Zinc in PDB 6m5v: The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3

The structure of The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3 also contains other interesting chemical elements:

Fluorine	(F)	3 atoms
Magnesium	(Mg)	1 atom

The binding sites of Zinc atom in the The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3 (pdb code 6m5v). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3, PDB code: 6m5v:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn801 b:60.2 occ:1.00 SG B:CYS121 2.3 47.4 1.0 CE1 B:HIS124 2.4 42.3 1.0 CD2 C:HIS103 2.9 44.7 1.0 SG C:CYS101 2.9 59.5 1.0 NE2 B:HIS124 3.2 42.3 1.0 ND1 B:HIS124 3.4 42.3 1.0 CB B:CYS121 3.5 47.4 1.0 C C:CYS101 3.6 59.5 1.0 CA C:CYS101 3.6 59.5 1.0 CG C:HIS103 3.7 44.7 1.0 N C:VAL102 3.9 48.9 1.0 CB C:CYS101 3.9 59.5 1.0 N C:HIS103 3.9 44.7 1.0 NE2 C:HIS103 4.0 44.7 1.0 O C:CYS101 4.0 59.5 1.0 CB C:HIS103 4.0 44.7 1.0 CD2 B:HIS124 4.4 42.3 1.0 CG B:HIS124 4.5 42.3 1.0 CA C:HIS103 4.6 44.7 1.0 CA C:VAL102 4.9 48.9 1.0 C C:VAL102 4.9 48.9 1.0 CG1 C:VAL102 4.9 48.9 1.0 CA B:CYS121 4.9 47.4 1.0 ND1 C:HIS103 5.0 44.7 1.0 N C:CYS101 5.0 59.5 1.0

Zinc binding site 2 out of 2 in the The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of The Coordinate of the Hexameric Terminase Complex in the Presence of the Adp-BEF3 within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn802 b:71.9 occ:1.00 O B:CYS223 2.3 47.0 1.0 SG B:CYS200 2.4 41.3 1.0 SG B:CYS197 2.4 43.1 1.0 CB B:CYS223 2.6 47.0 1.0 C B:CYS223 3.0 47.0 1.0 SG B:CYS223 3.1 47.0 1.0 CA B:CYS223 3.1 47.0 1.0 ND1 B:HIS225 3.3 43.2 1.0 N B:CYS197 3.3 43.1 1.0 CB B:CYS197 3.5 43.1 1.0 CB B:HIS225 3.6 43.2 1.0 CG B:HIS225 3.9 43.2 1.0 N B:HIS225 3.9 43.2 1.0 CA B:CYS197 4.0 43.1 1.0 CB B:CYS200 4.1 41.3 1.0 N B:ASN224 4.2 43.7 1.0 CA B:HIS225 4.3 43.2 1.0 C B:PRO196 4.3 41.8 1.0 CA B:PRO196 4.4 41.8 1.0 N B:VAL226 4.4 38.8 1.0 CE1 B:HIS225 4.4 43.2 1.0 N B:CYS223 4.6 47.0 1.0 N B:CYS200 4.6 41.3 1.0 O B:HIS195 4.7 44.1 1.0 C B:CYS197 4.8 43.1 1.0 CG1 B:VAL199 4.8 41.5 1.0 C B:HIS225 4.8 43.2 1.0 C B:ASN224 4.9 43.7 1.0 CA B:CYS200 4.9 41.3 1.0

Y.Yang, P.Yang, N.Wang, Z.Chen, D.Su, Z.H.Zhou, Z.Rao, X.Wang. Architecture of the Herpesvirus Genome-Packaging Complex and Implications For Dna Translocation. Protein Cell V. 11 339 2020.
ISSN: ESSN 1674-8018
PubMed: 32328903
DOI: 10.1007/S13238-020-00710-0