Zinc in PDB 4kft: Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas

The structure of Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas, PDB code: 4kft was solved by L.J.Happonen, E.Oksanen, T.Kajander, A.Goldman, S.Butcher, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.61 / 2.24
Space group	P 1
Cell size a, b, c (Å), α, β, γ (°)	46.726, 65.185, 71.620, 90.55, 93.65, 91.59
R / Rfree (%)	18.1 / 24.6

The structure of Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas also contains other interesting chemical elements:

Magnesium	(Mg)	8 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Zinc atom in the Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas (pdb code 4kft). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas, PDB code: 4kft:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn308 b:49.8 occ:0.33 OD2 B:ASP73 2.0 56.1 1.0 OD2 B:ASP39 2.1 45.3 1.0 NE2 B:HIS41 2.1 60.5 1.0 NE2 B:HIS108 2.1 44.1 1.0 CD2 B:HIS41 2.9 59.3 1.0 CG B:ASP39 3.0 45.6 1.0 CE1 B:HIS41 3.0 58.6 1.0 CD2 B:HIS108 3.0 40.2 1.0 OD1 B:ASP39 3.2 56.2 1.0 CE1 B:HIS108 3.2 45.5 1.0 CG B:ASP73 3.2 53.7 1.0 CB B:ASP73 3.9 54.7 1.0 ND1 B:HIS41 4.0 57.2 1.0 CG B:HIS41 4.0 61.2 1.0 OD1 B:ASP73 4.2 57.4 1.0 CE2 B:PHE80 4.2 47.4 1.0 CG B:HIS108 4.2 40.5 1.0 ND1 B:HIS108 4.3 41.0 1.0 O B:HOH465 4.4 43.4 1.0 CB B:ASP39 4.4 34.7 1.0 CD2 B:PHE80 4.5 44.1 1.0 CG2 B:ILE102 4.7 23.2 1.0

Zinc binding site 2 out of 2 in the Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Structure of the Genome Packaging Ntpase B204 From Sulfolobus Turreted Icosahedral Virus 2 in Complex with Atp-Gammas within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn303 b:42.7 occ:1.00 OD1 C:ASP73 2.0 48.8 1.0 NE2 C:HIS41 2.1 36.3 1.0 NE2 C:HIS108 2.1 39.8 1.0 OD2 C:ASP39 2.1 41.8 1.0 OD1 C:ASP39 2.2 38.6 1.0 CG C:ASP39 2.5 33.3 1.0 CG C:ASP73 2.9 42.9 1.0 CD2 C:HIS41 3.0 42.1 1.0 CE1 C:HIS41 3.0 39.8 1.0 CD2 C:HIS108 3.1 36.4 1.0 CE1 C:HIS108 3.1 39.6 1.0 CB C:ASP73 3.3 42.8 1.0 OD2 C:ASP73 4.0 42.0 1.0 CE2 C:PHE80 4.0 42.9 1.0 CB C:ASP39 4.1 31.0 1.0 ND1 C:HIS41 4.1 44.1 1.0 CD2 C:PHE80 4.1 44.5 1.0 CG C:HIS41 4.1 45.7 1.0 ND1 C:HIS108 4.2 37.8 1.0 CG C:HIS108 4.2 35.1 1.0 CA C:ASP73 4.8 41.0 1.0 O C:ASP39 4.8 31.6 1.0 CA C:LYS76 4.8 48.0 1.0 C C:ASP39 4.9 35.2 1.0 CA C:ASP39 4.9 28.9 1.0

L.J.Happonen, E.Oksanen, L.Liljeroos, A.Goldman, T.Kajander, S.J.Butcher. The Structure of the Ntpase That Powers Dna Packaging Into Sulfolobus Turreted Icosahedral Virus 2. J.Virol. V. 87 8388 2013.
ISSN: ISSN 0022-538X
PubMed: 23698307
DOI: 10.1128/JVI.00831-13