Sodium in PDB 3eb5: Structure of the CIAP2 Ring Domain

The structure of Structure of the CIAP2 Ring Domain, PDB code: 3eb5 was solved by P.D.Mace, K.Linke, C.A.Smith, C.L.Day, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.69 / 2.00
Space group	C 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	34.869, 66.474, 77.465, 90.00, 90.00, 90.00
R / Rfree (%)	21.3 / 27.5

The structure of Structure of the CIAP2 Ring Domain also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Sodium atom in the Structure of the CIAP2 Ring Domain (pdb code 3eb5). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the Structure of the CIAP2 Ring Domain, PDB code: 3eb5:

Sodium binding site 1 out of 1 in the Structure of the CIAP2 Ring Domain


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of the CIAP2 Ring Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Na1 b:49.3 occ:1.00 OG A:SER593 2.3 61.3 0.7 N A:CYS572 3.1 63.5 1.0 SG A:CYS572 3.3 58.9 1.0 CD A:PRO571 3.3 64.1 1.0 N A:PRO571 3.4 64.2 1.0 CB A:CYS572 3.4 62.7 1.0 C A:ILE570 3.4 63.8 1.0 O A:ILE570 3.5 64.6 1.0 CB A:PHE569 3.5 62.1 1.0 CB A:SER593 3.7 61.8 0.1 CB A:SER593 3.7 61.2 0.9 CA A:CYS572 3.8 62.8 1.0 CA A:ILE595 3.9 62.9 1.0 O A:THR594 4.0 63.8 1.0 C A:PRO571 4.1 64.1 1.0 O A:SER593 4.1 62.7 1.0 N A:ILE570 4.1 62.2 1.0 C A:PHE569 4.2 61.7 1.0 CG A:PRO571 4.2 64.0 1.0 CA A:PRO571 4.2 64.1 1.0 CA A:ILE570 4.3 63.5 1.0 N A:ILE595 4.3 63.4 1.0 C A:THR594 4.3 63.2 1.0 C A:SER593 4.3 62.1 1.0 CG1 A:ILE595 4.4 61.0 1.0 OG A:SER593 4.4 61.4 0.3 CG A:PHE569 4.5 63.3 1.0 CA A:PHE569 4.5 61.4 1.0 O A:PHE569 4.6 59.6 1.0 CB A:ILE595 4.6 62.9 1.0 CA A:SER593 4.6 61.9 0.4 CA A:SER593 4.6 62.0 0.6 N A:GLY573 4.8 63.0 1.0 C A:CYS572 4.8 62.9 1.0 N A:LYS596 4.8 63.7 1.0 CB A:CYS588 4.8 60.8 1.0 CG2 A:ILE595 4.8 62.8 1.0 CD2 A:PHE569 4.9 65.1 1.0 N A:THR594 4.9 62.6 1.0 O A:HOH7 4.9 74.2 1.0 CB A:PRO571 5.0 63.9 1.0 ZN A:ZN1002 5.0 60.5 1.0 C A:ILE595 5.0 63.1 1.0

P.D.Mace, K.Linke, R.Feltham, F.R.Schumacher, C.A.Smith, D.L.Vaux, J.Silke, C.L.Day. Structures of the CIAP2 Ring Domain Reveal Conformational Changes Associated with Ubiquitin-Conjugating Enzyme (E2) Recruitment. J.Biol.Chem. V. 283 31633 2008.
ISSN: ISSN 0021-9258
PubMed: 18784070
DOI: 10.1074/JBC.M804753200