Sodium in PDB 3vbo: Crystal Structure of Formaldehyde Treated Empty Human Enterovirus 71 Particle (Cryo at 100K)

The structure of Crystal Structure of Formaldehyde Treated Empty Human Enterovirus 71 Particle (Cryo at 100K), PDB code: 3vbo was solved by X.Wang, W.Peng, J.Ren, Z.Hu, J.Xu, Z.Lou, X.Li, W.Yin, X.Shen, C.Porta, T.S.Walter, G.Evans, D.Axford, R.Owen, D.J.Rowlands, J.Wang, D.I.Stuart, E.E.Fry, Z.Rao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.94 / 2.88
Space group	P 42 3 2
Cell size a, b, c (Å), α, β, γ (°)	353.100, 353.100, 353.100, 90.00, 90.00, 90.00
R / Rfree (%)	22.7 / 23.6

The binding sites of Sodium atom in the Crystal Structure of Formaldehyde Treated Empty Human Enterovirus 71 Particle (Cryo at 100K) (pdb code 3vbo). 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 Crystal Structure of Formaldehyde Treated Empty Human Enterovirus 71 Particle (Cryo at 100K), PDB code: 3vbo:

Sodium binding site 1 out of 1 in the Crystal Structure of Formaldehyde Treated Empty Human Enterovirus 71 Particle (Cryo at 100K)


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of Crystal Structure of Formaldehyde Treated Empty Human Enterovirus 71 Particle (Cryo at 100K) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na301 b:56.1 occ:1.00 OE1 A:GLN189 2.7 58.1 1.0 O C:VAL20 2.9 91.0 1.0 CD A:GLN189 3.9 57.1 1.0 C C:VAL20 3.9 74.9 1.0 CA C:SER21 4.2 59.3 1.0 CB C:SER21 4.3 57.5 1.0 N C:SER21 4.5 58.0 1.0 NE2 A:GLN189 4.7 50.5 1.0 N C:VAL20 4.7 58.6 1.0 CG A:GLN189 4.9 41.7 1.0 CB A:GLN189 4.9 39.5 1.0 CA C:VAL20 5.0 67.6 1.0

X.Wang, W.Peng, J.Ren, Z.Hu, J.Xu, Z.Lou, X.Li, W.Yin, X.Shen, C.Porta, T.S.Walter, G.Evans, D.Axford, R.Owen, D.J.Rowlands, J.Wang, D.I.Stuart, E.E.Fry, Z.Rao. A Sensor-Adaptor Mechanism For Enterovirus Uncoating From Structures of EV71. Nat.Struct.Mol.Biol. V. 19 424 2012.
ISSN: ISSN 1545-9993
PubMed: 22388738
DOI: 10.1038/NSMB.2255