Zinc in PDB 8vwh: Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)

The binding sites of Zinc atom in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) (pdb code 8vwh). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction), PDB code: 8vwh:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


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 Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:84.4 occ:1.00 ND1 A:HIS52 2.1 53.9 1.0 SG A:CYS18 2.3 59.8 1.0 SG A:CYS36 2.3 79.8 1.0 SG A:CYS49 2.3 64.2 1.0 CE1 A:HIS52 2.8 53.1 1.0 CB A:CYS49 3.1 45.8 1.0 CG A:HIS52 3.2 53.0 1.0 CB A:CYS18 3.4 58.2 1.0 CB A:CYS36 3.6 61.2 1.0 CB A:HIS52 3.7 39.9 1.0 N A:CYS49 3.8 43.6 1.0 CA A:CYS36 4.0 60.0 1.0 NE2 A:HIS52 4.0 54.0 1.0 CA A:CYS49 4.1 40.8 1.0 CD2 A:HIS52 4.2 53.1 1.0 N A:ALA21 4.3 52.7 1.0 CB A:PHE20 4.3 53.0 1.0 C A:PHE20 4.4 47.8 1.0 O A:PRO35 4.5 69.9 1.0 N A:HIS52 4.6 47.6 1.0 O A:PHE20 4.7 53.4 1.0 CA A:PHE20 4.7 46.4 1.0 CA A:ALA21 4.7 50.3 1.0 CA A:HIS52 4.8 44.6 1.0 CB A:ALA40 4.8 65.0 1.0 CA A:CYS18 4.8 56.7 1.0 C A:CYS49 4.8 48.8 1.0 N A:PHE20 4.8 54.0 1.0 N A:CYS36 4.9 62.1 1.0 O A:CYS49 4.9 64.5 1.0 CB A:ALA21 5.0 53.9 1.0 C A:ILE48 5.0 44.2 1.0

Zinc binding site 2 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


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 Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn401 b:99.3 occ:1.00 ND1 C:HIS52 2.0 45.2 1.0 SG C:CYS36 2.3 64.2 1.0 SG C:CYS18 2.3 65.2 1.0 SG C:CYS49 2.3 68.5 1.0 CE1 C:HIS52 2.7 49.1 1.0 CG C:HIS52 3.2 46.0 1.0 CB C:CYS18 3.3 59.5 1.0 CB C:CYS36 3.6 59.5 1.0 CB C:CYS49 3.6 40.2 1.0 CA C:CYS36 3.8 60.5 1.0 CB C:HIS52 3.8 37.1 1.0 NE2 C:HIS52 4.0 49.1 1.0 N C:CYS49 4.0 31.5 1.0 CD2 C:HIS52 4.2 47.9 1.0 N C:ALA21 4.3 61.4 1.0 C C:PHE20 4.4 54.0 1.0 CA C:CYS49 4.4 37.5 1.0 CB C:PHE20 4.5 53.3 1.0 O C:PHE20 4.6 48.7 1.0 CB C:ALA40 4.6 57.1 1.0 N C:CYS36 4.7 62.4 1.0 CA C:ALA21 4.7 57.0 1.0 CA C:CYS18 4.7 58.5 1.0 N C:SER37 4.8 62.7 1.0 N C:PHE20 4.8 49.9 1.0 CA C:PHE20 4.8 53.4 1.0 C C:CYS36 4.8 66.8 1.0 OD1 C:ASN16 4.8 67.4 1.0

Zinc binding site 3 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn401 b:97.1 occ:1.00 CB E:CYS49 2.0 11.8 1.0 ND1 E:HIS52 2.2 35.0 1.0 SG E:CYS49 2.3 57.1 1.0 SG E:CYS18 2.3 39.9 1.0 SG E:CYS36 2.3 62.5 1.0 CE1 E:HIS52 2.7 21.3 1.0 CA E:CYS49 3.4 12.9 1.0 CG E:HIS52 3.4 20.0 1.0 CB E:CYS18 3.5 35.5 1.0 N E:CYS49 3.6 25.0 1.0 CB E:CYS36 3.6 57.6 1.0 NE2 E:HIS52 4.0 16.2 1.0 O E:SER37 4.0 55.7 1.0 CB E:HIS52 4.0 18.6 1.0 CD2 E:HIS52 4.3 13.2 1.0 C E:CYS49 4.3 22.3 1.0 CA E:CYS36 4.3 56.9 1.0 N E:HIS52 4.5 29.2 1.0 N E:SER37 4.5 54.4 1.0 C E:CYS36 4.6 59.2 1.0 CB E:ALA40 4.8 42.2 1.0 CA E:CYS18 4.8 33.7 1.0 O E:CYS49 4.8 19.3 1.0 C E:ILE48 4.9 27.0 1.0 CA E:HIS52 4.9 19.6 1.0 N E:ALA40 5.0 24.9 1.0

Zinc binding site 4 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn401 b:106.0 occ:1.00 CB G:CYS36 2.0 64.1 1.0 ND1 G:HIS52 2.1 54.6 1.0 CE1 G:HIS52 2.2 60.4 1.0 SG G:CYS49 2.3 86.0 1.0 SG G:CYS18 2.3 80.9 1.0 SG G:CYS36 2.3 69.9 1.0 CB G:CYS49 3.2 64.0 1.0 CB G:CYS18 3.3 67.0 1.0 CG G:HIS52 3.5 51.5 1.0 NE2 G:HIS52 3.5 59.4 1.0 CA G:CYS36 3.5 62.0 1.0 CD2 G:HIS52 4.1 50.3 1.0 OG G:SER34 4.3 81.5 1.0 N G:CYS36 4.3 62.9 1.0 N G:CYS49 4.3 55.8 1.0 CA G:CYS49 4.3 53.1 1.0 CB G:HIS52 4.4 50.6 1.0 CB G:ALA40 4.4 74.3 1.0 C G:CYS36 4.5 64.1 1.0 N G:ALA21 4.7 55.0 1.0 CA G:CYS18 4.7 62.4 1.0 C G:PHE20 4.8 54.7 1.0 CB G:ALA21 4.9 56.4 1.0 OD1 G:ASN16 4.9 81.3 1.0 CA G:ALA21 4.9 57.3 1.0 N G:SER37 4.9 78.9 1.0 C G:PRO35 5.0 70.8 1.0

Zinc binding site 5 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn401 b:111.2 occ:1.00 ND1 I:HIS52 2.1 40.7 1.0 SG I:CYS49 2.3 65.6 1.0 SG I:CYS36 2.3 65.0 1.0 SG I:CYS18 2.3 46.9 1.0 CE1 I:HIS52 2.7 42.3 1.0 CB I:CYS18 3.0 49.1 1.0 CB I:CYS49 3.2 34.7 1.0 CG I:HIS52 3.3 48.0 1.0 CB I:CYS36 3.3 49.1 1.0 CA I:CYS36 3.4 57.5 1.0 CB I:HIS52 3.8 37.7 1.0 NE2 I:HIS52 3.9 48.3 1.0 N I:CYS49 4.0 41.9 1.0 CA I:CYS49 4.2 41.1 1.0 CD2 I:HIS52 4.2 48.8 1.0 N I:SER37 4.2 51.2 1.0 C I:CYS36 4.3 55.9 1.0 N I:CYS36 4.4 63.6 1.0 N I:ALA21 4.4 52.5 1.0 CB I:ALA40 4.5 49.2 1.0 CA I:CYS18 4.5 46.2 1.0 C I:PHE20 4.6 42.1 1.0 CB I:PHE20 4.7 37.6 1.0 CA I:ALA21 4.8 40.4 1.0 N I:PHE20 4.9 36.9 1.0 N I:HIS52 4.9 42.7 1.0 C I:CYS49 5.0 44.8 1.0 CA I:PHE20 5.0 35.8 1.0 O I:PHE20 5.0 37.3 1.0

Zinc binding site 6 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ K:Zn401 b:93.6 occ:1.00 ND1 K:HIS52 2.1 51.3 1.0 SG K:CYS49 2.3 77.6 1.0 SG K:CYS36 2.3 89.7 1.0 SG K:CYS18 2.3 67.3 1.0 CE1 K:HIS52 2.8 55.2 1.0 CG K:HIS52 3.2 50.1 1.0 CB K:CYS36 3.4 70.9 1.0 CB K:CYS49 3.5 56.8 1.0 CB K:CYS18 3.5 69.4 1.0 CB K:HIS52 3.8 49.0 1.0 CA K:CYS36 3.9 70.0 1.0 NE2 K:HIS52 4.0 59.1 1.0 N K:CYS49 4.0 46.3 1.0 CB K:PHE20 4.2 58.9 1.0 CD2 K:HIS52 4.2 51.4 1.0 N K:ALA21 4.2 69.1 1.0 C K:PHE20 4.3 64.5 1.0 CA K:CYS49 4.3 49.2 1.0 O K:PRO35 4.5 66.4 1.0 CA K:PHE20 4.6 66.8 1.0 O K:PHE20 4.6 62.0 1.0 CA K:ALA21 4.6 65.6 1.0 N K:PHE20 4.7 66.7 1.0 N K:CYS36 4.7 75.0 1.0 CB K:ALA40 4.8 77.4 1.0 N K:HIS52 4.8 51.8 1.0 CA K:CYS18 4.9 68.3 1.0 C K:PRO35 4.9 70.8 1.0 CA K:HIS52 4.9 49.8 1.0 CB K:ALA21 4.9 72.3 1.0

Zinc binding site 7 out of 7 in the Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Structure of the Baculovirus Major Nucleocapsid Protein VP39 (Localised Reconstruction) within 5.0Å range: probe atom residue distance (Å) B Occ M:Zn401 b:93.1 occ:1.00 ND1 M:HIS52 2.1 47.5 1.0 SG M:CYS36 2.3 83.6 1.0 SG M:CYS18 2.3 56.9 1.0 SG M:CYS49 2.3 67.6 1.0 CB M:CYS49 2.4 49.8 1.0 CE1 M:HIS52 2.6 51.5 1.0 CG M:HIS52 3.3 44.8 1.0 CB M:CYS18 3.4 52.6 1.0 CB M:CYS36 3.5 69.2 1.0 CA M:CYS49 3.6 42.5 1.0 N M:CYS49 3.7 48.4 1.0 CA M:CYS36 3.8 67.3 1.0 NE2 M:HIS52 3.8 49.7 1.0 CB M:HIS52 4.0 39.2 1.0 CD2 M:HIS52 4.2 43.5 1.0 CB M:ALA40 4.4 60.1 1.0 N M:ALA21 4.5 55.4 1.0 C M:CYS49 4.6 44.4 1.0 N M:SER37 4.6 64.8 1.0 C M:PHE20 4.6 47.2 1.0 N M:HIS52 4.7 51.3 1.0 C M:CYS36 4.7 70.2 1.0 CB M:PHE20 4.7 48.3 1.0 CA M:CYS18 4.8 49.3 1.0 O M:PRO35 4.8 78.5 1.0 N M:CYS36 4.8 69.4 1.0 O M:PHE20 4.9 51.6 1.0 OD1 M:ASN16 4.9 59.4 1.0 CA M:ALA21 4.9 54.6 1.0 C M:ILE48 4.9 42.5 1.0

B.A.Johnstone, J.M.Hardy, J.Ha, A.Butkovic, P.Koszalka, C.Accurso, H.Venugopal, A.De Marco, M.Krupovic, F.Coulibaly. The Baculovirus Structure Defines the Hallmarks of A New Viral Realm To Be Published.