Sodium in PDB 4uxw: Structure of DELTA4-Dgka-Apo in 9.9 Mag

All present enzymatic activity of Structure of DELTA4-Dgka-Apo in 9.9 Mag:
2.7.1.107;

The structure of Structure of DELTA4-Dgka-Apo in 9.9 Mag, PDB code: 4uxw was solved by D.Li, V.E.Pye, D.Aragao, M.Caffrey, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.73 / 3.15
Space group	P 31 2 1
Cell size a, b, c (Å), α, β, γ (°)	72.800, 72.800, 199.320, 90.00, 90.00, 120.00
R / Rfree (%)	22.4 / 26.8

The binding sites of Sodium atom in the Structure of DELTA4-Dgka-Apo in 9.9 Mag (pdb code 4uxw). 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 DELTA4-Dgka-Apo in 9.9 Mag, PDB code: 4uxw:

Sodium binding site 1 out of 1 in the Structure of DELTA4-Dgka-Apo in 9.9 Mag


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Structure of DELTA4-Dgka-Apo in 9.9 Mag within 5.0Å range: probe atom residue distance (Å) B Occ C:Na1122 b:0.5 occ:1.00 O3 C:NO31121 2.3 0.9 1.0 OE1 C:GLU76 2.4 0.0 1.0 OE2 C:GLU76 2.6 0.1 1.0 CD C:GLU76 2.8 0.1 1.0 N C:NO31121 3.0 0.9 1.0 O1 C:NO31121 3.0 0.9 1.0 O25 C:OLC1124 3.6 0.6 1.0 ND2 C:ASN72 3.9 73.3 1.0 OE1 C:GLU28 4.0 0.1 1.0 C24 C:OLC1124 4.0 0.6 1.0 O2 C:NO31121 4.3 0.9 1.0 CG C:GLU76 4.3 97.2 1.0 OE2 C:GLU69 4.4 0.4 1.0 CD C:GLU28 4.6 0.9 1.0 OE2 C:GLU28 4.6 0.6 1.0 O23 C:OLC1124 4.7 0.6 1.0 CG C:ASN72 4.8 65.9 1.0 OG C:SER73 4.8 74.4 1.0 C22 C:OLC1124 4.9 0.6 1.0

D.Li, P.J.Stansfeld, M.S.P.Sansom, A.Keogh, L.Vogeley, N.Howe, J.A.Lyons, D.Aragao, P.Fromme, R.Fromme, S.Basu, I.Grotjohann, C.Kupitz, K.Rendek, U.Weierstall, N.A.Zatsepin, V.Cherezov, W.Liu, S.Bandaru, N.J.English, C.Gati, A.Barty, O.Yefanov, H.N.Chapman, K.Diederichs, M.Messerschmidt, S.Boutet, G.J.Williams, M.Marvin Seibert, M.Caffrey. Ternary Structure Reveals Mechanism of A Membrane Diacylglycerol Kinase. Nat.Commun. V. 6 10140 2015.
ISSN: ESSN 2041-1723
PubMed: 26673816
DOI: 10.1038/NCOMMS10140