Sodium in PDB 3vbf: Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group I23)

The structure of Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group I23), PDB code: 3vbf 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)	49.67 / 2.60
Space group	I 2 3
Cell size a, b, c (Å), α, β, γ (°)	600.100, 600.100, 600.100, 90.00, 90.00, 90.00
R / Rfree (%)	23.6 / 24

The structure of Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group I23) also contains other interesting chemical elements:

Potassium	(K)	2 atoms
Chlorine	(Cl)	1 atom

The binding sites of Sodium atom in the Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group I23) (pdb code 3vbf). 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 Human Enterovirus 71 (Space Group I23), PDB code: 3vbf:

Sodium binding site 1 out of 1 in the Crystal Structure of Formaldehyde Treated Human Enterovirus 71 (Space Group I23)


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 Human Enterovirus 71 (Space Group I23) within 5.0Å range: probe atom residue distance (Å) B Occ A:Na304 b:26.3 occ:1.00 O A:LEU47 2.8 29.3 1.0 O D:GLU63 2.8 83.7 1.0 O D:ALA65 2.9 94.1 1.0 O A:VAL44 3.2 37.1 1.0 NE2 A:GLN48 3.4 31.2 1.0 O A:PRO45 3.5 31.8 1.0 CD D:PRO67 3.7 80.8 1.0 CA A:PRO45 3.8 23.3 1.0 CG D:PRO67 3.8 71.0 1.0 C D:GLU63 3.8 87.2 1.0 C A:PRO45 3.8 25.6 1.0 C A:LEU47 4.0 19.7 1.0 OD1 A:ASN57 4.0 62.0 1.0 C A:VAL44 4.0 24.4 1.0 C D:ALA65 4.1 0.1 1.0 CD A:GLN48 4.1 35.8 1.0 O D:THR62 4.2 0.7 1.0 N A:PRO45 4.3 27.4 1.0 CA D:GLU63 4.5 88.2 1.0 OE1 A:GLN48 4.5 46.2 1.0 N A:LEU47 4.6 16.6 1.0 N D:ALA65 4.7 99.7 1.0 N D:PRO67 4.7 98.8 1.0 C D:MET64 4.7 92.3 1.0 ND2 A:ASN57 4.8 60.6 1.0 N D:MET64 4.8 90.9 1.0 CG A:ASN57 4.8 31.7 1.0 CA A:LEU47 4.8 19.8 1.0 N A:ALA46 4.9 14.8 1.0 N A:GLN48 4.9 24.6 1.0 O D:MET64 4.9 73.7 1.0 CA A:GLN48 5.0 24.4 1.0 CA D:ALA66 5.0 93.7 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