Atomistry » Calcium » PDB 4uj7-4w9y » 4uzu
Atomistry »
  Calcium »
    PDB 4uj7-4w9y »
      4uzu »

Calcium in PDB 4uzu: Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution

Enzymatic activity of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution

All present enzymatic activity of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution:
3.2.1.1;

Protein crystallography data

The structure of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution, PDB code: 4uzu was solved by W.A.Offen, C.Anderson, T.V.Borchert, K.S.Wilson, G.J.Davies, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 92.92 / 1.90
Space group I 41 2 2
Cell size a, b, c (Å), α, β, γ (°) 108.180, 108.180, 181.490, 90.00, 90.00, 90.00
R / Rfree (%) 16.993 / 21.029

Other elements in 4uzu:

The structure of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution also contains other interesting chemical elements:

Chlorine (Cl) 2 atoms
Sodium (Na) 3 atoms

Calcium Binding Sites:

The binding sites of Calcium atom in the Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution (pdb code 4uzu). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution, PDB code: 4uzu:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in 4uzu

Go back to Calcium Binding Sites List in 4uzu
Calcium binding site 1 out of 3 in the Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1483

b:12.8
occ:1.00
 O A:HOH2199 2.2 11.0 1.0
O A:ALA182 2.3 9.9 1.0
OD1 A:ASP184 2.3 14.9 1.0
OD1 A:ASP162 2.4 14.9 1.0
OD2 A:ASP162 2.5 13.1 1.0
OD1 A:ASP203 2.5 11.3 1.0
O A:HOH2185 2.5 11.1 1.0
CG A:ASP162 2.8 13.6 1.0
CG A:ASP203 3.3 12.2 1.0
CG A:ASP184 3.4 14.2 1.0
C A:ALA182 3.6 11.1 1.0
N A:ASP184 3.8 11.6 1.0
OD2 A:ASP203 3.9 12.0 1.0
OD2 A:ASP184 4.0 14.3 1.0
C A:TRP183 4.1 11.5 1.0
CB A:ASP203 4.1 11.5 1.0
CA A:ASP184 4.2 12.3 1.0
N A:ALA182 4.2 10.9 1.0
CB A:ASP162 4.2 13.3 1.0
CA A:ASP203 4.2 12.3 1.0
OD2 A:ASP205 4.3 24.6 1.0
CB A:ASP184 4.4 13.0 1.0
NA A:NA1491 4.4 13.1 1.0
CA A:ALA182 4.5 10.7 1.0
CB A:ASP205 4.5 21.6 1.0
N A:TRP183 4.5 10.9 1.0
CA A:TRP183 4.5 11.2 1.0
O A:TRP183 4.7 11.0 1.0
N A:ASP205 4.7 18.4 1.0
C A:ASP203 4.7 12.8 1.0
N A:MET204 4.8 14.7 1.0
OD2 A:ASP195 4.8 11.6 1.0
CG A:ASP205 4.9 24.3 1.0
CB A:ALA182 4.9 9.9 1.0

Calcium binding site 2 out of 3 in 4uzu

Go back to Calcium Binding Sites List in 4uzu
Calcium binding site 2 out of 3 in the Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1484

b:12.6
occ:1.00
 O A:ASP195 2.3 12.2 1.0
O A:HIS236 2.3 15.2 1.0
OD1 A:ASP195 2.3 11.7 1.0
OD1 A:ASP201 2.3 13.3 1.0
OD1 A:ASP105 2.4 11.0 1.0
O A:HOH2110 2.5 12.9 1.0
C A:ASP195 3.2 12.0 1.0
CG A:ASP201 3.4 13.1 1.0
CG A:ASP195 3.5 13.1 1.0
C A:HIS236 3.5 12.9 1.0
CG A:ASP105 3.6 10.8 1.0
OD2 A:ASP201 3.7 14.2 1.0
CA A:ASP195 3.8 11.8 1.0
O A:ASP105 3.9 14.6 1.0
O A:HOH2201 3.9 13.2 1.0
O A:HOH2111 4.0 10.3 1.0
CB A:HIS236 4.1 12.0 1.0
NA A:NA1491 4.2 13.1 1.0
OD2 A:ASP105 4.2 11.2 1.0
CB A:ASP195 4.2 11.8 1.0
N A:TYR196 4.3 11.5 1.0
CA A:HIS236 4.3 12.4 1.0
OD2 A:ASP195 4.4 11.6 1.0
N A:ILE237 4.5 13.2 1.0
CB A:ASP105 4.6 12.1 1.0
CA A:TYR196 4.6 11.7 1.0
CA A:ILE237 4.6 13.3 1.0
C A:ASP105 4.7 13.2 1.0
CA A:ASP105 4.7 12.8 1.0
CG1 A:ILE237 4.7 13.4 1.0
O A:LEU202 4.7 12.4 1.0
CB A:ASP201 4.7 13.1 1.0

Calcium binding site 3 out of 3 in 4uzu

Go back to Calcium Binding Sites List in 4uzu
Calcium binding site 3 out of 3 in the Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca1485

b:16.9
occ:1.00
 O A:GLY301 2.3 18.1 1.0
O A:HOH2298 2.3 18.5 1.0
O A:PHE303 2.3 14.4 1.0
OD1 A:ASP405 2.4 18.7 1.0
O A:SER404 2.4 15.8 1.0
OD1 A:ASP428 2.4 17.1 1.0
OD2 A:ASP428 2.6 17.0 1.0
CG A:ASP428 2.9 17.0 1.0
C A:GLY301 3.4 18.7 1.0
C A:SER404 3.4 15.9 1.0
CG A:ASP405 3.5 18.4 1.0
C A:PHE303 3.5 14.8 1.0
CA A:ASP405 3.8 15.1 1.0
N A:PHE303 3.9 15.3 1.0
N A:ASP405 4.0 14.1 1.0
C A:ALA302 4.0 16.7 1.0
N A:ALA302 4.2 17.2 1.0
CB A:ASP405 4.2 16.6 1.0
CA A:PHE303 4.2 14.8 1.0
CG A:MET305 4.3 13.6 1.0
CA A:GLY301 4.3 17.4 1.0
CA A:ALA302 4.4 17.8 1.0
CB A:ASP428 4.4 16.4 1.0
OD2 A:ASP405 4.4 21.1 1.0
O A:HOH2297 4.4 26.5 0.5
OG A:SER404 4.5 18.6 1.0
N A:MET305 4.5 12.3 1.0
O A:HOH2299 4.5 20.5 1.0
N A:ASP304 4.5 12.9 1.0
O A:ALA302 4.5 16.9 1.0
CA A:SER404 4.6 15.7 1.0
CB A:SER404 4.6 16.7 1.0
O A:HOH2366 4.6 36.9 1.0
CA A:ASP304 4.6 13.1 1.0
O A:HOH2292 4.8 13.1 1.0
CB A:PHE303 4.8 16.2 1.0

Reference:

W.A.Offen, A.Viksoe-Nielsen, T.V.Borchert, K.S.Wilson, G.J.Davies. Three-Dimensional Structure of A Variant `Termamyl-Like' Geobacillus Stearothermophilus Alpha-Amylase at 1.9 A Resolution Acta Crystallogr.,Sect.F V. 71 66 2015.
ISSN: ISSN 1744-3091
PubMed: 25615972
DOI: 10.1107/S2053230X14026508
Page generated: Sun Jul 14 13:54:58 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