Zinc in PDB 7amv: Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State

All present enzymatic activity of Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State:
2.7.7.6;

The structure of Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State (pdb code 7amv). 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 Transcription Pre-Initiation Complex in the Initially Melted State, PDB code: 7amv:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State


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 Transcription Pre-Initiation Complex in the Initially Melted State within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1302 b:58.5 occ:1.00 NE2 A:HIS62 2.1 88.8 1.0 SG A:CYS52 2.3 95.1 1.0 SG A:CYS59 2.3 90.5 1.0 SG A:CYS49 2.3 103.1 1.0 CD2 A:HIS62 2.7 88.8 1.0 CB A:CYS49 2.9 103.1 1.0 CE1 A:HIS62 3.3 88.8 1.0 CB A:CYS59 3.4 90.5 1.0 CB A:CYS52 3.7 95.1 1.0 N A:CYS52 4.0 95.1 1.0 CG A:HIS62 4.0 88.8 1.0 ND1 A:HIS62 4.2 88.8 1.0 CB A:THR51 4.4 93.7 1.0 CA A:CYS49 4.4 103.1 1.0 CA A:CYS52 4.5 95.1 1.0 CA A:GLY42 4.5 96.1 1.0 CA A:CYS59 4.6 90.5 1.0 N A:GLY61 4.8 87.5 1.0 N A:THR51 4.9 93.7 1.0 C A:CYS49 4.9 103.1 1.0 C A:THR51 4.9 93.7 1.0 N A:GLY42 4.9 96.1 1.0 C A:GLY42 5.0 96.1 1.0 CA A:GLY61 5.0 87.5 1.0 CA A:THR51 5.0 93.7 1.0 OG1 A:THR51 5.0 93.7 1.0

Zinc binding site 2 out of 4 in the Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State


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 Transcription Pre-Initiation Complex in the Initially Melted State within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1303 b:109.2 occ:1.00 SG A:CYS130 2.3 112.1 1.0 SG A:CYS90 2.3 106.3 1.0 SG A:CYS93 2.3 107.2 1.0 CB A:CYS130 2.6 112.1 1.0 CB A:CYS90 2.8 106.3 1.0 SG A:CYS135 3.7 112.6 1.0 CB A:CYS93 3.9 107.2 1.0 N A:CYS93 4.0 107.2 1.0 CA A:CYS130 4.0 112.1 1.0 O A:CYS135 4.2 112.6 1.0 CA A:CYS90 4.3 106.3 1.0 O A:CYS93 4.4 107.2 1.0 CA A:CYS93 4.5 107.2 1.0 CB A:CYS135 4.5 112.6 1.0 CB A:HIS92 4.6 107.2 1.0 CE1 A:TYR139 4.8 109.8 1.0 N A:CYS130 4.8 112.1 1.0 CB A:ASN132 4.8 110.9 1.0 C A:CYS90 4.9 106.3 1.0 C A:CYS93 4.9 107.2 1.0 C A:HIS92 4.9 107.2 1.0 C A:CYS130 5.0 112.1 1.0

Zinc binding site 3 out of 4 in the Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State


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 Transcription Pre-Initiation Complex in the Initially Melted State within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1201 b:64.0 occ:1.00 SG B:CYS1106 2.3 79.2 1.0 SG B:CYS1087 2.3 75.0 1.0 SG B:CYS1090 2.3 76.2 1.0 SG B:CYS1103 2.3 79.9 1.0 CB B:CYS1087 3.1 75.0 1.0 CB B:CYS1106 3.3 79.2 1.0 OD1 B:ASP1092 3.5 76.0 1.0 CB B:CYS1103 3.6 79.9 1.0 CB B:CYS1090 3.8 76.2 1.0 N B:CYS1090 4.0 76.2 1.0 N B:CYS1106 4.1 79.2 1.0 CG B:ASP1092 4.2 76.0 1.0 CA B:CYS1106 4.3 79.2 1.0 OD2 B:ASP1092 4.3 76.0 1.0 CB B:ASN1089 4.4 78.3 1.0 CG B:PRO1113 4.5 79.6 1.0 CA B:CYS1090 4.5 76.2 1.0 CA B:CYS1087 4.6 75.0 1.0 ND2 B:ASN1089 4.7 78.3 1.0 CB B:PRO1113 4.8 79.6 1.0 CA B:CYS1103 4.9 79.9 1.0 CB B:ARG1105 4.9 79.8 1.0 C B:ASN1089 4.9 78.3 1.0 C B:CYS1087 5.0 75.0 1.0

Zinc binding site 4 out of 4 in the Atomic Structure of the Poxvirus Transcription Pre-Initiation Complex in the Initially Melted State


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 Transcription Pre-Initiation Complex in the Initially Melted State within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn101 b:42.7 occ:1.00 SG J:CYS10 2.3 56.5 1.0 SG J:CYS40 2.3 58.1 1.0 SG J:CYS39 2.3 57.9 1.0 SG J:CYS7 2.3 54.3 1.0 CB J:CYS7 3.1 54.3 1.0 N J:CYS40 3.3 58.1 1.0 CB J:CYS39 3.4 57.9 1.0 CB J:CYS40 3.7 58.1 1.0 CB J:CYS10 3.7 56.5 1.0 CA J:CYS40 3.8 58.1 1.0 C J:CYS39 3.9 57.9 1.0 N J:CYS10 3.9 56.5 1.0 CA J:CYS39 4.2 57.9 1.0 CB J:THR9 4.3 54.0 1.0 CA J:CYS10 4.4 56.5 1.0 CB J:ASN37 4.5 60.0 1.0 CA J:CYS7 4.6 54.3 1.0 ND2 J:ASN37 4.7 60.0 1.0 O J:CYS39 4.7 57.9 1.0 N J:CYS39 4.8 57.9 1.0 CB J:LYS12 4.9 57.7 1.0 C J:THR9 4.9 54.0 1.0 N J:GLY11 4.9 54.5 1.0 CG2 J:THR9 5.0 54.0 1.0 N J:THR9 5.0 54.0 1.0 CA J:THR9 5.0 54.0 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