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Zinc in PDB 8xxt: Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)

Enzymatic activity of Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)

All present enzymatic activity of Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2):
2.7.7.6;

Other elements in 8xxt:

The structure of Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2) also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2) (pdb code 8xxt). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2), PDB code: 8xxt:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6; 7;

Zinc binding site 1 out of 7 in 8xxt

Go back to Zinc Binding Sites List in 8xxt
Zinc binding site 1 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


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 COMPLEX2 (MCOC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1501

b:110.4
occ:1.00
 NE2 A:HIS72 2.1 72.4 1.0
SG A:CYS59 2.3 96.8 1.0
SG A:CYS69 2.3 86.4 1.0
SG A:CYS62 2.3 86.8 1.0
CB A:CYS59 2.9 76.4 1.0
CE1 A:HIS72 3.0 65.2 1.0
CD2 A:HIS72 3.1 66.1 1.0
CB A:CYS69 3.3 74.7 1.0
CB A:CYS62 3.4 68.6 1.0
CA A:CYS69 4.0 72.2 1.0
ND1 A:HIS72 4.1 61.2 1.0
N A:CYS62 4.1 68.6 1.0
CG A:HIS72 4.1 59.2 1.0
N A:MET70 4.3 73.3 1.0
CA A:CYS62 4.3 67.8 1.0
N A:GLY71 4.3 73.0 1.0
CA A:CYS59 4.4 75.0 1.0
CA A:GLY51 4.4 81.3 1.0
C A:CYS69 4.5 77.8 1.0
CA A:GLY71 4.9 65.3 1.0
C A:CYS62 5.0 66.4 1.0
CB A:THR61 5.0 69.6 1.0

Zinc binding site 2 out of 7 in 8xxt

Go back to Zinc Binding Sites List in 8xxt
Zinc binding site 2 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


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 COMPLEX2 (MCOC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1502

b:170.4
occ:1.00
 SG A:CYS102 2.3 136.1 1.0
SG A:CYS134 2.3 141.6 1.0
SG A:CYS137 2.3 143.5 1.0
SG A:CYS99 2.3 118.5 1.0
CB A:CYS102 3.0 130.7 1.0
CB A:CYS134 3.1 136.7 1.0
CB A:CYS99 3.2 114.0 1.0
CB A:CYS137 3.4 139.2 1.0
N A:CYS102 3.8 127.0 1.0
CA A:CYS102 3.9 129.6 1.0
N A:CYS137 4.1 137.5 1.0
CA A:CYS137 4.3 139.7 1.0
CG2 A:VAL136 4.4 135.6 1.0
CA A:CYS134 4.6 134.0 1.0
C A:CYS102 4.6 133.7 1.0
CA A:CYS99 4.6 113.8 1.0
C A:CYS137 4.7 139.7 1.0
C A:ASN101 4.7 120.5 1.0
CB A:ALA139 4.8 126.5 1.0
O A:ALA139 4.9 125.8 1.0
N A:ALA139 4.9 127.6 1.0
N A:GLY103 4.9 119.8 1.0
N A:LYS138 4.9 132.4 1.0
CB A:ASN101 4.9 120.1 1.0

Zinc binding site 3 out of 7 in 8xxt

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Zinc binding site 3 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


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 COMPLEX2 (MCOC2) within 5.0Å range:

Zinc binding site 4 out of 7 in 8xxt

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Zinc binding site 4 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


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 COMPLEX2 (MCOC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn1301

b:133.6
occ:1.00
 SG B:CYS1180 2.3 93.8 1.0
SG B:CYS1198 2.3 84.0 1.0
SG B:CYS1201 2.3 88.5 1.0
SG B:CYS1183 2.3 77.4 1.0
CB B:CYS1180 3.0 67.7 1.0
CB B:CYS1183 3.5 68.5 1.0
CB B:CYS1198 3.6 72.8 1.0
N B:CYS1201 3.7 75.1 1.0
CB B:CYS1201 3.8 86.6 1.0
N B:CYS1183 3.9 65.9 1.0
CB B:ASN1200 4.0 84.3 1.0
CA B:CYS1201 4.3 77.0 1.0
CA B:CYS1183 4.4 65.3 1.0
CA B:CYS1180 4.5 58.8 1.0
CB B:ASN1182 4.5 60.9 1.0
ND2 B:ASN1182 4.5 75.8 1.0
C B:ASN1200 4.6 81.4 1.0
CA B:ALA1205 4.6 56.3 1.0
CA B:ASN1200 4.7 81.0 1.0
C B:CYS1201 4.7 79.5 1.0
C B:ASN1182 4.8 70.8 1.0
N B:ASN1200 4.8 74.5 1.0
CB B:ALA1205 4.8 60.3 1.0
N B:ASP1202 4.9 82.1 1.0
O B:GLN1204 4.9 80.5 1.0
CA B:CYS1198 5.0 77.8 1.0

Zinc binding site 5 out of 7 in 8xxt

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Zinc binding site 5 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


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 COMPLEX2 (MCOC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn201

b:147.5
occ:1.00
 SG G:CYS24 2.3 111.4 1.0
SG G:CYS4 2.3 114.3 1.0
SG G:CYS26 2.3 130.8 1.0
CB G:CYS7 2.5 104.7 1.0
CB G:CYS4 3.0 105.9 1.0
CB G:CYS24 3.3 110.0 1.0
CB G:CYS26 3.3 120.7 1.0
N G:CYS7 3.6 101.9 1.0
CA G:CYS7 3.6 102.3 1.0
SG G:CYS7 3.6 117.4 1.0
N G:CYS26 4.1 122.9 1.0
CA G:CYS26 4.3 121.5 1.0
C G:CYS7 4.5 108.0 1.0
CA G:CYS4 4.5 105.1 1.0
CA G:CYS24 4.7 109.3 1.0
C G:ALA6 4.7 103.2 1.0
CB G:SER9 4.8 101.8 1.0
N G:SER8 4.8 108.4 1.0
N G:SER25 4.8 108.6 1.0
OE1 G:GLU28 4.9 117.1 1.0
CB G:GLU28 5.0 114.2 1.0

Zinc binding site 6 out of 7 in 8xxt

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Zinc binding site 6 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


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 COMPLEX2 (MCOC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
G:Zn202

b:151.3
occ:1.00
 SG G:CYS76 2.3 99.9 1.0
SG G:CYS73 2.3 101.7 1.0
SG G:CYS96 2.3 94.5 1.0
SG G:CYS98 2.3 96.1 1.0
CB G:CYS96 3.0 83.5 1.0
CB G:CYS98 3.3 91.4 1.0
CB G:CYS73 3.4 96.8 1.0
CB G:CYS76 3.4 90.7 1.0
N G:CYS76 3.8 91.7 1.0
N G:CYS98 4.1 92.3 1.0
CA G:CYS76 4.1 95.2 1.0
CA G:CYS98 4.3 88.2 1.0
CB G:TYR100 4.4 78.2 1.0
CA G:CYS96 4.4 77.4 1.0
CB G:ASN75 4.7 94.3 1.0
C G:CYS76 4.7 94.1 1.0
C G:CYS96 4.8 83.2 1.0
CA G:CYS73 4.8 94.8 1.0
CB G:LEU78 4.8 85.5 1.0
N G:HIS77 4.8 90.7 1.0
N G:ARG97 4.9 88.0 1.0
C G:ASN75 4.9 97.9 1.0
CD2 G:LEU81 5.0 81.0 1.0
CD1 G:LEU78 5.0 89.0 1.0
C G:CYS98 5.0 88.8 1.0

Zinc binding site 7 out of 7 in 8xxt

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Zinc binding site 7 out of 7 in the Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 7 of Asfv Rnap M1249L C-Tail Occupied COMPLEX2 (MCOC2) within 5.0Å range:
probe atom residue distance (Å) B Occ
H:Zn101

b:97.3
occ:1.00
 SG H:CYS10 2.3 83.8 1.0
SG H:CYS65 2.3 66.5 1.0
SG H:CYS66 2.3 73.3 1.0
SG H:CYS7 2.3 88.3 1.0
CB H:CYS7 3.2 61.1 1.0
CB H:CYS65 3.3 56.8 1.0
N H:CYS66 3.3 62.5 1.0
CB H:CYS10 3.3 56.1 1.0
CB H:CYS66 3.7 55.0 1.0
CA H:CYS66 3.8 61.0 1.0
NE H:ARG63 3.8 61.3 1.0
N H:CYS10 3.8 63.6 1.0
C H:CYS65 3.9 54.5 1.0
CA H:CYS10 4.1 55.0 1.0
CA H:CYS65 4.2 54.6 1.0
CB H:PHE12 4.4 57.9 1.0
CD H:ARG63 4.4 64.3 1.0
N H:GLY11 4.5 53.4 1.0
N H:PHE12 4.6 60.5 1.0
CA H:CYS7 4.6 56.8 1.0
C H:CYS10 4.6 56.8 1.0
CB H:THR9 4.7 49.4 1.0
CB H:ARG63 4.7 65.8 1.0
O H:CYS65 4.7 66.3 1.0
N H:CYS65 4.8 57.9 1.0
NH2 H:ARG63 4.8 70.2 1.0
CZ H:ARG63 4.8 64.3 1.0
C H:THR9 4.9 58.1 1.0
C H:CYS7 5.0 58.4 1.0

Reference:

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
Page generated: Sun Feb 9 00:53:58 2025

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