Zinc in PDB 8gh6: Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription

The structure of Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription (pdb code 8gh6). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription, PDB code: 8gh6:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1201 b:83.9 occ:1.00 NE2 A:HIS130 2.1 45.2 1.0 NE2 A:HIS135 2.1 43.7 1.0 SG A:CYS117 2.3 68.3 1.0 SG A:CYS114 2.3 60.1 1.0 CD2 A:HIS135 2.9 41.4 1.0 CD2 A:HIS130 3.0 44.5 1.0 CE1 A:HIS130 3.1 41.1 1.0 CE1 A:HIS135 3.1 41.7 1.0 CB A:CYS114 3.2 56.9 1.0 CB A:CYS117 3.3 59.7 1.0 N A:CYS117 3.6 59.4 1.0 CA A:CYS117 4.0 58.5 1.0 CG A:HIS135 4.1 37.1 1.0 CG A:HIS130 4.1 43.0 1.0 ND1 A:HIS130 4.1 38.1 1.0 ND1 A:HIS135 4.2 36.3 1.0 C A:PHE116 4.4 55.4 1.0 CB A:PHE116 4.6 54.0 1.0 CA A:CYS114 4.7 57.0 1.0 C A:CYS117 4.7 60.9 1.0 N A:PHE116 4.7 57.6 1.0 CA A:PHE116 4.8 57.0 1.0 N A:GLU118 4.9 60.6 1.0 CB A:ALA134 5.0 42.0 1.0

Zinc binding site 2 out of 2 in the Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Bombyx Mori R2 Retrotransposon Initiating Target-Primed Reverse Transcription within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1202 b:56.1 occ:1.00 NE2 A:HIS946 2.1 35.8 1.0 SG A:CYS938 2.3 52.2 1.0 SG A:CYS934 2.3 48.7 1.0 SG A:CYS951 2.3 47.8 1.0 CD2 A:HIS946 2.9 25.5 1.0 CE1 A:HIS946 3.2 39.5 1.0 CB A:CYS951 3.3 37.8 1.0 CB A:CYS938 3.5 49.7 1.0 CB A:CYS934 3.6 42.0 1.0 CA A:CYS951 3.8 36.9 1.0 CB A:ALA936 4.0 43.9 1.0 CG A:HIS946 4.1 22.1 1.0 ND1 A:HIS946 4.2 33.1 1.0 N A:CYS938 4.6 53.6 1.0 CA A:CYS938 4.6 53.8 1.0 CE1 A:PHE1102 4.7 30.8 1.0 N A:HIS952 4.8 41.1 1.0 N A:CYS951 4.8 36.5 1.0 CE1 A:HIS952 4.9 42.4 1.0 C A:CYS951 4.9 35.4 1.0 N A:ALA936 4.9 45.5 1.0 CA A:ALA936 4.9 41.9 1.0 CA A:CYS934 5.0 48.4 1.0 ND1 A:HIS952 5.0 42.3 1.0

M.E.Wilkinson, C.J.Frangieh, R.Macrae, F.Zhang. Structure of the R2 Non-Ltr Retrotransposon Initiating Target-Primed Reverse Transcription To Be Published.