Zinc in PDB 6otf: Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry

The binding sites of Zinc atom in the Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry (pdb code 6otf). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry, PDB code: 6otf:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn601 b:30.0 occ:1.00 OE1 B:GLN295 2.0 0.3 1.0 ND1 B:HIS299 2.2 96.7 1.0 NE2 B:HIS293 2.2 92.9 1.0 CE1 B:HIS299 3.0 96.7 1.0 CD2 B:HIS293 3.1 92.9 1.0 CD B:GLN295 3.1 0.3 1.0 CE1 B:HIS293 3.2 92.9 1.0 CG B:HIS299 3.3 96.7 1.0 CB B:ASP381 3.5 99.2 1.0 CB B:HIS299 3.7 96.7 1.0 O B:LEU294 3.9 96.6 1.0 NE2 B:GLN295 3.9 0.3 1.0 OD2 B:ASP381 4.0 99.2 1.0 NE2 B:HIS299 4.1 96.7 1.0 CA B:HIS299 4.2 96.7 1.0 CG B:GLN295 4.2 0.3 1.0 CB B:GLN295 4.2 0.3 1.0 CA B:GLN295 4.2 0.3 1.0 CG B:ASP381 4.3 99.2 1.0 CD2 B:HIS299 4.3 96.7 1.0 CG B:HIS293 4.3 92.9 1.0 ND1 B:HIS293 4.3 92.9 1.0 C B:LEU294 4.5 96.6 1.0 OH B:TYR301 4.6 90.6 1.0 N B:GLN295 4.6 0.3 1.0 CA B:ASP381 4.7 99.2 1.0

Zinc binding site 2 out of 3 in the Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn601 b:30.0 occ:1.00 NE2 A:HIS293 2.1 95.4 1.0 ND1 A:HIS299 2.1 96.8 1.0 CE1 A:HIS293 2.8 95.4 1.0 CG A:HIS299 2.8 96.8 1.0 CB A:HIS299 2.9 96.8 1.0 OE1 A:GLN295 3.1 1.0 1.0 CE1 A:HIS299 3.3 96.8 1.0 CD2 A:HIS293 3.3 95.4 1.0 CA A:HIS299 3.7 96.8 1.0 O A:LEU294 3.8 96.1 1.0 ND1 A:HIS293 4.0 95.4 1.0 CD2 A:HIS299 4.1 96.8 1.0 OH A:TYR301 4.2 93.2 1.0 NE2 A:HIS299 4.2 96.8 1.0 CG A:HIS293 4.3 95.4 1.0 CD A:GLN295 4.3 1.0 1.0 CZ A:TYR301 4.5 93.2 1.0 C A:HIS299 4.5 96.8 1.0 CB A:ASP381 4.6 98.4 1.0 N A:LEU300 4.6 94.7 1.0 CE2 A:TYR301 4.7 93.2 1.0 N A:HIS299 4.8 96.8 1.0 C A:LEU294 4.9 96.1 1.0

Zinc binding site 3 out of 3 in the Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Symmetric Reconstruction of Human Norovirus Gii.2 Snow Mountain Virus Strain Vlp in T=3 Symmetry within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn601 b:30.0 occ:1.00 ND1 C:HIS299 2.0 0.1 1.0 NE2 C:HIS293 2.1 0.8 1.0 CE1 C:HIS299 2.8 0.1 1.0 CD2 C:HIS293 3.0 0.8 1.0 CE1 C:HIS293 3.1 0.8 1.0 CG C:HIS299 3.1 0.1 1.0 CB C:GLN295 3.5 0.8 1.0 OE1 C:GLN295 3.5 0.8 1.0 O C:LEU294 3.6 0.5 1.0 CB C:HIS299 3.7 0.1 1.0 CG C:GLN295 3.9 0.8 1.0 NE2 C:HIS299 3.9 0.1 1.0 CD C:GLN295 4.0 0.8 1.0 OH C:TYR301 4.1 0.8 1.0 CA C:HIS299 4.1 0.1 1.0 CD2 C:HIS299 4.1 0.1 1.0 CG C:HIS293 4.1 0.8 1.0 ND1 C:HIS293 4.2 0.8 1.0 C C:LEU294 4.3 0.5 1.0 CA C:GLN295 4.3 0.8 1.0 CZ C:TYR301 4.5 0.8 1.0 N C:GLN295 4.6 0.8 1.0 CE2 C:TYR301 4.6 0.8 1.0 CB C:ASP381 5.0 0.4 1.0

J.Jung, T.Grant, D.R.Thomas, C.W.Diehnelt, N.Grigorieff, L.Joshua-Tor. High-Resolution Cryo-Em Structures of Outbreak Strain Human Norovirus Shells Reveal Size Variations. Proc.Natl.Acad.Sci.Usa V. 116 12828 2019.
ISSN: ESSN 1091-6490
PubMed: 31182604
DOI: 10.1073/PNAS.1903562116