Zinc in PDB 6akv: Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4

The structure of Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4, PDB code: 6akv was solved by S.Hong, N.-C.Ha, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.09 / 2.40
Space group	I 41
Cell size a, b, c (Å), α, β, γ (°)	79.457, 79.457, 77.925, 90.00, 90.00, 90.00
R / Rfree (%)	17.6 / 22.4

The structure of Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4 also contains other interesting chemical elements:

Chlorine

(Cl)

1 atom

The binding sites of Zinc atom in the Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4 (pdb code 6akv). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4, PDB code: 6akv:

Zinc binding site 1 out of 1 in the Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of LYSB4, the Endolysin From Bacillus Cereus- Targeting Bacteriophage B4 within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn301 b:30.1 occ:1.00 ND1 A:HIS132 2.0 20.1 1.0 O A:HOH401 2.0 27.4 1.0 NE2 A:HIS80 2.1 33.4 1.0 OD1 A:ASP87 2.3 25.4 1.0 OD2 A:ASP87 2.7 27.1 1.0 CG A:ASP87 2.8 24.9 1.0 CE1 A:HIS132 2.9 24.3 1.0 CG A:HIS132 3.0 22.9 1.0 CE1 A:HIS80 3.0 27.8 1.0 CD2 A:HIS80 3.2 18.9 1.0 CB A:HIS132 3.4 22.9 1.0 OD2 A:ASP129 3.5 40.2 1.0 NE2 A:HIS132 4.0 26.0 1.0 CD2 A:HIS132 4.1 27.3 1.0 CA A:HIS132 4.1 28.8 1.0 O2 A:SO4302 4.1 35.7 1.0 ND1 A:HIS80 4.2 30.5 1.0 CB A:ASP87 4.3 28.9 1.0 CG A:HIS80 4.3 23.5 1.0 O1 A:SO4302 4.5 45.3 1.0 CG A:ASP129 4.5 48.9 1.0 O A:VAL86 4.5 29.6 1.0 C A:VAL86 4.8 25.4 1.0 CA A:ASP87 4.8 33.7 1.0 N A:ASP87 4.8 29.2 1.0 OD1 A:ASP129 4.9 49.9 1.0 CB A:ALA85 4.9 22.3 1.0 S A:SO4302 5.0 40.8 1.0

S.Hong, B.Son, S.Ryu, N.C.Ha. Crystal Structure of LYSB4, An Endolysin Frombacillus Cereus-Targeting Bacteriophage B4. Mol. Cells V. 42 79 2019.
ISSN: ISSN 0219-1032
PubMed: 30518175
DOI: 10.14348/MOLCELLS.2018.0379