Nickel in PDB 4ika: Crystal Structure of EV71 3DPOL-Vpg

The structure of Crystal Structure of EV71 3DPOL-Vpg, PDB code: 4ika was solved by C.Chen, Y.X.Wang, Z.Y.Lou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	48.23 / 2.70
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	103.596, 103.596, 132.170, 90.00, 90.00, 120.00
R / Rfree (%)	21.8 / 27.8

The binding sites of Nickel atom in the Crystal Structure of EV71 3DPOL-Vpg (pdb code 4ika). This binding sites where shown within 5.0 Angstroms radius around Nickel atom.
In total 2 binding sites of Nickel where determined in the Crystal Structure of EV71 3DPOL-Vpg, PDB code: 4ika:
Jump to Nickel binding site number: 1; 2;

Nickel binding site 1 out of 2 in the Crystal Structure of EV71 3DPOL-Vpg


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 1 of Crystal Structure of EV71 3DPOL-Vpg within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni501 b:89.7 occ:1.00 O A:HOH621 2.6 51.7 1.0 NE2 A:HIS271 2.9 52.1 1.0 SG A:CYS282 3.1 53.7 1.0 CE1 A:HIS273 3.2 52.9 1.0 CE1 A:HIS271 3.7 51.5 1.0 CB A:CYS282 3.8 51.5 1.0 NE1 A:TRP5 3.9 52.1 1.0 NE2 A:HIS273 3.9 46.4 1.0 CD2 A:HIS271 4.0 50.5 1.0 ND1 A:HIS273 4.2 57.2 1.0 CE2 A:TRP5 4.6 50.2 1.0 CZ2 A:TRP5 4.6 50.9 1.0 ND1 A:HIS271 4.9 52.4 1.0 CD1 A:TRP5 4.9 55.1 1.0

Nickel binding site 2 out of 2 in the Crystal Structure of EV71 3DPOL-Vpg


Mono view


Stereo pair view

A full contact list of Nickel with other atoms in the Ni binding site number 2 of Crystal Structure of EV71 3DPOL-Vpg within 5.0Å range: probe atom residue distance (Å) B Occ A:Ni502 b:67.7 occ:1.00 O A:HOH742 2.2 59.8 1.0 NE2 A:HIS31 2.2 57.0 1.0 O A:HOH827 2.3 52.3 1.0 O A:HOH730 2.4 53.8 1.0 CE1 A:HIS31 3.2 55.9 1.0 CD2 A:HIS31 3.2 49.4 1.0 OD1 A:ASP32 4.0 57.2 1.0 ND1 A:HIS31 4.3 48.6 1.0 CG A:HIS31 4.3 50.2 1.0 NH2 A:ARG403 4.6 49.9 1.0 OD2 A:ASP32 4.6 59.0 1.0 CG A:ASP32 4.7 55.1 1.0 O A:HOH703 4.9 60.0 1.0

C.Chen, Y.X.Wang, C.Shan, Y.Sun, P.Xu, H.G.Zhou, C.Yang, P.Y.Shi, Z.H.Rao, B.Zhang, Z.Y.Lou. Crystal Structure of Enterovirus 71 Rna-Dependent Rna Polymerase Complexed with Its Protein Primer Vpg: Implication For A Trans Mechanism of Vpg Uridylylation J.Virol. V. 87 5755 2013.
ISSN: ISSN 0022-538X
PubMed: 23487447
DOI: 10.1128/JVI.02733-12