Zinc in PDB 8xy6: Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)

All present enzymatic activity of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3):
2.7.7.6;

The structure of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) (pdb code 8xy6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3), PDB code: 8xy6:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1501 b:121.8 occ:1.00 NE2 A:HIS72 2.1 77.8 1.0 SG A:CYS59 2.3 98.7 1.0 SG A:CYS69 2.3 90.1 1.0 SG A:CYS62 2.3 86.5 1.0 CB A:CYS59 2.8 83.5 1.0 CD2 A:HIS72 2.9 74.4 1.0 CE1 A:HIS72 3.2 71.5 1.0 CB A:CYS69 3.5 87.3 1.0 CB A:CYS62 3.5 81.2 1.0 CG A:HIS72 4.1 69.3 1.0 CA A:CYS69 4.1 89.0 1.0 ND1 A:HIS72 4.2 67.5 1.0 N A:CYS62 4.3 83.0 1.0 CA A:CYS59 4.3 82.8 1.0 N A:GLY71 4.4 79.0 1.0 N A:MET70 4.5 77.9 1.0 CA A:CYS62 4.5 81.1 1.0 CA A:GLY51 4.5 82.8 1.0 C A:CYS69 4.6 88.0 1.0 CA A:GLY71 4.8 75.0 1.0 O A:MET50 4.9 87.4 1.0 C A:CYS59 5.0 86.0 1.0

Zinc binding site 2 out of 6 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1502 b:184.6 occ:1.00 SG A:CYS102 2.3 135.8 1.0 SG A:CYS134 2.3 138.4 1.0 SG A:CYS99 2.3 123.6 1.0 SG A:CYS137 2.3 147.5 1.0 CB A:CYS99 3.0 120.8 1.0 CB A:CYS102 3.0 129.8 1.0 CB A:CYS137 3.3 140.9 1.0 CB A:CYS134 3.3 134.9 1.0 N A:CYS102 3.8 128.9 1.0 CA A:CYS102 3.9 128.9 1.0 N A:CYS137 4.2 141.3 1.0 CA A:CYS137 4.2 140.7 1.0 CG2 A:VAL136 4.3 134.6 1.0 CA A:CYS99 4.5 120.8 1.0 C A:CYS102 4.6 130.0 1.0 N A:GLY103 4.6 117.7 1.0 CB A:ALA139 4.6 129.5 1.0 CA A:CYS134 4.7 134.4 1.0 C A:CYS137 4.7 141.0 1.0 C A:ASN101 4.8 124.3 1.0 N A:ALA104 4.9 111.9 1.0 O A:CYS134 5.0 133.3 1.0 C A:CYS99 5.0 119.7 1.0 O A:ALA104 5.0 118.1 1.0

Zinc binding site 3 out of 6 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1301 b:156.4 occ:1.00 SG B:CYS1180 2.3 80.6 1.0 SG B:CYS1198 2.3 86.0 1.0 SG B:CYS1201 2.3 99.2 1.0 SG B:CYS1183 2.3 88.2 1.0 CB B:CYS1180 2.9 74.6 1.0 CB B:CYS1183 3.2 83.9 1.0 CB B:CYS1198 3.7 77.9 1.0 N B:CYS1183 3.8 82.8 1.0 N B:CYS1201 3.9 90.0 1.0 CB B:CYS1201 3.9 90.5 1.0 CA B:CYS1183 4.1 83.4 1.0 CB B:ASN1200 4.3 87.0 1.0 CA B:CYS1201 4.3 87.0 1.0 ND2 B:ASN1182 4.4 86.9 1.0 CA B:CYS1180 4.4 68.3 1.0 C B:ASN1182 4.6 86.7 1.0 CB B:ASN1182 4.6 85.9 1.0 C B:CYS1201 4.7 91.2 1.0 C B:ASN1200 4.8 92.3 1.0 CA B:ALA1205 4.8 84.3 1.0 CA B:ASN1200 4.9 90.9 1.0 CA B:ASN1182 5.0 84.7 1.0 N B:ASN1200 5.0 90.5 1.0 N B:ASN1182 5.0 86.2 1.0

Zinc binding site 4 out of 6 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn201 b:142.2 occ:1.00 SG G:CYS4 2.3 89.0 1.0 SG G:CYS24 2.3 104.4 1.0 SG G:CYS26 2.3 100.8 1.0 SG G:CYS7 2.3 93.5 1.0 CB G:CYS4 2.9 83.6 1.0 CB G:CYS24 3.3 96.5 1.0 CB G:CYS26 3.5 102.1 1.0 CB G:CYS7 3.7 83.6 1.0 N G:CYS7 4.1 81.6 1.0 N G:CYS26 4.2 99.4 1.0 CA G:CYS26 4.4 101.8 1.0 CA G:CYS7 4.4 83.8 1.0 CA G:CYS4 4.4 85.8 1.0 CB G:GLU28 4.7 97.9 1.0 CB G:SER9 4.7 85.1 1.0 CA G:CYS24 4.7 94.6 1.0 CD1 I:TYR1078 4.8 82.3 1.0 N G:SER25 4.8 91.2 1.0 C G:CYS7 4.9 88.3 1.0 C G:CYS4 5.0 86.7 1.0

Zinc binding site 5 out of 6 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) within 5.0Å range: probe atom residue distance (Å) B Occ G:Zn202 b:116.5 occ:1.00 SG G:CYS73 2.3 83.0 1.0 SG G:CYS76 2.3 92.1 1.0 SG G:CYS98 2.3 68.7 1.0 SG G:CYS96 2.3 74.5 1.0 CB G:CYS96 3.1 65.1 1.0 CB G:CYS98 3.1 66.2 1.0 CB G:CYS73 3.2 68.6 1.0 CB G:CYS76 3.5 85.2 1.0 N G:CYS76 3.9 83.2 1.0 N G:CYS98 4.0 67.5 1.0 CA G:CYS98 4.1 68.2 1.0 CA G:CYS76 4.3 84.2 1.0 CB G:TYR100 4.4 67.2 1.0 CA G:CYS96 4.5 59.8 1.0 CD1 G:LEU78 4.5 67.6 1.0 CA G:CYS73 4.7 68.7 1.0 CB G:ASN75 4.7 85.8 1.0 C G:CYS96 4.7 68.3 1.0 N G:ARG97 4.8 68.2 1.0 C G:CYS98 4.9 71.3 1.0 C G:CYS76 4.9 84.1 1.0 N G:HIS77 4.9 84.6 1.0 C G:ASN75 4.9 85.7 1.0

Zinc binding site 6 out of 6 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Asfv Rnap M1249L C-Tail Occupied COMPLEX3 (MCOC3) within 5.0Å range: probe atom residue distance (Å) B Occ H:Zn101 b:94.0 occ:1.00 SG H:CYS10 2.3 57.0 1.0 SG H:CYS65 2.3 55.8 1.0 SG H:CYS66 2.3 55.0 1.0 SG H:CYS7 2.3 53.0 1.0 CB H:CYS7 3.0 40.1 1.0 N H:CYS66 3.2 40.9 1.0 CB H:CYS65 3.3 43.3 1.0 CB H:CYS10 3.4 41.2 1.0 CB H:CYS66 3.5 39.0 1.0 CA H:CYS66 3.6 43.5 1.0 C H:CYS65 3.7 43.5 1.0 N H:CYS10 4.0 43.6 1.0 CA H:CYS65 4.1 39.2 1.0 NE H:ARG63 4.2 47.1 1.0 CA H:CYS10 4.3 44.5 1.0 CA H:CYS7 4.5 29.8 1.0 CB H:PHE12 4.5 36.4 1.0 O H:CYS65 4.5 55.9 1.0 N H:GLY11 4.6 42.6 1.0 N H:PHE12 4.7 42.7 1.0 CD H:ARG63 4.7 49.2 1.0 N H:CYS65 4.7 31.6 1.0 CB H:THR9 4.8 28.1 1.0 C H:CYS10 4.8 44.5 1.0 CB H:ARG63 4.9 41.9 1.0 C H:CYS7 4.9 39.7 1.0 CZ H:ARG63 5.0 43.1 1.0

G.Zhu, F.Xi, W.Zeng, Y.Zhao, W.Cao, C.Liu, F.Yang, Y.Ru, S.Xiao, S.Zhang, H.Liu, H.Tian, F.Yang, B.Lu, S.Sun, H.Song, B.Sun, X.Zhao, L.Tang, K.Li, J.He, J.Guo, Y.Zhu, Z.Zhu, F.Sun, H.Zheng. Structural Basis of Rna Polymerase Complexes in African Swine Fever Virus. Nat Commun V. 16 501 2025.
ISSN: ESSN 2041-1723
PubMed: 39779680
DOI: 10.1038/S41467-024-55683-Z