Zinc in PDB 8pt2: Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation)

The binding sites of Zinc atom in the Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation) (pdb code 8pt2). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation), PDB code: 8pt2:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn501 b:95.4 occ:1.00 ND1 A:HIS284 2.0 47.9 1.0 NE2 A:HIS296 2.0 39.8 1.0 SG A:CYS161 2.3 47.1 1.0 SG A:CYS282 2.3 59.8 1.0 CE1 A:HIS284 2.9 46.1 1.0 HB2 A:HIS284 3.0 48.9 1.0 CD2 A:HIS296 3.0 32.0 1.0 HE1 A:HIS284 3.0 48.7 1.0 CE1 A:HIS296 3.1 35.1 1.0 CG A:HIS284 3.1 48.0 1.0 HB2 A:CYS282 3.1 56.8 1.0 HD2 A:HIS296 3.1 39.2 1.0 HE1 A:HIS296 3.3 39.8 1.0 CB A:CYS282 3.3 57.2 1.0 HB2 A:CYS161 3.3 45.5 1.0 CB A:CYS161 3.3 43.4 1.0 H A:HIS284 3.4 50.0 1.0 HB3 A:CYS161 3.5 44.0 1.0 CB A:HIS284 3.5 47.7 1.0 HB3 A:CYS282 3.7 56.6 1.0 HA A:LYS163 3.8 39.9 1.0 HB1 A:ALA294 3.8 46.1 1.0 H A:LYS163 3.9 39.9 1.0 NE2 A:HIS284 4.0 41.8 1.0 CG A:HIS296 4.1 34.3 1.0 ND1 A:HIS296 4.1 40.2 1.0 CD2 A:HIS284 4.1 43.2 1.0 N A:HIS284 4.2 52.8 1.0 HB3 A:HIS284 4.2 49.1 1.0 HG3 A:GLU283 4.3 59.1 1.0 HG2 A:LYS163 4.4 39.4 1.0 H A:GLU283 4.4 59.3 1.0 CA A:HIS284 4.5 46.2 1.0 N A:LYS163 4.6 42.1 1.0 CA A:LYS163 4.6 35.0 1.0 CA A:CYS282 4.6 56.6 1.0 N A:GLU283 4.7 54.9 1.0 CB A:ALA294 4.7 40.6 1.0 HG3 A:LYS163 4.7 39.1 1.0 CA A:CYS161 4.8 35.6 1.0 HE2 A:HIS284 4.8 48.4 1.0 C A:CYS282 4.8 52.7 1.0 HB2 A:ALA294 4.9 46.6 1.0 HD1 A:HIS296 4.9 41.1 1.0 HG2 A:GLU283 4.9 59.2 1.0 CG A:LYS163 5.0 36.6 1.0

Zinc binding site 2 out of 3 in the Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn501 b:108.6 occ:1.00 NE2 C:HIS191 2.0 55.2 1.0 ND1 C:HIS184 2.0 61.1 1.0 SG C:CYS233 2.3 74.2 1.0 SG C:CYS235 2.3 71.0 1.0 HB3 C:HIS184 2.7 59.6 1.0 HB2 C:CYS235 2.9 64.8 1.0 CD2 C:HIS191 3.0 55.4 1.0 CG C:HIS184 3.0 57.9 1.0 CE1 C:HIS191 3.0 54.5 1.0 CE1 C:HIS184 3.0 62.1 1.0 HD2 C:HIS191 3.1 55.8 1.0 CB C:CYS235 3.2 62.2 1.0 HA C:CYS233 3.2 72.3 1.0 H C:CYS235 3.3 66.2 1.0 HE1 C:HIS184 3.3 60.0 1.0 HE1 C:HIS191 3.3 55.6 1.0 CB C:HIS184 3.3 57.5 1.0 CB C:CYS233 3.3 70.7 1.0 HB2 C:CYS233 3.3 72.5 1.0 CA C:CYS233 3.7 71.7 1.0 HB2 C:HIS184 3.7 58.6 1.0 HB3 C:CYS235 3.9 63.9 1.0 N C:CYS235 3.9 64.8 1.0 CG C:HIS191 4.1 49.8 1.0 ND1 C:HIS191 4.1 50.5 1.0 C C:CYS233 4.1 74.8 1.0 CA C:CYS235 4.1 66.2 1.0 CD2 C:HIS184 4.1 60.2 1.0 NE2 C:HIS184 4.1 62.7 1.0 HB3 C:CYS233 4.2 72.8 1.0 HD2 C:PRO234 4.2 67.5 1.0 HD12 C:ILE179 4.3 59.9 1.0 HA C:CYS235 4.4 65.9 1.0 N C:PRO234 4.5 72.0 1.0 HD13 C:ILE179 4.5 60.1 1.0 CA C:HIS184 4.6 53.8 1.0 HA C:HIS184 4.6 58.3 1.0 O C:CYS233 4.7 73.8 1.0 CD C:PRO234 4.7 66.9 1.0 CD1 C:ILE179 4.7 62.0 1.0 HG22 C:VAL193 4.8 60.0 1.0 HD11 C:ILE179 4.8 60.0 1.0 HD3 C:PRO234 4.9 68.3 1.0 HB2 C:TYR186 4.9 56.6 1.0 HD1 C:HIS191 4.9 54.7 1.0 HG23 C:VAL193 4.9 59.5 1.0 HE2 C:HIS184 4.9 59.9 1.0 HD2 C:HIS184 5.0 59.1 1.0 O C:GLU232 5.0 90.1 1.0

Zinc binding site 3 out of 3 in the Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Tilapia Lake Virus Polymerase in Vrna Pre-Initiation State Mode B (Transcriptase Conformation) within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn502 b:142.4 occ:1.00 SG C:CYS159 2.3 89.7 1.0 SG C:CYS163 2.3 72.6 1.0 SG C:CYS146 2.3 81.7 1.0 SG C:CYS164 2.3 73.5 1.0 HB2 C:CYS164 3.1 69.1 1.0 CB C:CYS164 3.3 69.5 1.0 H C:CYS164 3.3 67.9 1.0 HA C:CYS146 3.3 77.1 1.0 CB C:CYS146 3.4 75.2 1.0 HB3 C:CYS146 3.5 76.5 1.0 HB3 C:CYS159 3.5 79.0 1.0 HB2 C:CYS163 3.5 60.8 1.0 CB C:CYS159 3.6 80.5 1.0 CB C:CYS163 3.6 57.6 1.0 N C:CYS164 3.7 67.2 1.0 HZ1 C:LYS170 3.7 68.3 1.0 HE2 C:LYS170 3.7 67.9 1.0 HB2 C:PHE161 3.8 68.8 1.0 CA C:CYS146 3.9 76.5 1.0 HB2 C:CYS159 4.0 79.0 1.0 HE3 C:LYS170 4.0 67.9 1.0 HB3 C:CYS164 4.1 68.6 1.0 CA C:CYS164 4.1 66.5 1.0 CE C:LYS170 4.2 68.3 1.0 C C:CYS163 4.3 60.2 1.0 HB2 C:CYS146 4.3 77.0 1.0 HB3 C:CYS163 4.3 60.6 1.0 NZ C:LYS170 4.3 68.8 1.0 H C:CYS163 4.4 61.6 1.0 CA C:CYS163 4.4 56.9 1.0 H C:CYS159 4.6 79.2 1.0 HA C:CYS164 4.7 67.8 1.0 O C:CYS146 4.7 76.4 1.0 CB C:PHE161 4.7 66.8 1.0 N C:CYS163 4.7 58.8 1.0 H C:PHE161 4.8 69.6 1.0 HZ2 C:LYS170 4.8 68.1 1.0 C C:CYS146 4.8 76.2 1.0 CA C:CYS159 4.8 79.3 1.0 HD2 C:PHE161 4.9 69.8 1.0 HB3 C:PHE161 4.9 68.3 1.0 HZ3 C:LYS170 5.0 68.1 1.0 N C:CYS146 5.0 77.3 1.0 O C:PHE161 5.0 70.4 1.0

B.Arragain, M.Pelosse, A.Thompson, S.Cusack. Structural and Functional Analysis of the Minimal Orthomyxovirus-Like Polymerase of Tilapia Lake Virus From the Highly Diverged Amnoonviridae Family. Nat Commun V. 14 8145 2023.
ISSN: ESSN 2041-1723
PubMed: 38066000
DOI: 10.1038/S41467-023-44044-X