574 4.8 38.7 1.0
OD1 D:ASP542 4.9 51.2 1.0
CE1 D:TYR883 4.9 48.1 1.0
CB D:GLU584 4.9 44.6 1.0
O D:MET512 4.9 39.1 1.0
O D:ASN574 5.0 42.8 1.0
O D:HOH3103 5.0 35.9 1.0

Magnesium binding site 3 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 3 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg3001

b:19.3
occ:1.00
 OE1 B:GLU586 2.2 46.9 1.0
O B:ALA511 2.2 34.0 1.0
OE1 B:GLU584 2.3 46.5 1.0
O B:GLY575 2.3 31.0 1.0
O B:HOH3236 2.4 37.2 1.0
O B:GLY513 2.5 31.7 1.0
CD B:GLU586 3.2 53.1 1.0
C B:ALA511 3.5 31.4 1.0
OE2 B:GLU586 3.6 47.6 1.0
C B:GLY575 3.6 33.5 1.0
C B:GLY513 3.6 38.0 1.0
CD B:GLU584 3.6 53.1 1.0
N B:GLY513 3.7 39.1 1.0
CA B:GLY513 4.1 37.1 1.0
CB B:ALA511 4.1 36.1 1.0
C B:MET512 4.2 39.5 1.0
CA B:ALA511 4.3 32.1 1.0
N B:MET512 4.4 33.3 1.0
OE2 B:GLU584 4.4 55.3 1.0
N B:GLY575 4.4 31.3 1.0
N B:VAL576 4.5 32.5 1.0
CG B:GLU586 4.5 44.7 1.0
CA B:MET512 4.5 36.9 1.0
CG B:GLU584 4.6 46.8 1.0
CA B:GLY575 4.6 32.9 1.0
O B:HOH3195 4.7 40.6 1.0
CA B:VAL576 4.7 34.4 1.0
N B:ASN514 4.7 36.2 1.0
C B:ASN574 4.8 38.7 1.0
OD1 B:ASP542 4.9 51.2 1.0
CE1 B:TYR883 4.9 48.1 1.0
CB B:GLU584 4.9 44.6 1.0
O B:MET512 4.9 39.1 1.0
O B:ASN574 5.0 42.8 1.0
O B:HOH3103 5.0 35.9 1.0

Magnesium binding site 4 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 4 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Mg3001

b:19.3
occ:1.00
 OE1 H:GLU586 2.2 46.9 1.0
O H:ALA511 2.2 34.0 1.0
OE1 H:GLU584 2.3 46.5 1.0
O H:GLY575 2.3 31.0 1.0
O H:HOH3236 2.4 37.2 1.0
O H:GLY513 2.5 31.7 1.0
CD H:GLU586 3.2 53.1 1.0
C H:ALA511 3.5 31.4 1.0
OE2 H:GLU586 3.6 47.6 1.0
C H:GLY575 3.6 33.5 1.0
C H:GLY513 3.6 38.0 1.0
CD H:GLU584 3.6 53.1 1.0
N H:GLY513 3.7 39.1 1.0
CA H:GLY513 4.1 37.1 1.0
CB H:ALA511 4.1 36.1 1.0
C H:MET512 4.2 39.5 1.0
CA H:ALA511 4.3 32.1 1.0
N H:MET512 4.4 33.3 1.0
OE2 H:GLU584 4.4 55.3 1.0
N H:GLY575 4.4 31.3 1.0
N H:VAL576 4.5 32.5 1.0
CG H:GLU586 4.5 44.7 1.0
CA H:MET512 4.5 36.9 1.0
CG H:GLU584 4.6 46.8 1.0
CA H:GLY575 4.6 32.9 1.0
O H:HOH3195 4.7 40.6 1.0
CA H:VAL576 4.7 34.4 1.0
N H:ASN514 4.7 36.2 1.0
C H:ASN574 4.8 38.7 1.0
OD1 H:ASP542 4.9 51.2 1.0
CE1 H:TYR883 4.9 48.1 1.0
CB H:GLU584 4.9 44.6 1.0
O H:MET512 4.9 39.1 1.0
O H:ASN574 5.0 42.8 1.0
O H:HOH3103 5.0 35.9 1.0

Magnesium binding site 5 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 5 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
F:Mg3001

b:19.3
occ:1.00
 OE1 F:GLU586 2.2 46.9 1.0
O F:ALA511 2.2 34.0 1.0
OE1 F:GLU584 2.3 46.5 1.0
O F:GLY575 2.3 31.0 1.0
O F:HOH3236 2.4 37.2 1.0
O F:GLY513 2.5 31.7 1.0
CD F:GLU586 3.2 53.1 1.0
C F:ALA511 3.5 31.4 1.0
OE2 F:GLU586 3.6 47.6 1.0
C F:GLY575 3.6 33.5 1.0
C F:GLY513 3.6 38.0 1.0
CD F:GLU584 3.6 53.1 1.0
N F:GLY513 3.7 39.1 1.0
CA F:GLY513 4.1 37.1 1.0
CB F:ALA511 4.1 36.1 1.0
C F:MET512 4.2 39.5 1.0
CA F:ALA511 4.3 32.1 1.0
N F:MET512 4.4 33.3 1.0
OE2 F:GLU584 4.4 55.3 1.0
N F:GLY575 4.4 31.3 1.0
N F:VAL576 4.5 32.5 1.0
CG F:GLU586 4.5 44.7 1.0
CA F:MET512 4.5 36.9 1.0
CG F:GLU584 4.6 46.8 1.0
CA F:GLY575 4.6 32.9 1.0
O F:HOH3195 4.7 40.6 1.0
CA F:VAL576 4.7 34.4 1.0
N F:ASN514 4.7 36.2 1.0
C F:ASN574 4.8 38.7 1.0
OD1 F:ASP542 4.9 51.2 1.0
CE1 F:TYR883 4.9 48.1 1.0
CB F:GLU584 4.9 44.6 1.0
O F:MET512 4.9 39.1 1.0
O F:ASN574 5.0 42.8 1.0
O F:HOH3103 5.0 35.9 1.0

Magnesium binding site 6 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 6 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Mg3001

b:19.3
occ:1.00
 OE1 G:GLU586 2.2 46.9 1.0
O G:ALA511 2.2 34.0 1.0
OE1 G:GLU584 2.3 46.5 1.0
O G:GLY575 2.3 31.0 1.0
O G:HOH3236 2.4 37.2 1.0
O G:GLY513 2.5 31.7 1.0
CD G:GLU586 3.2 53.1 1.0
C G:ALA511 3.5 31.4 1.0
OE2 G:GLU586 3.6 47.6 1.0
C G:GLY575 3.6 33.5 1.0
C G:GLY513 3.6 38.0 1.0
CD G:GLU584 3.6 53.1 1.0
N G:GLY513 3.7 39.1 1.0
CA G:GLY513 4.1 37.1 1.0
CB G:ALA511 4.1 36.1 1.0
C G:MET512 4.2 39.5 1.0
CA G:ALA511 4.3 32.1 1.0
N G:MET512 4.4 33.3 1.0
OE2 G:GLU584 4.4 55.3 1.0
N G:GLY575 4.4 31.3 1.0
N G:VAL576 4.5 32.5 1.0
CG G:GLU586 4.5 44.7 1.0
CA G:MET512 4.5 36.9 1.0
CG G:GLU584 4.6 46.8 1.0
CA G:GLY575 4.6 32.9 1.0
O G:HOH3195 4.7 40.6 1.0
CA G:VAL576 4.7 34.4 1.0
N G:ASN514 4.7 36.2 1.0
C G:ASN574 4.8 38.7 1.0
OD1 G:ASP542 4.9 51.2 1.0
CE1 G:TYR883 4.9 48.1 1.0
CB G:GLU584 4.9 44.6 1.0
O G:MET512 4.9 39.1 1.0
O G:ASN574 5.0 42.8 1.0
O G:HOH3103 5.0 35.9 1.0

Magnesium binding site 7 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 7 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
E:Mg3001

b:19.3
occ:1.00
 OE1 E:GLU586 2.2 46.9 1.0
O E:ALA511 2.2 34.0 1.0
OE1 E:GLU584 2.3 46.5 1.0
O E:GLY575 2.3 31.0 1.0
O E:HOH3236 2.4 37.2 1.0
O E:GLY513 2.5 31.7 1.0
CD E:GLU586 3.2 53.1 1.0
C E:ALA511 3.5 31.4 1.0
OE2 E:GLU586 3.6 47.6 1.0
C E:GLY575 3.6 33.5 1.0
C E:GLY513 3.6 38.0 1.0
CD E:GLU584 3.6 53.1 1.0
N E:GLY513 3.7 39.1 1.0
CA E:GLY513 4.1 37.1 1.0
CB E:ALA511 4.1 36.1 1.0
C E:MET512 4.2 39.5 1.0
CA E:ALA511 4.3 32.1 1.0
N E:MET512 4.4 33.3 1.0
OE2 E:GLU584 4.4 55.3 1.0
N E:GLY575 4.4 31.3 1.0
N E:VAL576 4.5 32.5 1.0
CG E:GLU586 4.5 44.7 1.0
CA E:MET512 4.5 36.9 1.0
CG E:GLU584 4.6 46.8 1.0
CA E:GLY575 4.6 32.9 1.0
O E:HOH3195 4.7 40.6 1.0
CA E:VAL576 4.7 34.4 1.0
N E:ASN514 4.7 36.2 1.0
C E:ASN574 4.8 38.7 1.0
OD1 E:ASP542 4.9 51.2 1.0
CE1 E:TYR883 4.9 48.1 1.0
CB E:GLU584 4.9 44.6 1.0
O E:MET512 4.9 39.1 1.0
O E:ASN574 5.0 42.8 1.0
O E:HOH3103 5.0 35.9 1.0

Magnesium binding site 8 out of 8 in 6s6z

Go back to Magnesium Binding Sites List in 6s6z
Magnesium binding site 8 out of 8 in the Structure of Beta-Galactosidase From Thermotoga Maritima


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Structure of Beta-Galactosidase From Thermotoga Maritima within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg3001

b:19.3
occ:1.00
 OE1 C:GLU586 2.2 46.9 1.0
O C:ALA511 2.2 34.0 1.0
OE1 C:GLU584 2.3 46.5 1.0
O C:GLY575 2.3 31.0 1.0
O C:HOH3236 2.4 37.2 1.0
O C:GLY513 2.5 31.7 1.0
CD C:GLU586 3.2 53.1 1.0
C C:ALA511 3.5 31.4 1.0
OE2 C:GLU586 3.6 47.6 1.0
C C:GLY575 3.6 33.5 1.0
C C:GLY513 3.6 38.0 1.0
CD C:GLU584 3.6 53.1 1.0
N C:GLY513 3.7 39.1 1.0
CA C:GLY513 4.1 37.1 1.0
CB C:ALA511 4.1 36.1 1.0
C C:MET512 4.2 39.5 1.0
CA C:ALA511 4.3 32.1 1.0
N C:MET512 4.4 33.3 1.0
OE2 C:GLU584 4.4 55.3 1.0
N C:GLY575 4.4 31.3 1.0
N C:VAL576 4.5 32.5 1.0
CG C:GLU586 4.5 44.7 1.0
CA C:MET512 4.5 36.9 1.0
CG C:GLU584 4.6 46.8 1.0
CA C:GLY575 4.6 32.9 1.0
O C:HOH3195 4.7 40.6 1.0
CA C:VAL576 4.7 34.4 1.0
N C:ASN514 4.7 36.2 1.0
C C:ASN574 4.8 38.7 1.0
OD1 C:ASP542 4.9 51.2 1.0
CE1 C:TYR883 4.9 48.1 1.0
CB C:GLU584 4.9 44.6 1.0
O C:MET512 4.9 39.1 1.0
O C:ASN574 5.0 42.8 1.0
O C:HOH3103 5.0 35.9 1.0

Reference:

S.Miguez Amil, E.Jimenez-Ortega, M.Ramirez-Escudero, D.Talens-Perales, J.Marin-Navarro, J.Polaina, J.Sanz-Aparicio, R.Fernandez-Leiro. The Cryo-Em Structure Ofthermotoga Maritimabeta-Galactosidase: Quaternary Structure Guides Protein Engineering. Acs Chem.Biol. V. 15 179 2020.
ISSN: ESSN 1554-8937
PubMed: 31874027
DOI: 10.1021/ACSCHEMBIO.9B00752
Page generated: Tue Oct 1 17:47:20 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy