Sodium in PDB 5tj7: Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865

All present enzymatic activity of Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865:
2.3.2.26;

The structure of Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865, PDB code: 5tj7 was solved by Z.Chen, S.B.Gabelli, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.60
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	72.000, 73.907, 82.380, 89.99, 89.66, 90.01
R / Rfree (%)	20.7 / 28.4

The structure of Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Sodium atom in the Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865 (pdb code 5tj7). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 3 binding sites of Sodium where determined in the Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865, PDB code: 5tj7:
Jump to Sodium binding site number: 1; 2; 3;

Sodium binding site 1 out of 3 in the Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na901 b:24.7 occ:1.00 O A:THR837 2.6 19.5 1.0 OD1 A:ASN840 2.6 14.3 1.0 OH A:TYR587 2.6 29.6 1.0 O A:THR799 2.8 21.3 1.0 O A:ILE813 3.0 24.2 1.0 CG A:ASN840 3.5 14.2 1.0 CZ A:TYR587 3.6 31.5 1.0 C A:THR799 3.7 12.6 1.0 CE1 A:TYR587 3.8 28.9 1.0 C A:THR837 3.8 20.3 1.0 ND2 A:ASN840 3.8 7.8 1.0 CB A:THR799 3.9 26.4 1.0 CA A:THR799 3.9 25.2 1.0 CA A:GLY814 4.0 21.5 1.0 C A:ILE813 4.1 22.4 1.0 N A:GLY814 4.5 21.7 1.0 N A:CYS838 4.7 20.5 1.0 CA A:THR837 4.7 20.6 1.0 CA A:CYS838 4.7 19.2 1.0 CG2 A:THR799 4.8 28.9 1.0 CE2 A:TYR587 4.8 31.5 1.0 N A:ASN840 4.8 15.3 1.0 CB A:ASN840 4.8 15.3 1.0 C A:CYS838 4.9 20.6 1.0 OG1 A:THR799 4.9 25.6 1.0 N A:GLY800 4.9 23.7 1.0

Sodium binding site 2 out of 3 in the Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na901 b:11.1 occ:1.00 O B:THR837 2.5 23.5 1.0 O B:THR799 2.5 18.2 1.0 OD1 B:ASN840 2.6 27.7 1.0 OH B:TYR587 3.2 19.6 1.0 C B:THR799 3.5 19.6 1.0 O B:ILE813 3.6 21.7 1.0 CG B:ASN840 3.7 25.7 1.0 C B:THR837 3.7 22.1 1.0 CA B:THR799 3.8 17.4 1.0 CE1 B:TYR587 4.1 18.9 1.0 CZ B:TYR587 4.1 17.4 1.0 CB B:THR799 4.2 13.9 1.0 CA B:GLY814 4.2 19.2 1.0 ND2 B:ASN840 4.2 26.4 1.0 C B:ILE813 4.5 23.7 1.0 CA B:THR837 4.5 20.8 1.0 CA B:CYS838 4.7 26.0 1.0 N B:CYS838 4.7 23.2 1.0 CB B:THR837 4.7 20.5 1.0 N B:GLY800 4.7 19.9 1.0 N B:GLY814 4.8 20.9 1.0 N B:ASN840 4.8 25.8 1.0 O B:HOH1091 4.9 33.7 1.0 C B:CYS838 4.9 14.9 1.0 CG2 B:THR799 4.9 12.8 1.0 CB B:ASN840 5.0 23.0 1.0

Sodium binding site 3 out of 3 in the Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 3 of Structure of WWP2 WW2-2,3-Linker-Hect Aa 334-398 Linked to 485-865 within 5.0Å range: probe atom residue distance (Å) B Occ D:Na901 b:21.8 occ:1.00 OD1 D:ASN840 2.4 20.2 1.0 O D:THR799 2.6 14.2 1.0 O D:THR837 2.7 15.5 1.0 O D:ILE813 2.8 21.9 1.0 OH D:TYR587 3.3 23.4 1.0 C D:THR799 3.5 12.2 1.0 CG D:ASN840 3.5 20.8 1.0 CA D:THR799 3.7 14.6 1.0 C D:ILE813 3.9 21.5 1.0 CE1 D:TYR587 3.9 24.9 1.0 C D:THR837 4.0 15.4 1.0 ND2 D:ASN840 4.0 21.9 1.0 CB D:THR799 4.0 12.8 1.0 CZ D:TYR587 4.0 26.0 1.0 CA D:GLY814 4.1 19.8 1.0 N D:GLY814 4.4 20.9 1.0 CG2 D:THR799 4.7 7.0 1.0 N D:GLY800 4.8 13.8 1.0 O D:CYS838 4.8 22.2 1.0 CB D:ASN840 4.8 20.3 1.0 CA D:CYS838 4.9 22.4 1.0 CA D:THR837 4.9 16.0 1.0 N D:CYS838 4.9 19.6 1.0 N D:ASN840 4.9 15.9 1.0 C D:CYS838 4.9 20.2 1.0 O D:HOH1184 5.0 35.8 1.0

Z.Chen, H.Jiang, W.Xu, X.Li, D.R.Dempsey, X.Zhang, P.Devreotes, C.Wolberger, L.M.Amzel, S.B.Gabelli, P.A.Cole. A Tunable Brake For Hect Ubiquitin Ligases. Mol. Cell V. 66 345 2017.
ISSN: ISSN 1097-4164
PubMed: 28475870
DOI: 10.1016/J.MOLCEL.2017.03.020