Zinc in PDB 7ap9: Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3

All present enzymatic activity of Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3:
2.7.7.6;

The structure of Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3 also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3 (pdb code 7ap9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3, PDB code: 7ap9:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1302 b:154.7 occ:1.00 NE2 A:HIS62 2.0 115.7 1.0 SG A:CYS52 2.3 126.6 1.0 SG A:CYS59 2.3 122.4 1.0 SG A:CYS49 2.3 133.5 1.0 CE1 A:HIS62 2.7 115.7 1.0 CB A:CYS49 2.8 133.5 1.0 CB A:CYS52 3.0 126.6 1.0 CD2 A:HIS62 3.2 115.7 1.0 CB A:CYS59 3.3 122.4 1.0 N A:CYS52 3.6 126.6 1.0 CA A:CYS52 3.8 126.6 1.0 ND1 A:HIS62 4.0 115.7 1.0 CG A:HIS62 4.2 115.7 1.0 CA A:CYS59 4.3 122.4 1.0 CA A:CYS49 4.3 133.5 1.0 C A:CYS52 4.6 126.6 1.0 N A:GLY53 4.6 129.3 1.0 CB A:THR51 4.7 121.7 1.0 CA A:GLY42 4.7 125.6 1.0 C A:THR51 4.7 121.7 1.0 C A:CYS49 4.8 133.5 1.0 N A:GLY61 4.9 117.2 1.0 O A:CYS49 5.0 133.5 1.0

Zinc binding site 2 out of 4 in the Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1303 b:204.4 occ:1.00 SG A:CYS130 2.3 161.6 1.0 SG A:CYS93 2.3 162.1 1.0 SG A:CYS90 2.3 155.9 1.0 SG A:CYS135 2.3 165.4 1.0 CB A:CYS135 3.2 165.4 1.0 CB A:CYS130 3.4 161.6 1.0 CB A:CYS90 3.6 155.9 1.0 N A:CYS93 3.6 162.1 1.0 CB A:CYS93 3.7 162.1 1.0 CB A:HIS92 4.1 160.1 1.0 CA A:CYS93 4.2 162.1 1.0 C A:HIS92 4.3 160.1 1.0 CB A:ASN132 4.4 160.2 1.0 CA A:HIS92 4.5 160.1 1.0 N A:HIS92 4.5 160.1 1.0 ND2 A:ASN132 4.6 160.2 1.0 CA A:CYS135 4.7 165.4 1.0 CA A:CYS130 4.7 161.6 1.0 O A:CYS90 4.8 155.9 1.0 CA A:CYS90 4.9 155.9 1.0 C A:CYS90 5.0 155.9 1.0 C A:CYS93 5.0 162.1 1.0

Zinc binding site 3 out of 4 in the Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1201 b:142.7 occ:1.00 SG B:CYS1103 2.3 111.3 1.0 SG B:CYS1090 2.3 111.2 1.0 SG B:CYS1106 2.3 115.4 1.0 SG B:CYS1087 2.3 109.1 1.0 CB B:CYS1090 3.1 111.2 1.0 CB B:CYS1106 3.2 115.4 1.0 CB B:CYS1087 3.3 109.1 1.0 CB B:CYS1103 3.5 111.3 1.0 N B:CYS1090 3.5 111.2 1.0 CA B:CYS1090 3.9 111.2 1.0 N B:CYS1106 4.0 115.4 1.0 CA B:CYS1106 4.2 115.4 1.0 CB B:ASN1089 4.5 110.4 1.0 CG B:PRO1113 4.5 113.0 1.0 C B:CYS1090 4.6 111.2 1.0 ND2 B:ASN1089 4.6 110.4 1.0 C B:ASN1089 4.6 110.4 1.0 N B:GLY1091 4.7 106.8 1.0 CA B:CYS1087 4.7 109.1 1.0 CA B:CYS1103 4.8 111.3 1.0 CB B:PRO1113 4.9 113.0 1.0 N B:ASN1089 4.9 110.4 1.0 CA B:ASN1089 4.9 110.4 1.0 CG B:ASN1089 4.9 110.4 1.0 N B:ASP1092 4.9 109.1 1.0 O B:CYS1087 5.0 109.1 1.0 C B:CYS1087 5.0 109.1 1.0 OD2 B:ASP1092 5.0 109.1 1.0 CB B:ARG1105 5.0 113.3 1.0

Zinc binding site 4 out of 4 in the Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Atomic Structure of the Poxvirus Initially Transcribing Complex in Conformation 3 within 5.0Å range: probe atom residue distance (Å) B Occ I:Zn801 b:247.2 occ:1.00 ND1 I:HIS328 2.1 214.1 1.0 SG I:CYS366 2.3 189.0 1.0 SG I:CYS363 2.3 191.9 1.0 SG I:CYS326 2.3 214.9 1.0 CE1 I:HIS328 2.8 214.1 1.0 CG I:HIS328 2.9 214.1 1.0 CB I:CYS363 3.0 191.9 1.0 CB I:CYS326 3.2 214.9 1.0 CB I:HIS328 3.4 214.1 1.0 N I:CYS366 3.5 189.0 1.0 CB I:CYS366 3.6 189.0 1.0 NE2 I:HIS328 3.8 214.1 1.0 CD2 I:HIS328 3.9 214.1 1.0 CA I:CYS366 4.0 189.0 1.0 CB I:VAL365 4.4 194.9 1.0 N I:HIS328 4.4 214.1 1.0 C I:CYS366 4.4 189.0 1.0 CA I:HIS328 4.5 214.1 1.0 CA I:CYS363 4.5 191.9 1.0 C I:VAL365 4.5 194.9 1.0 O I:CYS366 4.5 189.0 1.0 N I:VAL365 4.6 194.9 1.0 CA I:CYS326 4.6 214.9 1.0 CA I:VAL365 4.7 194.9 1.0 C I:CYS326 4.9 214.9 1.0 CD2 I:PHE353 5.0 205.2 1.0

C.Grimm, J.Bartuli, B.Boettcher, A.A.Szalay, U.Fischer. Structural Basis of the Complete Poxvirus Transcription Initiation Process Nat.Struct.Mol.Biol. 2021.
ISSN: ESSN 1545-9985
DOI: 10.1038/S41594-021-00655-W