Calcium in PDB 3qr7: Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv

The structure of Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv, PDB code: 3qr7 was solved by C.Browning, M.Shneider, P.G.Leiman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	27.33 / 0.94
Space group	H 3 2
Cell size a, b, c (Å), α, β, γ (°)	49.069, 49.069, 463.896, 90.00, 90.00, 120.00
R / Rfree (%)	10.2 / 11.2

The structure of Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv also contains other interesting chemical elements:

Iron	(Fe)	2 atoms
Chlorine	(Cl)	2 atoms
Sodium	(Na)	1 atom

The binding sites of Calcium atom in the Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv (pdb code 3qr7). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv, PDB code: 3qr7:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in the Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca212 b:12.4 occ:0.33 OD2 A:ASP202 2.3 12.5 1.0 OG A:SER203 2.4 10.4 0.6 OG A:SER203 2.5 8.2 0.2 HB2 A:SER203 2.7 14.0 0.2 HB3 A:SER203 2.9 14.2 0.2 OG A:SER203 3.0 8.6 0.2 CB A:SER203 3.1 11.7 0.2 CB A:SER203 3.5 11.8 0.2 CG A:ASP202 3.5 10.7 1.0 HB3 A:SER203 3.5 13.5 0.6 CB A:SER203 3.5 11.3 0.6 H A:SER203 3.7 15.1 0.6 H A:SER203 3.7 15.1 0.2 H A:ASP202 3.8 13.3 1.0 HB3 A:SER203 3.8 14.0 0.2 H A:SER203 3.8 15.1 0.2 N A:SER203 3.8 12.6 1.0 CL A:CL1 4.0 11.0 0.3 OD1 A:ASP202 4.1 12.2 1.0 CA A:SER203 4.1 11.6 0.2 C A:ASP202 4.2 12.6 1.0 HB2 A:SER203 4.2 14.2 0.2 HB2 A:SER203 4.3 13.5 0.6 CA A:SER203 4.3 12.2 0.2 CA A:SER203 4.3 12.7 0.6 N A:ASP202 4.3 11.1 1.0 CA A:ASP202 4.6 11.7 1.0 CB A:ASP202 4.6 11.8 1.0 HA A:SER203 4.6 14.0 0.2 O A:ASP202 4.8 13.9 1.0 HA A:SER203 4.9 14.6 0.2 HA A:SER203 5.0 15.3 0.6

Calcium binding site 2 out of 2 in the Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Crystal Structure of the C-Terminal Fragment of the Bacteriophage P2 Membrane-Piercing Protein Gpv within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca212 b:14.3 occ:0.33 OD2 B:ASP202 2.0 13.2 0.7 OG B:SER203 2.4 9.4 0.3 HG B:SER203 2.4 19.4 0.7 OD1 B:ASP202 2.5 9.2 0.3 OG B:SER203 2.6 16.2 0.7 HB2 B:SER203 3.2 20.3 0.7 CG B:ASP202 3.3 12.5 0.7 HB2 B:SER203 3.3 12.9 0.3 CB B:SER203 3.4 10.7 0.3 CB B:SER203 3.5 16.9 0.7 H B:ASP202 3.7 15.5 0.7 CG B:ASP202 3.7 13.0 0.3 N B:SER203 3.7 12.4 0.3 H B:SER203 3.7 14.9 0.3 CL B:CL2 3.8 15.0 0.3 C B:ASP202 3.9 10.7 0.3 OD1 B:ASP202 3.9 12.3 0.7 N B:SER203 4.0 16.3 0.7 C B:ASP202 4.1 14.2 0.7 HB3 B:SER203 4.1 12.9 0.3 HB3 B:SER203 4.2 20.3 0.7 CA B:SER203 4.2 10.6 0.3 N B:ASP202 4.2 12.9 0.7 N B:ASP202 4.2 10.9 0.3 CA B:ASP202 4.4 12.3 0.3 O B:ASP202 4.4 12.8 0.3 CA B:ASP202 4.4 12.2 0.7 OD2 B:ASP202 4.4 11.0 0.3 CB B:ASP202 4.4 12.0 0.7 CA B:SER203 4.4 15.7 0.7 O B:HOH239 4.6 19.4 0.6 O B:ASP202 4.6 19.2 0.7 HA B:SER203 4.6 12.7 0.3 CB B:ASP202 4.7 12.6 0.3 HA B:SER203 5.0 18.8 0.7

C.Browning, M.M.Shneider, V.D.Bowman, D.Schwarzer, P.G.Leiman. Phage Pierces the Host Cell Membrane with the Iron-Loaded Spike. Structure V. 20 326 2012.
ISSN: ISSN 0969-2126
PubMed: 22325780
DOI: 10.1016/J.STR.2011.12.009