Zinc in PDB 8q3b: The Closed State of the Asfv Apo-Rna Polymerase

All present enzymatic activity of The Closed State of the Asfv Apo-Rna Polymerase:
2.7.7.6;

The structure of The Closed State of the Asfv Apo-Rna Polymerase also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the The Closed State of the Asfv Apo-Rna Polymerase (pdb code 8q3b). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the The Closed State of the Asfv Apo-Rna Polymerase, PDB code: 8q3b:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the The Closed State of the Asfv Apo-Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Closed State of the Asfv Apo-Rna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1501 b:143.2 occ:1.00 SG A:CYS69 1.9 77.8 1.0 SG A:CYS59 2.0 75.5 1.0 NE2 A:HIS72 2.2 80.1 1.0 SG A:CYS62 2.2 63.1 1.0 CD2 A:HIS72 2.4 74.3 1.0 CB A:CYS59 2.8 68.5 1.0 CB A:CYS69 3.0 66.4 1.0 CE1 A:HIS72 3.3 70.9 1.0 CG A:HIS72 3.6 59.8 1.0 CB A:CYS62 3.9 61.1 1.0 ND1 A:HIS72 4.0 60.6 1.0 CA A:CYS69 4.1 69.1 1.0 N A:CYS62 4.2 57.9 1.0 CA A:CYS59 4.2 67.4 1.0 CA A:GLY51 4.5 61.1 1.0 CA A:CYS62 4.6 57.9 1.0 CB A:HIS72 4.8 60.3 1.0 C A:CYS69 4.8 70.4 1.0 C A:CYS59 4.9 70.3 1.0 CB A:THR61 4.9 57.6 1.0 N A:GLY51 4.9 56.8 1.0 CB A:HIS64 5.0 63.6 1.0 N A:MET70 5.0 73.0 1.0 N A:GLY71 5.0 60.5 1.0

Zinc binding site 2 out of 6 in the The Closed State of the Asfv Apo-Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Closed State of the Asfv Apo-Rna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1502 b:147.5 occ:1.00 SG A:CYS102 2.3 100.5 1.0 SG A:CYS137 2.3 118.1 1.0 SG A:CYS99 2.3 97.4 1.0 SG A:CYS134 2.3 114.4 1.0 CB A:CYS134 3.0 110.3 1.0 CB A:CYS99 3.0 89.5 1.0 CB A:CYS102 3.6 92.6 1.0 CB A:CYS137 3.7 111.3 1.0 N A:CYS102 3.9 96.8 1.0 CG2 A:VAL136 4.1 111.6 1.0 CA A:CYS102 4.2 94.6 1.0 ND2 A:ASN101 4.2 98.6 1.0 N A:CYS137 4.3 112.5 1.0 CA A:CYS134 4.5 108.0 1.0 CA A:CYS99 4.5 86.8 1.0 CA A:CYS137 4.5 111.8 1.0 O A:CYS137 4.6 113.0 1.0 C A:CYS102 4.6 95.7 1.0 O A:ALA104 4.7 90.6 1.0 C A:ASN101 4.8 95.1 1.0 O A:CYS102 4.8 95.3 1.0 CB A:ASN101 4.8 95.9 1.0 CB A:ALA104 4.9 94.8 1.0 C A:CYS137 4.9 113.2 1.0

Zinc binding site 3 out of 6 in the The Closed State of the Asfv Apo-Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of The Closed State of the Asfv Apo-Rna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1301 b:103.3 occ:1.00 SG B:CYS1201 2.3 73.5 1.0 SG B:CYS1180 2.3 58.7 1.0 SG B:CYS1183 2.3 62.2 1.0 SG B:CYS1198 2.3 65.0 1.0 CB B:CYS1180 3.0 38.4 1.0 CB B:CYS1183 3.2 47.9 1.0 CB B:CYS1201 3.3 59.9 1.0 CB B:CYS1198 3.6 60.4 1.0 N B:CYS1183 3.7 58.7 1.0 N B:CYS1201 3.7 63.4 1.0 CA B:CYS1183 4.1 46.7 1.0 CA B:CYS1201 4.1 59.7 1.0 CB B:ASN1200 4.4 63.5 1.0 CB B:ASN1182 4.4 40.8 1.0 CA B:CYS1180 4.4 31.4 1.0 C B:ASN1182 4.6 48.7 1.0 C B:ASN1200 4.8 66.2 1.0 C B:CYS1180 4.8 49.8 1.0 O B:CYS1180 4.8 59.5 1.0 CA B:ASN1182 4.9 38.2 1.0 N B:ASN1182 4.9 42.3 1.0 ND2 B:ASN1182 4.9 59.9 1.0 C B:CYS1183 4.9 49.6 1.0 CA B:CYS1198 5.0 55.7 1.0 CA B:ASN1200 5.0 62.2 1.0

Zinc binding site 4 out of 6 in the The Closed State of the Asfv Apo-Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of The Closed State of the Asfv Apo-Rna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn201 b:197.6 occ:1.00 SG I:CYS26 2.3 130.4 1.0 SG I:CYS7 2.3 138.5 1.0 SG I:CYS24 2.3 135.7 1.0 SG I:CYS4 2.3 135.7 1.0 CB I:CYS4 2.9 129.1 1.0 CB I:CYS24 3.3 124.8 1.0 CB I:CYS26 3.9 124.4 1.0 CB I:CYS7 4.0 131.8 1.0 N I:CYS7 4.3 132.3 1.0 O I:CYS7 4.3 139.8 1.0 N I:CYS26 4.4 126.1 1.0 CA I:CYS4 4.5 128.0 1.0 CA I:CYS7 4.6 132.9 1.0 CB I:GLU28 4.6 129.8 1.0 CA I:CYS26 4.7 125.0 1.0 CA I:CYS24 4.7 122.1 1.0 CB I:SER9 4.9 114.1 1.0 C I:CYS7 4.9 133.7 1.0 O I:GLY27 4.9 125.3 1.0 CB I:ALA6 5.0 131.7 1.0 CE I:MET11 5.0 119.6 1.0 CG I:GLU28 5.0 131.1 1.0 N I:SER25 5.0 125.4 1.0

Zinc binding site 5 out of 6 in the The Closed State of the Asfv Apo-Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of The Closed State of the Asfv Apo-Rna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn202 b:176.2 occ:1.00 SG I:CYS96 2.3 95.2 1.0 SG I:CYS73 2.3 96.8 1.0 SG I:CYS76 2.3 120.9 1.0 SG I:CYS98 2.3 105.9 1.0 CB I:CYS96 3.1 85.7 1.0 CB I:CYS76 3.2 104.5 1.0 CB I:CYS73 3.3 98.1 1.0 CB I:CYS98 3.5 102.5 1.0 N I:CYS76 3.8 102.3 1.0 CA I:CYS76 4.0 101.8 1.0 N I:CYS98 4.2 101.3 1.0 CA I:CYS98 4.4 101.0 1.0 CA I:CYS96 4.5 75.0 1.0 CB I:TYR100 4.6 89.0 1.0 C I:CYS76 4.6 101.1 1.0 CD2 I:LEU81 4.6 88.1 1.0 CA I:CYS73 4.8 93.5 1.0 N I:ARG97 4.8 77.7 1.0 N I:HIS77 4.8 99.8 1.0 CB I:ASN75 4.8 103.7 1.0 CB I:LEU78 4.9 89.5 1.0 C I:CYS96 4.9 76.1 1.0 C I:ASN75 4.9 102.7 1.0

Zinc binding site 6 out of 6 in the The Closed State of the Asfv Apo-Rna Polymerase


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of The Closed State of the Asfv Apo-Rna Polymerase within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn101 b:122.1 occ:1.00 SG J:CYS10 2.3 74.6 1.0 SG J:CYS66 2.3 53.9 1.0 SG J:CYS65 2.3 55.1 1.0 SG J:CYS7 2.3 63.4 1.0 CB J:CYS7 3.2 52.3 1.0 N J:CYS66 3.3 48.3 1.0 CB J:CYS65 3.4 48.3 1.0 CB J:CYS10 3.6 53.5 1.0 CB J:CYS66 3.6 52.5 1.0 CA J:CYS66 3.7 45.5 1.0 C J:CYS65 3.9 51.0 1.0 N J:CYS10 3.9 47.3 1.0 CA J:CYS65 4.2 41.8 1.0 CA J:CYS10 4.3 49.1 1.0 NE J:ARG63 4.4 46.5 1.0 CB J:PHE12 4.4 57.1 1.0 CA J:CYS7 4.6 46.2 1.0 O J:CYS65 4.7 56.3 1.0 CB J:THR9 4.7 53.9 1.0 N J:PHE12 4.7 54.3 1.0 CD J:ARG63 4.8 56.0 1.0 N J:GLY11 4.8 55.3 1.0 N J:CYS65 4.8 49.5 1.0 CB J:ARG63 4.9 51.0 1.0 C J:CYS10 4.9 52.4 1.0

S.Pilotto, M.Sykora, G.Cackett, C.Dulson, F.Werner. Structural Characterization of the Fully Recombinant Rna Polymerase From African Swine Fever Virus To Be Published.