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Platinum in PDB 2is9: Structure of Yeast Dcn-1

Protein crystallography data

The structure of Structure of Yeast Dcn-1, PDB code: 2is9 was solved by X.Yang, J.Zhou, L.Sun, Z.Wei, J.Gao, W.Gong, R.M.Xu, Z.Rao, Y.Liu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 1.92
Space group I 41
Cell size a, b, c (Å), α, β, γ (°) 81.107, 81.107, 106.023, 90.00, 90.00, 90.00
R / Rfree (%) 19.6 / 24

Other elements in 2is9:

The structure of Structure of Yeast Dcn-1 also contains other interesting chemical elements:

Chlorine (Cl) 4 atoms

Platinum Binding Sites:

The binding sites of Platinum atom in the Structure of Yeast Dcn-1 (pdb code 2is9). This binding sites where shown within 5.0 Angstroms radius around Platinum atom.
In total only one binding site of Platinum was determined in the Structure of Yeast Dcn-1, PDB code: 2is9:

Platinum binding site 1 out of 1 in 2is9

Go back to Platinum Binding Sites List in 2is9
Platinum binding site 1 out of 1 in the Structure of Yeast Dcn-1


Mono view


Stereo pair view

A full contact list of Platinum with other atoms in the Pt binding site number 1 of Structure of Yeast Dcn-1 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Pt1109

b:0.3
occ:1.00
SD A:MET230 2.1 37.9 1.0
CL A:CL1110 3.2 0.0 1.0
CG A:MET230 3.3 28.1 1.0
CE A:MET230 3.5 39.1 1.0
CL A:CL1118 3.7 0.1 1.0
CL A:CL1112 4.2 1.0 1.0
CA A:MET230 4.2 23.9 1.0
CB A:MET230 4.3 23.9 1.0
N A:MET230 4.4 23.2 1.0
CL A:CL1111 4.5 0.7 1.0
O A:HOH1199 4.5 43.4 1.0
C A:ARG229 4.7 24.1 1.0
CB A:ARG229 4.7 25.7 1.0
O A:ARG229 4.8 23.4 1.0

Reference:

X.Yang, J.Zhou, L.Sun, Z.Wei, J.Gao, W.Gong, R.M.Xu, Z.Rao, Y.Liu. Structural Basis For the Function of Dcn-1 in Protein Neddylation. J.Biol.Chem. V. 282 24490 2007.
ISSN: ISSN 0021-9258
PubMed: 17597076
DOI: 10.1074/JBC.C700038200
Page generated: Wed Dec 16 02:04:02 2020

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