Zinc in PDB 3csq: Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail

The structure of Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail, PDB code: 3csq was solved by Y.Xiang, M.G.Rossmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.90 / 1.80
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	53.842, 133.963, 85.725, 90.00, 89.99, 90.00
R / Rfree (%)	23.8 / 28.2

The binding sites of Zinc atom in the Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail (pdb code 3csq). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail, PDB code: 3csq:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn335 b:28.2 occ:1.00 OD1 A:ASP195 1.9 19.2 1.0 ND1 A:HIS280 2.0 17.1 1.0 NE2 A:HIS188 2.1 15.5 1.0 O A:HOH359 2.3 29.9 1.0 CG A:ASP195 2.7 17.2 1.0 OD2 A:ASP195 2.9 17.8 1.0 CE1 A:HIS280 2.9 16.5 1.0 CE1 A:HIS188 3.0 13.8 1.0 CG A:HIS280 3.1 15.7 1.0 CD2 A:HIS188 3.2 18.6 1.0 CB A:HIS280 3.5 15.2 1.0 NE2 A:HIS280 4.1 18.2 1.0 CB A:ASP195 4.1 14.3 1.0 ND1 A:HIS188 4.2 16.2 1.0 CD2 A:HIS280 4.2 17.3 1.0 NE2 A:GLN180 4.2 17.9 1.0 OG A:SER187 4.3 23.5 1.0 CG A:HIS188 4.3 19.6 1.0 CA A:HIS280 4.4 13.9 1.0 NE2 A:HIS278 4.5 26.9 1.0 N A:ASP195 4.5 13.2 1.0 CA A:ASP195 4.6 14.1 1.0 NE2 A:HIS247 4.8 29.2 1.0 CB A:CYS193 4.8 14.2 1.0 C A:ILE194 4.9 12.5 1.0 CD2 A:HIS278 5.0 27.6 1.0

Zinc binding site 2 out of 4 in the Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn335 b:23.4 occ:1.00 ND1 B:HIS280 1.8 13.9 1.0 OD1 B:ASP195 2.0 16.3 1.0 NE2 B:HIS188 2.1 8.8 1.0 O B:HOH376 2.3 29.7 1.0 OD2 B:ASP195 2.7 17.1 1.0 CG B:ASP195 2.7 14.5 1.0 CG B:HIS280 2.8 13.6 1.0 CE1 B:HIS280 2.8 16.0 1.0 CE1 B:HIS188 3.1 9.7 1.0 CD2 B:HIS188 3.1 12.9 1.0 CB B:HIS280 3.2 13.1 1.0 NE2 B:HIS280 3.9 16.4 1.0 CD2 B:HIS280 3.9 14.7 1.0 CB B:ASP195 4.2 13.2 1.0 ND1 B:HIS188 4.2 8.8 1.0 OG B:SER187 4.3 17.8 1.0 CA B:HIS280 4.3 12.4 1.0 CG B:HIS188 4.3 10.9 1.0 NE2 B:HIS278 4.4 25.4 1.0 NE2 B:GLN180 4.4 14.5 1.0 NE2 B:HIS247 4.6 22.2 1.0 CA B:ASP195 4.7 12.2 1.0 CD2 B:HIS278 4.7 22.1 1.0 N B:ASP195 4.8 11.5 1.0 CB B:CYS193 4.8 9.2 1.0 C B:ILE194 5.0 11.4 1.0

Zinc binding site 3 out of 4 in the Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail within 5.0Å range: probe atom residue distance (Å) B Occ C:Zn335 b:25.2 occ:1.00 ND1 C:HIS280 2.0 13.9 1.0 OD1 C:ASP195 2.1 12.1 1.0 NE2 C:HIS188 2.2 12.5 1.0 O C:HOH355 2.2 22.6 1.0 CG C:ASP195 2.7 15.6 1.0 OD2 C:ASP195 2.7 18.4 1.0 CG C:HIS280 3.0 13.1 1.0 CE1 C:HIS188 3.0 12.3 1.0 CE1 C:HIS280 3.1 15.3 1.0 CD2 C:HIS188 3.2 16.1 1.0 CB C:HIS280 3.3 12.3 1.0 NE2 C:HIS278 4.1 26.4 1.0 CD2 C:HIS280 4.1 15.6 1.0 NE2 C:HIS280 4.1 14.8 1.0 CB C:ASP195 4.2 14.1 1.0 ND1 C:HIS188 4.2 13.8 1.0 CG C:HIS188 4.3 15.2 1.0 CA C:HIS280 4.3 11.5 1.0 OG C:SER187 4.4 21.6 1.0 NE2 C:GLN180 4.4 13.1 1.0 CD2 C:HIS278 4.7 23.1 1.0 CA C:ASP195 4.7 13.7 1.0 N C:ASP195 4.8 11.8 1.0 CB C:CYS193 4.8 10.1 1.0 NE2 C:HIS247 4.8 21.7 1.0

Zinc binding site 4 out of 4 in the Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn335 b:28.6 occ:1.00 NE2 D:HIS188 2.0 12.8 1.0 ND1 D:HIS280 2.1 17.7 1.0 OD1 D:ASP195 2.1 25.0 1.0 O D:HOH371 2.1 35.6 1.0 CG D:ASP195 2.7 18.9 1.0 OD2 D:ASP195 2.8 15.9 1.0 CE1 D:HIS280 2.8 18.1 1.0 CE1 D:HIS188 3.0 12.6 1.0 CD2 D:HIS188 3.1 13.3 1.0 CG D:HIS280 3.2 17.5 1.0 CB D:HIS280 3.8 14.5 1.0 NE2 D:HIS280 4.0 19.0 1.0 ND1 D:HIS188 4.1 12.4 1.0 OG D:SER187 4.2 15.4 1.0 NE2 D:GLN180 4.2 12.0 1.0 CG D:HIS188 4.2 13.3 1.0 CB D:ASP195 4.2 15.9 1.0 CD2 D:HIS280 4.2 19.0 1.0 NE2 D:HIS278 4.4 23.8 1.0 CA D:HIS280 4.6 13.9 1.0 N D:ASP195 4.7 14.1 1.0 CA D:ASP195 4.8 16.4 1.0 CB D:CYS193 4.8 13.5 1.0 NE2 D:HIS247 4.9 25.9 1.0 CD2 D:HIS278 4.9 25.5 1.0

Y.Xiang, M.C.Morais, D.N.Cohen, V.D.Bowman, D.L.Anderson, M.G.Rossmann. Crystal and Cryoem Structural Studies of A Cell Wall Degrading Enzyme in the Bacteriophage PHI29 Tail. Proc.Natl.Acad.Sci.Usa V. 105 9552 2008.
ISSN: ISSN 0027-8424
PubMed: 18606992
DOI: 10.1073/PNAS.0803787105