Calcium in PDB 4fzl: High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000

The structure of High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000, PDB code: 4fzl was solved by A.W.Roszak, R.Grinter, J.R.Cogdell, D.Walker, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.92 / 1.46
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	55.810, 96.090, 64.270, 90.00, 114.17, 90.00
R / Rfree (%)	15.2 / 20.1

The structure of High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000 also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Chlorine	(Cl)	2 atoms

The binding sites of Calcium atom in the High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000 (pdb code 4fzl). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000, PDB code: 4fzl:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca301 b:25.0 occ:1.00 O A:HOH427 2.0 35.4 1.0 O A:LEU202 2.2 22.5 1.0 O2 A:EDO302 2.3 28.9 1.0 O A:ASN204 2.4 23.7 1.0 OD1 A:ASP232 2.4 31.6 1.0 O1 A:EDO302 2.4 30.0 1.0 OD2 A:ASP232 2.5 24.4 1.0 O A:HOH436 2.5 31.8 1.0 CG A:ASP232 2.8 25.0 1.0 C1 A:EDO302 3.2 34.1 1.0 C2 A:EDO302 3.3 33.3 1.0 C A:LEU202 3.4 21.2 1.0 C A:ASN204 3.5 20.5 1.0 N A:ASN204 3.9 22.2 1.0 O A:HOH576 4.0 36.3 1.0 O A:HOH577 4.3 53.2 1.0 C A:GLY203 4.3 21.1 1.0 CA A:ASN204 4.3 22.4 1.0 O A:HOH440 4.3 36.5 1.0 CB A:ASP232 4.3 22.9 1.0 CA A:LEU202 4.4 18.3 1.0 N A:GLY203 4.4 21.0 1.0 CA A:GLY203 4.4 22.7 1.0 CG2 A:ILE205 4.5 26.3 1.0 O A:HOH627 4.5 41.3 1.0 N A:ILE205 4.6 24.0 1.0 O A:VAL233 4.6 23.8 1.0 O A:HOH437 4.6 57.2 1.0 CA A:ILE205 4.7 20.8 1.0 CB A:LEU202 4.9 21.1 1.0 CB A:ASN204 5.0 26.5 1.0

Calcium binding site 2 out of 2 in the High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of High Resolution Structure of Truncated Bacteriocin Syringacin M From Pseudomonas Syringae Pv. Tomato DC3000 within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca301 b:27.5 occ:1.00 O B:HOH516 2.0 35.1 1.0 O B:LEU202 2.3 22.5 1.0 O1 B:EDO303 2.3 32.6 1.0 O2 B:EDO303 2.4 33.8 1.0 O B:ASN204 2.4 26.0 1.0 OD1 B:ASP232 2.4 36.2 1.0 O B:HOH439 2.5 32.5 1.0 OD2 B:ASP232 2.6 26.7 1.0 CG B:ASP232 2.8 27.4 1.0 C1 B:EDO303 3.0 33.3 1.0 C2 B:EDO303 3.1 34.6 1.0 C B:LEU202 3.5 20.1 1.0 C B:ASN204 3.6 21.6 1.0 N B:ASN204 3.9 24.8 1.0 O B:HOH430 4.2 35.6 1.0 O B:HOH517 4.2 40.7 0.5 CA B:LEU202 4.3 21.4 1.0 CA B:ASN204 4.3 26.1 1.0 C B:GLY203 4.3 22.6 1.0 CB B:ASP232 4.4 25.7 1.0 N B:GLY203 4.4 23.5 1.0 CA B:GLY203 4.5 20.7 1.0 O B:HOH442 4.5 40.7 1.0 CG2 B:ILE205 4.6 25.6 1.0 N B:ILE205 4.6 25.4 1.0 O B:VAL233 4.6 26.3 1.0 O B:HOH429 4.8 42.3 0.5 O B:HOH441 4.8 50.2 1.0 CA B:ILE205 4.8 26.6 1.0 CB B:LEU202 4.9 19.9 1.0 O B:HOH440 4.9 59.6 1.0 CB B:ASN204 4.9 28.8 1.0

R.Grinter, A.W.Roszak, R.J.Cogdell, J.J.Milner, D.Walker. The Crystal Structure of the Lipid II-Degrading Bacteriocin Syringacin M Suggests Unexpected Evolutionary Relationships Between Colicin M-Like Bacteriocins. J.Biol.Chem. V. 287 38876 2012.
ISSN: ISSN 0021-9258
PubMed: 22995910
DOI: 10.1074/JBC.M112.400150