Sodium in PDB 2a7l: Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284

All present enzymatic activity of Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284:
6.3.2.19;

The structure of Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284, PDB code: 2a7l was solved by J.R.Walker, G.V.Avvakumov, S.Xue, E.M.Newman, F.Mackenzie, J.Weigelt, M.Sundstrom, C.Arrowsmith, A.Edwards, A.Bochkarev, S.Dhe-Paganon, Structural Genomics Consortium (Sgc), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.44 / 1.82
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	38.595, 60.655, 133.520, 90.00, 90.00, 90.00
R / Rfree (%)	26.2 / 30

The binding sites of Sodium atom in the Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284 (pdb code 2a7l). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total 2 binding sites of Sodium where determined in the Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284, PDB code: 2a7l:
Jump to Sodium binding site number: 1; 2;

Sodium binding site 1 out of 2 in the Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284


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 Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284 within 5.0Å range: probe atom residue distance (Å) B Occ A:Na201 b:39.6 occ:1.00 O A:HOH291 2.2 47.4 1.0 O A:HOH233 2.3 50.4 1.0 OD1 A:ASP67 2.4 40.0 1.0 O A:SER68 2.6 29.7 1.0 OG A:SER68 2.7 34.4 1.0 CG A:ASP67 3.2 35.4 1.0 C A:SER68 3.4 27.9 1.0 OD2 A:ASP67 3.5 40.2 1.0 N A:SER68 3.6 27.9 1.0 CA A:SER68 3.8 28.9 1.0 CB A:SER68 3.8 31.6 1.0 O A:HOH224 3.8 39.9 1.0 O A:HOH236 4.1 41.7 1.0 C A:ASP67 4.2 29.9 1.0 O A:HOH229 4.3 31.6 1.0 O A:HOH300 4.4 54.0 1.0 CB A:ASP67 4.5 30.2 1.0 N A:PRO69 4.6 28.1 1.0 CA A:ASP67 4.7 29.9 1.0 O A:HOH290 4.7 51.6 1.0 O A:PRO69 4.7 27.3 1.0 C A:PRO69 4.7 27.8 1.0 O A:ASP67 4.9 30.2 1.0 CA A:PRO69 5.0 28.8 1.0

Sodium binding site 2 out of 2 in the Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 2 of Structure of the Human Hypothetical Ubiquitin-Conjugating Enzyme, LOC55284 within 5.0Å range: probe atom residue distance (Å) B Occ B:Na202 b:41.0 occ:1.00 O B:HOH271 2.3 40.9 1.0 OD1 B:ASP67 2.3 37.8 1.0 O B:SER68 2.5 28.3 1.0 OG B:SER68 2.8 36.5 1.0 O B:HOH285 2.8 45.3 1.0 CG B:ASP67 3.1 35.5 1.0 OD2 B:ASP67 3.3 39.8 1.0 C B:SER68 3.5 27.4 1.0 N B:SER68 3.6 28.5 1.0 CA B:SER68 3.8 28.1 1.0 CB B:SER68 3.8 29.8 1.0 O B:HOH231 3.9 40.8 1.0 C B:ASP67 4.2 29.7 1.0 O B:HOH225 4.3 35.9 1.0 O B:HOH229 4.3 32.2 1.0 CB B:ASP67 4.4 31.4 1.0 N B:PRO69 4.6 27.6 1.0 CA B:ASP67 4.6 30.6 1.0 C B:PRO69 4.8 28.2 1.0 O B:HOH281 4.8 50.3 1.0 O B:ASP67 4.8 29.2 1.0 O B:PRO69 4.9 26.8 1.0

Y.Sheng, J.H.Hong, R.Doherty, T.Srikumar, J.Shloush, G.V.Avvakumov, J.R.Walker, S.Xue, D.Neculai, J.W.Wan, S.K.Kim, C.H.Arrowsmith, B.Raught, S.Dhe-Paganon. A Human Ubiquitin Conjugating Enzyme (E2)-Hect E3 Ligase Structure-Function Screen. Mol Cell Proteomics V. 11 329 2012.
PubMed: 22496338
DOI: 10.1074/MCP.O111.013706