Calcium in PDB 2vbe: Tailspike Protein of Bacteriophage SF6

The structure of Tailspike Protein of Bacteriophage SF6, PDB code: 2vbe was solved by S.Barbirz, J.J.Mueller, A.Freiberg, U.Heinemann, R.Seckler, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.50 / 1.98
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	95.910, 95.910, 182.600, 90.00, 90.00, 120.00
R / Rfree (%)	11.7 / 14.9

The structure of Tailspike Protein of Bacteriophage SF6 also contains other interesting chemical elements:

Manganese

(Mn)

1 atom

The binding sites of Calcium atom in the Tailspike Protein of Bacteriophage SF6 (pdb code 2vbe). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Tailspike Protein of Bacteriophage SF6, PDB code: 2vbe:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Tailspike Protein of Bacteriophage SF6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Tailspike Protein of Bacteriophage SF6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca624 b:15.3 occ:0.33 O A:HOH2374 2.1 3.6 1.0 OE2 A:GLU394 2.2 10.1 1.0 CD A:GLU394 3.3 12.2 1.0 OE1 A:GLU394 3.8 16.4 1.0 OE1 A:GLN395 4.1 11.0 1.0 CA A:CA625 4.1 10.9 0.2 NE2 A:GLN395 4.2 12.0 1.0 OD2 A:ASP371 4.3 14.7 1.0 CD A:GLN395 4.5 8.4 1.0 CG A:GLU394 4.5 9.0 1.0 CB A:ASP371 4.7 8.0 1.0 CG A:ASP371 4.9 13.2 1.0

Calcium binding site 2 out of 2 in the Tailspike Protein of Bacteriophage SF6


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Tailspike Protein of Bacteriophage SF6 within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca625 b:10.9 occ:0.25 OE1 A:GLU394 2.1 16.4 1.0 O A:HOH2387 2.3 37.0 1.0 CD A:GLU394 3.2 12.2 1.0 OE2 A:GLU394 3.5 10.1 1.0 CA A:CA624 4.1 15.3 0.3 O A:HOH2388 4.4 11.7 1.0 CG A:GLU394 4.5 9.0 1.0 NE2 A:GLN395 4.7 12.0 1.0 CB A:GLU394 4.8 7.2 1.0

J.J.Muller, S.Barbirz, K.Heinle, A.Freiberg, R.Seckler, U.Heinemann. An Intersubunit Active Site Between Supercoiled Parallel Beta Helices in the Trimeric Tailspike Endorhamnosidase of Shigella Flexneri Phage SF6. Structure V. 16 766 2008.
ISSN: ISSN 0969-2126
PubMed: 18462681
DOI: 10.1016/J.STR.2008.01.019