Atomistry » Calcium » PDB 3atj-3b1t » 3azy
Atomistry »
  Calcium »
    PDB 3atj-3b1t »
      3azy »

Calcium in PDB 3azy: Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8

Enzymatic activity of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8

All present enzymatic activity of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8:
3.2.1.39;

Protein crystallography data

The structure of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8, PDB code: 3azy was solved by W.Y.Jeng, N.C.Wang, A.H.J.Wang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 24.60 / 1.65
Space group P 43
Cell size a, b, c (Å), α, β, γ (°) 120.420, 120.420, 107.195, 90.00, 90.00, 90.00
R / Rfree (%) 16.3 / 19.2

Calcium Binding Sites:

The binding sites of Calcium atom in the Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8 (pdb code 3azy). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 4 binding sites of Calcium where determined in the Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8, PDB code: 3azy:
Jump to Calcium binding site number: 1; 2; 3; 4;

Calcium binding site 1 out of 4 in 3azy

Go back to Calcium Binding Sites List in 3azy
Calcium binding site 1 out of 4 in the Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca301

b:22.1
occ:1.00
 O A:GLU17 2.3 19.7 1.0
O A:GLY61 2.3 20.2 1.0
OD1 A:ASP249 2.3 20.1 1.0
O A:ASP249 2.4 16.4 1.0
O A:HOH420 2.4 24.1 1.0
O A:HOH462 2.5 30.1 1.0
OD1 A:ASP19 2.7 28.1 1.0
C A:ASP249 3.4 15.7 1.0
C A:GLY61 3.4 19.8 1.0
C A:GLU17 3.5 19.1 1.0
CG A:ASP249 3.5 17.7 1.0
CG A:ASP19 3.7 26.5 1.0
CA A:ASP249 3.9 16.7 1.0
CA A:GLY61 4.0 20.5 1.0
OD2 A:ASP19 4.0 27.8 1.0
CA A:GLU17 4.2 18.2 1.0
O A:HOH736 4.3 49.9 1.0
CB A:ASP249 4.3 17.9 1.0
OD2 A:ASP249 4.4 20.7 1.0
C A:PHE18 4.5 21.2 1.0
O A:PHE18 4.5 21.6 1.0
N A:PHE18 4.5 19.2 1.0
N A:TYR250 4.5 16.2 1.0
N A:CYS62 4.6 19.1 1.0
CB A:GLU17 4.6 18.8 1.0
OE1 A:GLU17 4.7 22.2 1.0
CB A:PHE18 4.7 19.3 1.0
CB A:TYR250 4.7 16.6 1.0
CA A:PHE18 4.8 19.9 1.0
N A:ASP19 4.8 22.3 1.0
CA A:CYS62 4.9 18.6 1.0
CA A:TYR250 4.9 15.9 1.0
CB A:ASP19 5.0 25.0 1.0

Calcium binding site 2 out of 4 in 3azy

Go back to Calcium Binding Sites List in 3azy
Calcium binding site 2 out of 4 in the Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Ca301

b:21.0
occ:1.00
 O B:HOH438 2.3 23.0 1.0
O B:GLY61 2.3 18.1 1.0
O B:GLU17 2.4 20.3 1.0
OD1 B:ASP249 2.4 20.3 1.0
O B:ASP249 2.4 18.5 1.0
O B:HOH773 2.5 29.8 1.0
OD1 B:ASP19 2.7 29.4 1.0
C B:ASP249 3.4 18.1 1.0
C B:GLY61 3.4 17.7 1.0
C B:GLU17 3.5 20.3 1.0
CG B:ASP249 3.6 18.9 1.0
CG B:ASP19 3.6 30.8 1.0
CA B:ASP249 3.9 18.4 1.0
CA B:GLY61 3.9 18.2 1.0
OD2 B:ASP19 4.0 34.5 1.0
O B:HOH608 4.3 37.1 1.0
CA B:GLU17 4.3 19.8 1.0
CB B:ASP249 4.3 18.6 1.0
OD2 B:ASP249 4.5 21.0 1.0
O B:PHE18 4.5 22.1 1.0
C B:PHE18 4.5 23.0 1.0
N B:TYR250 4.5 17.9 1.0
CB B:GLU17 4.6 19.2 1.0
N B:CYS62 4.6 16.7 1.0
N B:PHE18 4.6 20.4 1.0
CB B:PHE18 4.7 20.3 1.0
OE1 B:GLU17 4.7 22.7 1.0
CB B:TYR250 4.8 17.8 1.0
CA B:PHE18 4.8 21.1 1.0
CA B:CYS62 4.9 17.8 1.0
N B:ASP19 4.9 25.4 1.0
CB B:ASP19 4.9 29.5 1.0
CA B:TYR250 4.9 17.6 1.0

Calcium binding site 3 out of 4 in 3azy

Go back to Calcium Binding Sites List in 3azy
Calcium binding site 3 out of 4 in the Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Ca301

b:18.8
occ:1.00
 O C:GLY61 2.3 17.9 1.0
O C:GLU17 2.3 17.1 1.0
OD1 C:ASP249 2.4 19.3 1.0
O C:HOH530 2.4 21.3 1.0
O C:ASP249 2.4 16.9 1.0
O C:HOH614 2.6 26.4 1.0
OD1 C:ASP19 2.7 25.5 1.0
C C:ASP249 3.4 16.1 1.0
C C:GLY61 3.4 16.7 1.0
C C:GLU17 3.5 17.7 1.0
CG C:ASP249 3.5 17.0 1.0
CG C:ASP19 3.6 28.0 1.0
CA C:ASP249 3.9 15.7 1.0
CA C:GLY61 3.9 17.2 1.0
OD2 C:ASP19 3.9 31.8 1.0
CA C:GLU17 4.2 17.3 1.0
CB C:ASP249 4.3 16.2 1.0
OD2 C:ASP249 4.4 20.1 1.0
C C:PHE18 4.5 19.4 1.0
N C:TYR250 4.5 16.1 1.0
N C:PHE18 4.5 17.2 1.0
O C:PHE18 4.5 18.1 1.0
CB C:GLU17 4.5 17.1 1.0
N C:CYS62 4.5 15.8 1.0
O C:HOH802 4.6 43.5 1.0
CB C:PHE18 4.6 18.0 1.0
OE1 C:GLU17 4.7 20.8 1.0
CA C:PHE18 4.7 17.9 1.0
CB C:TYR250 4.8 16.9 1.0
N C:ASP19 4.8 21.4 1.0
CA C:CYS62 4.9 16.2 1.0
CA C:TYR250 4.9 16.1 1.0
CB C:ASP19 4.9 26.4 1.0

Calcium binding site 4 out of 4 in 3azy

Go back to Calcium Binding Sites List in 3azy
Calcium binding site 4 out of 4 in the Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 4 of Crystal Structure of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Ca301

b:21.0
occ:1.00
 O D:GLY61 2.3 18.1 1.0
O D:GLU17 2.3 17.5 1.0
O D:HOH381 2.4 25.0 1.0
O D:ASP249 2.4 15.7 1.0
OD1 D:ASP249 2.4 19.8 1.0
O D:HOH597 2.4 29.7 1.0
OD1 D:ASP19 2.7 27.1 1.0
C D:ASP249 3.4 16.2 1.0
C D:GLY61 3.4 18.1 1.0
C D:GLU17 3.5 17.7 1.0
CG D:ASP249 3.6 18.2 1.0
CG D:ASP19 3.6 26.1 1.0
OD2 D:ASP19 3.9 27.1 1.0
CA D:ASP249 3.9 15.9 1.0
CA D:GLY61 4.0 18.9 1.0
CA D:GLU17 4.2 17.4 1.0
CB D:ASP249 4.3 17.1 1.0
O D:PHE18 4.5 21.1 1.0
OD2 D:ASP249 4.5 20.7 1.0
C D:PHE18 4.5 20.5 1.0
N D:TYR250 4.5 15.9 1.0
N D:PHE18 4.5 17.9 1.0
N D:CYS62 4.5 17.4 1.0
CB D:GLU17 4.6 17.5 1.0
OE1 D:GLU17 4.6 20.6 1.0
CB D:PHE18 4.7 17.9 1.0
CB D:TYR250 4.8 16.0 1.0
CA D:PHE18 4.8 18.7 1.0
CA D:CYS62 4.8 17.2 1.0
N D:ASP19 4.8 21.9 1.0
CA D:TYR250 4.9 15.3 1.0
CB D:ASP19 4.9 24.7 1.0

Reference:

W.Y.Jeng, N.C.Wang, C.T.Lin, L.F.Shyur, A.H.Wang. Crystal Structures of the Laminarinase Catalytic Domain From Thermotoga Maritima MSB8 in Complex with Inhibitors: Essential Residues For Beta-1,3 and Beta-1,4 Glucan Selection. J.Biol.Chem. V. 286 45030 2011.
ISSN: ISSN 0021-9258
PubMed: 22065588
DOI: 10.1074/JBC.M111.271213
Page generated: Sat Jul 13 08:04:11 2024

Last articles

Zn in 9JPJ
Zn in 9JP7
Zn in 9JPK
Zn in 9JPL
Zn in 9GN6
Zn in 9GN7
Zn in 9GKU
Zn in 9GKW
Zn in 9GKX
Zn in 9GL0
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy