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Calcium in PDB 1o4y: The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans

Enzymatic activity of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans

All present enzymatic activity of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans:
3.2.1.81;

Protein crystallography data

The structure of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans, PDB code: 1o4y was solved by J.Allouch, M.Jam, W.Helbert, T.Barbeyron, B.Kloareg, B.Henrissat, M.Czjzek, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 34.00 / 1.48
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 50.314, 57.487, 89.054, 90.00, 90.00, 90.00
R / Rfree (%) 14.8 / 17.6

Other elements in 1o4y:

The structure of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans also contains other interesting chemical elements:

Sodium (Na) 1 atom

Calcium Binding Sites:

The binding sites of Calcium atom in the The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans (pdb code 1o4y). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total only one binding site of Calcium was determined in the The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans, PDB code: 1o4y:

Calcium binding site 1 out of 1 in 1o4y

Go back to Calcium Binding Sites List in 1o4y
Calcium binding site 1 out of 1 in the The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca700

b:10.5
occ:1.00
 OD2 A:ASP22 2.3 15.8 1.0
O A:SER91 2.3 9.7 1.0
O A:SER47 2.3 10.1 1.0
O A:ASP279 2.5 9.6 1.0
OD1 A:ASP279 2.5 11.2 1.0
O A:HOH902 2.6 21.9 1.0
OD1 A:ASN49 2.7 15.3 1.0
CG A:ASP22 3.4 16.1 1.0
C A:SER47 3.5 9.2 1.0
C A:SER91 3.5 9.8 1.0
C A:ASP279 3.5 8.5 1.0
CG A:ASP279 3.6 9.8 1.0
CG A:ASN49 3.7 13.9 1.0
OD1 A:ASP22 4.0 14.3 1.0
CA A:ASP279 4.1 7.2 1.0
CA A:SER47 4.2 9.0 1.0
ND2 A:ASN49 4.2 12.7 1.0
CA A:SER91 4.2 11.2 1.0
CB A:SER47 4.4 9.8 1.0
OD2 A:ASP279 4.4 12.9 1.0
CB A:ASP279 4.4 7.7 1.0
O A:HOH810 4.4 19.8 1.0
N A:GLN92 4.5 9.2 1.0
CB A:ASP22 4.6 13.9 1.0
N A:PHE48 4.6 9.8 1.0
C A:PHE48 4.6 10.9 1.0
N A:TRP280 4.6 8.3 1.0
O A:HOH726 4.7 18.1 1.0
CB A:SER91 4.7 12.1 1.0
CA A:GLN92 4.7 9.8 1.0
CG A:GLN92 4.8 10.3 1.0
N A:ASN49 4.8 12.0 1.0
O A:PHE48 4.8 12.0 1.0
CB A:TRP280 4.8 8.2 1.0
CB A:PHE48 4.8 10.0 1.0
CA A:PHE48 4.9 9.7 1.0
CD1 A:TRP280 4.9 8.8 1.0

Reference:

J.Allouch, M.Jam, W.Helbert, T.Barbeyron, B.Kloareg, B.Henrissat, M.Czjzek. The Three-Dimensional Structures of Two {Beta}-Agarases. J.Biol.Chem. V. 278 47171 2003.
ISSN: ISSN 0021-9258
PubMed: 12970344
DOI: 10.1074/JBC.M308313200
Page generated: Mon Jul 7 17:50:38 2025

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