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Cadmium in PDB 1rk6: The Enzyme in Complex with 50MM CDCL2

Enzymatic activity of The Enzyme in Complex with 50MM CDCL2

All present enzymatic activity of The Enzyme in Complex with 50MM CDCL2:
3.5.1.81;

Protein crystallography data

The structure of The Enzyme in Complex with 50MM CDCL2, PDB code: 1rk6 was solved by W.L.Lai, L.Y.Chou, C.Y.Ting, Y.C.Tsai, S.H.Liaw, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.00 / 1.43
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 59.929, 76.936, 135.569, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 20.2

Other elements in 1rk6:

The structure of The Enzyme in Complex with 50MM CDCL2 also contains other interesting chemical elements:

Zinc (Zn) 1 atom

Cadmium Binding Sites:

The binding sites of Cadmium atom in the The Enzyme in Complex with 50MM CDCL2 (pdb code 1rk6). This binding sites where shown within 5.0 Angstroms radius around Cadmium atom.
In total only one binding site of Cadmium was determined in the The Enzyme in Complex with 50MM CDCL2, PDB code: 1rk6:

Cadmium binding site 1 out of 1 in 1rk6

Go back to Cadmium Binding Sites List in 1rk6
Cadmium binding site 1 out of 1 in the The Enzyme in Complex with 50MM CDCL2


Mono view


Stereo pair view

A full contact list of Cadmium with other atoms in the Cd binding site number 1 of The Enzyme in Complex with 50MM CDCL2 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Cd602

b:35.6
occ:1.00
OXT A:ACT901 1.8 8.9 1.0
OD1 A:ASP366 2.0 7.6 1.0
NE2 A:HIS69 2.0 6.9 1.0
NE2 A:HIS67 2.0 6.4 1.0
C A:ACT901 2.8 9.9 1.0
CD2 A:HIS67 2.8 7.8 1.0
CG A:ASP366 2.8 8.4 1.0
CD2 A:HIS69 2.9 6.9 1.0
CE1 A:HIS69 3.1 7.9 1.0
CE1 A:HIS67 3.2 6.6 1.0
OD2 A:ASP366 3.2 10.7 1.0
SG A:CYS96 3.4 7.7 1.0
CH3 A:ACT901 3.5 9.3 1.0
ZN A:ZN601 3.6 7.8 1.0
CD2 A:HIS250 3.7 6.4 1.0
O A:ACT901 3.7 8.1 1.0
CG A:HIS67 4.0 6.4 1.0
CG A:HIS69 4.0 5.4 1.0
CB A:ASP366 4.1 6.8 1.0
NE2 A:HIS250 4.1 6.3 1.0
ND1 A:HIS69 4.1 6.6 1.0
ND1 A:HIS67 4.2 6.9 1.0
CA A:ASP366 4.4 6.9 1.0
CB A:ASN95 4.8 7.1 1.0
CB A:CYS96 4.8 7.2 1.0
CG A:HIS250 5.0 5.6 1.0

Reference:

W.L.Lai, L.Y.Chou, C.Y.Ting, R.Kirby, Y.C.Tsai, A.H.Wang, S.H.Liaw. The Functional Role of the Binuclear Metal Center in D-Aminoacylase: One-Metal Activation and Second-Metal Attenuation. J.Biol.Chem. V. 279 13962 2004.
ISSN: ISSN 0021-9258
PubMed: 14736882
DOI: 10.1074/JBC.M308849200
Page generated: Wed Oct 28 09:56:14 2020
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