Atomistry » Magnesium » PDB 8xw7-8y9l » 8y0l
Atomistry »
  Magnesium »
    PDB 8xw7-8y9l »
      8y0l »

Magnesium in PDB 8y0l: Beta-Glucosidase From Thermoascus Aurantiacus

Enzymatic activity of Beta-Glucosidase From Thermoascus Aurantiacus

All present enzymatic activity of Beta-Glucosidase From Thermoascus Aurantiacus:
3.2.1.21;

Protein crystallography data

The structure of Beta-Glucosidase From Thermoascus Aurantiacus, PDB code: 8y0l was solved by C.Matsuzaki, T.Katayama, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.13 / 2.15
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 138.945, 149.752, 175.529, 90, 90, 90
R / Rfree (%) 16.8 / 20.1

Magnesium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 12;

Binding sites:

The binding sites of Magnesium atom in the Beta-Glucosidase From Thermoascus Aurantiacus (pdb code 8y0l). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 12 binding sites of Magnesium where determined in the Beta-Glucosidase From Thermoascus Aurantiacus, PDB code: 8y0l:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 1 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg901

b:21.6
occ:1.00
 O A:HOH1074 2.0 16.5 1.0
O D:HOH1584 2.0 20.6 1.0
O A:HOH1047 2.0 18.7 1.0
O A:HOH1148 2.1 14.9 1.0
O A:HOH1286 2.1 18.6 1.0
O A:HOH1270 2.2 19.7 1.0
OD2 A:ASP357 3.9 16.4 1.0
NZ D:LYS620 4.0 23.6 1.0
O A:GLU72 4.0 20.8 1.0
OE2 A:GLU367 4.1 27.0 1.0
O A:HOH1651 4.2 35.4 1.0
OE1 A:GLU367 4.4 26.5 1.0
OD1 A:ASP357 4.4 15.8 1.0
CD1 A:TRP359 4.5 17.2 1.0
CG A:ASP357 4.6 15.8 1.0
CD A:GLU367 4.7 27.0 1.0
CE D:LYS620 4.7 23.5 1.0
O A:HOH1767 4.7 27.2 1.0
C A:GLU72 4.8 20.8 1.0
O A:MET70 4.8 22.6 1.0

Magnesium binding site 2 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 2 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg902

b:15.1
occ:1.00
 O A:HOH1232 2.1 14.8 1.0
O A:HOH1172 2.1 11.9 1.0
O A:HOH1226 2.1 14.1 1.0
OD1 A:ASP273 2.1 12.9 1.0
OD2 A:ASP36 2.2 19.6 1.0
O A:HOH1419 2.2 13.1 1.0
CG A:ASP36 3.0 19.6 1.0
CG A:ASP273 3.1 12.9 1.0
OD1 A:ASP36 3.3 19.5 1.0
OD2 A:ASP273 3.5 13.1 1.0
NE2 A:GLN275 4.0 13.5 1.0
O A:HOH1136 4.1 11.3 1.0
O A:HOH1408 4.1 15.2 1.0
O A:HOH1038 4.1 9.6 1.0
O A:LYS269 4.2 12.8 1.0
O A:HOH1683 4.3 19.0 1.0
CB A:ASP273 4.3 12.9 1.0
O A:TRP34 4.4 15.4 1.0
CB A:ASP36 4.4 19.5 1.0
O A:HOH1586 4.7 20.9 1.0
O A:HOH1071 4.7 18.6 1.0
CA A:ASP273 4.7 12.8 1.0
N A:ASP36 4.9 18.6 1.0

Magnesium binding site 3 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 3 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg903

b:39.7
occ:1.00
 O A:HOH1188 2.1 28.6 1.0
O A:HOH1503 2.2 44.9 1.0
OE1 A:GLU131 2.3 13.2 1.0
NE2 A:HIS388 2.7 13.7 1.0
CD A:GLU131 3.2 13.1 1.0
CD2 A:HIS388 3.3 13.7 1.0
O A:HOH1588 3.4 43.7 1.0
O A:HOH1697 3.5 40.6 1.0
OE2 A:GLU131 3.6 13.4 1.0
OD1 A:ASP387 3.6 17.7 1.0
CE1 A:HIS388 3.9 13.7 1.0
CB A:ALA386 4.5 15.6 1.0
CG A:HIS388 4.5 13.7 1.0
CG A:GLU131 4.6 12.9 1.0
O A:HOH1205 4.8 42.0 1.0
ND1 A:HIS388 4.8 13.7 1.0
CG A:ASP387 4.8 17.4 1.0
O A:HOH1571 4.8 29.9 1.0
CB A:GLU131 4.9 12.7 1.0

Magnesium binding site 4 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 4 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg901

b:17.9
occ:1.00
 O B:HOH1283 2.0 16.4 1.0
OD2 B:ASP36 2.0 19.0 1.0
O B:HOH1336 2.1 13.1 1.0
O B:HOH1242 2.1 10.2 1.0
O B:HOH1147 2.1 13.8 1.0
OD1 B:ASP273 2.1 13.9 1.0
CG B:ASP36 3.0 19.1 1.0
CG B:ASP273 3.1 13.9 1.0
OD1 B:ASP36 3.3 19.1 1.0
OD2 B:ASP273 3.5 14.0 1.0
NE2 B:GLN275 3.8 14.5 1.0
O B:HOH1209 4.0 17.1 1.0
O B:HOH1403 4.2 21.1 1.0
O B:HOH1036 4.2 10.3 1.0
O B:HOH1643 4.2 14.8 1.0
O B:LYS269 4.3 14.9 1.0
CB B:ASP36 4.3 19.1 1.0
O B:HOH1533 4.4 17.8 1.0
O B:TRP34 4.4 16.7 1.0
CB B:ASP273 4.4 13.9 1.0
O B:HOH1420 4.7 25.4 1.0
CA B:ASP273 4.8 13.9 1.0
N B:ASP36 4.8 18.4 1.0
O B:HOH1230 4.8 43.6 1.0
CD B:GLN275 5.0 14.5 1.0

Magnesium binding site 5 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 5 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg902

b:29.3
occ:1.00
 O B:HOH1249 2.0 30.1 1.0
OE1 B:GLU131 2.1 13.6 1.0
O B:HOH1430 2.5 40.0 1.0
NE2 B:HIS388 2.5 14.2 1.0
CD2 B:HIS388 3.1 14.3 1.0
CD B:GLU131 3.1 13.3 1.0
OE2 B:GLU131 3.5 13.5 1.0
CE1 B:HIS388 3.6 14.2 1.0
OD1 B:ASP387 3.8 19.1 1.0
NZ B:LYS127 4.1 16.0 1.0
CG B:HIS388 4.4 14.3 1.0
CG B:GLU131 4.5 12.9 1.0
O B:HOH1525 4.5 27.8 1.0
ND1 B:HIS388 4.6 14.3 1.0
CB B:GLU131 4.7 12.7 1.0
CA B:ALA128 4.7 12.5 1.0
CB B:ALA386 4.8 15.9 1.0
CB B:ALA128 4.8 12.6 1.0
CG B:ASP387 4.9 18.4 1.0

Magnesium binding site 6 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 6 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg903

b:29.2
occ:1.00
 O B:HOH1244 1.9 24.4 1.0
O B:HOH1288 2.0 20.6 1.0
O C:HOH1573 2.0 30.6 1.0
O B:HOH1021 2.1 27.0 1.0
O B:HOH1171 2.1 25.0 1.0
O B:HOH1408 2.1 31.9 1.0
O B:GLU72 3.8 25.5 1.0
OD2 B:ASP357 3.9 17.0 1.0
OE2 B:GLU367 4.1 41.2 1.0
NZ C:LYS620 4.1 26.1 1.0
O B:HOH1578 4.2 38.4 1.0
OE1 B:GLU367 4.3 41.8 1.0
OD1 B:ASP357 4.4 16.1 1.0
CD1 B:TRP359 4.4 17.8 1.0
CE C:LYS620 4.5 25.5 1.0
OD2 C:ASP212 4.5 22.8 1.0
C B:GLU72 4.5 25.3 1.0
CG B:ASP357 4.6 16.2 1.0
CD B:GLU367 4.7 40.3 1.0
O B:MET70 4.7 27.9 1.0
O B:GLN71 4.7 28.8 1.0
O C:HOH1537 4.8 39.3 1.0
CA B:GLU72 4.9 26.3 1.0
OD1 C:ASP212 5.0 22.1 1.0

Magnesium binding site 7 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 7 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg901

b:23.1
occ:1.00
 O C:HOH1250 2.0 20.1 1.0
O C:HOH1379 2.0 20.1 1.0
O C:HOH1399 2.1 19.2 1.0
OD1 C:ASP273 2.1 17.6 1.0
O C:HOH1245 2.2 17.8 1.0
OD2 C:ASP36 2.2 30.0 1.0
CG C:ASP273 3.1 17.6 1.0
CG C:ASP36 3.4 29.8 1.0
OD2 C:ASP273 3.6 18.3 1.0
NE2 C:GLN275 3.8 17.2 1.0
O C:HOH1034 4.1 19.5 1.0
O C:HOH1207 4.1 34.9 1.0
O C:HOH1025 4.1 14.1 1.0
CB C:ASP36 4.2 29.1 1.0
O C:LYS269 4.3 18.2 1.0
OD1 C:ASP36 4.3 30.3 1.0
CB C:ASP273 4.4 17.4 1.0
O C:HOH1684 4.5 29.2 1.0
O C:TRP34 4.5 23.7 1.0
CA C:ASP273 4.7 17.2 1.0
N C:ASP36 4.7 27.3 1.0
O C:HOH1600 4.7 40.1 1.0
O C:HOH1003 4.7 23.8 1.0

Magnesium binding site 8 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 8 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg902

b:36.7
occ:1.00
 O C:HOH1464 2.0 34.1 1.0
O C:HOH1485 2.0 35.1 1.0
OE1 C:GLU131 2.0 15.6 1.0
NE2 C:HIS388 2.6 15.0 1.0
CD C:GLU131 3.1 15.4 1.0
CD2 C:HIS388 3.1 14.9 1.0
OE2 C:GLU131 3.4 15.6 1.0
O C:HOH1572 3.6 29.5 1.0
CE1 C:HIS388 3.8 15.0 1.0
OD1 C:ASP387 3.9 18.4 1.0
O C:HOH1394 4.4 33.2 1.0
CG C:HIS388 4.4 14.8 1.0
CG C:GLU131 4.4 15.1 1.0
CA C:ALA128 4.6 14.2 1.0
ND1 C:HIS388 4.7 15.0 1.0
CB C:GLU131 4.7 14.8 1.0
CB C:ALA128 4.8 14.1 1.0

Magnesium binding site 9 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 9 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Mg903

b:25.0
occ:1.00
 O C:HOH1019 1.9 18.6 1.0
O C:HOH1178 2.0 18.9 1.0
O B:HOH1611 2.0 19.1 1.0
O C:HOH1069 2.1 16.7 1.0
O C:HOH1124 2.1 24.2 1.0
O C:HOH1165 2.2 18.1 1.0
O C:GLU72 3.9 22.8 1.0
OE2 C:GLU367 4.0 26.7 1.0
OD2 C:ASP357 4.0 17.9 1.0
NZ B:LYS620 4.0 20.1 1.0
O C:HOH1630 4.2 36.9 1.0
OE1 C:GLU367 4.3 26.5 1.0
OD1 C:ASP357 4.4 17.4 1.0
O C:HOH1695 4.5 25.9 1.0
CD1 C:TRP359 4.5 16.3 1.0
CD C:GLU367 4.5 26.6 1.0
CE B:LYS620 4.6 19.9 1.0
CG C:ASP357 4.6 17.4 1.0
C C:GLU72 4.7 22.8 1.0
O C:HOH1306 4.7 42.1 1.0
O C:MET70 4.8 25.0 1.0
O B:HOH1628 4.9 32.2 1.0
O C:GLN71 4.9 25.3 1.0

Magnesium binding site 10 out of 12 in 8y0l

Go back to Magnesium Binding Sites List in 8y0l
Magnesium binding site 10 out of 12 in the Beta-Glucosidase From Thermoascus Aurantiacus


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Beta-Glucosidase From Thermoascus Aurantiacus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg901

b:26.4
occ:1.00
 O D:HOH1493 2.0 27.2 1.0
O D:HOH1428 2.1 17.7 1.0
OD2 D:ASP36 2.1 27.1 1.0
O D:HOH1352 2.1 22.7 1.0
OD1 D:ASP273 2.1 18.8 1.0
O D:HOH1319 2.2 26.8 1.0
CG D:ASP273 3.1 18.7 1.0
CG D:ASP36 3.3 27.6 1.0
OD2 D:ASP273 3.6 19.0 1.0
NE2 D:GLN275 3.9 17.8 1.0
CB D:ASP36 4.0 27.4 1.0
O D:HOH1046 4.1 17.9 1.0
OD1 D:ASP36 4.2 27.6 1.0
O D:HOH1016 4.2 17.0 1.0
O D:HOH1099 4.2 27.5 1.0
O D:HOH1676 4.3 38.6 1.0
CB D:ASP273 4.4 18.4 1.0
O D:LYS269 4.4 19.0 1.0
O D:TRP34 4.5 22.8 1.0
N D:ASP36 4.7 26.5 1.0
O D:HOH1005 4.7 22.8 1.0
CA D:ASP273 4.7 18.2 1.0

Reference:

C.Matsuzaki, M.Hidaka, Y.Nakashima, Y.Honda, T.Koyanagi, K.Ishikawa, T.Katoh, H.Kumagai, T.Katayama. Structure of Beta-Glucosidase From Thermoascus Aurantiacus To Be Published.
Page generated: Fri Aug 15 21:17:45 2025

Last articles

Mn in 1ZQQ
Mn in 1ZQM
Mn in 1ZQL
Mn in 1ZP9
Mn in 1ZM8
Mn in 1ZOP
Mn in 1ZLZ
Mn in 1ZJP
Mn in 1ZJO
Mn in 1ZDM
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy