Calcium in PDB 4sbv: The Refinement of Southern Bean Mosaic Virus in Reciprocal Space

The structure of The Refinement of Southern Bean Mosaic Virus in Reciprocal Space, PDB code: 4sbv was solved by M.G.Rossmann, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	N/A / 2.80
Space group	H 3 2 5
Cell size a, b, c (Å), α, β, γ (°)	334.300, 334.300, 757.500, 90.00, 90.00, 120.00
R / Rfree (%)	25.4 / n/a

The binding sites of Calcium atom in the The Refinement of Southern Bean Mosaic Virus in Reciprocal Space (pdb code 4sbv). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the The Refinement of Southern Bean Mosaic Virus in Reciprocal Space, PDB code: 4sbv:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the The Refinement of Southern Bean Mosaic Virus in Reciprocal Space


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of The Refinement of Southern Bean Mosaic Virus in Reciprocal Space within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca261 b:27.2 occ:1.00 OD1 B:ASN259 2.0 31.3 1.0 OD1 A:ASP138 2.3 15.3 1.0 O B:PHE199 2.4 16.8 1.0 OD1 A:ASP141 2.4 23.2 1.0 O B:LEU260 2.4 23.5 1.0 CG B:ASN259 3.1 30.3 1.0 CG A:ASP138 3.2 15.9 1.0 CG A:ASP141 3.3 22.1 1.0 C B:PHE199 3.4 17.4 1.0 CB A:ASP138 3.5 15.7 1.0 ND2 B:ASN259 3.6 31.0 1.0 OD2 A:ASP141 3.6 22.0 1.0 N B:LEU260 3.6 25.0 1.0 C B:LEU260 3.6 24.1 1.0 N B:PHE199 3.8 16.5 1.0 CA B:PHE199 4.0 17.3 1.0 CD B:LYS200 4.1 17.3 1.0 CA B:LEU260 4.3 24.2 1.0 CB B:PHE199 4.3 18.5 1.0 O B:SER108 4.4 20.5 1.0 OD2 A:ASP138 4.4 15.9 1.0 CB B:ASN259 4.4 28.7 1.0 C B:ASN259 4.5 26.2 1.0 N B:LYS200 4.6 17.9 1.0 CA B:ASN259 4.6 26.7 1.0 CB A:ASP141 4.7 21.7 1.0 C B:PRO198 4.7 15.5 1.0 OXT B:LEU260 4.7 23.3 1.0 CE B:LYS200 4.8 17.9 1.0 CA B:LYS200 4.8 18.4 1.0 CD2 B:PHE199 4.9 20.8 1.0 CB B:PRO198 5.0 13.8 1.0 CG B:PHE199 5.0 20.4 1.0

Calcium binding site 2 out of 3 in the The Refinement of Southern Bean Mosaic Virus in Reciprocal Space


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of The Refinement of Southern Bean Mosaic Virus in Reciprocal Space within 5.0Å range: probe atom residue distance (Å) B Occ B:Ca261 b:16.6 occ:1.00 OD1 B:ASP138 1.8 22.1 1.0 O C:LEU260 1.9 23.9 1.0 OD1 C:ASN259 2.1 22.2 1.0 O C:PHE199 2.4 16.0 1.0 OD2 B:ASP141 2.8 25.7 1.0 OD1 B:ASP141 2.8 25.5 1.0 CG B:ASP138 3.0 21.4 1.0 CG B:ASP141 3.1 25.2 1.0 C C:LEU260 3.2 23.2 1.0 CG C:ASN259 3.3 22.3 1.0 N C:LEU260 3.5 21.5 1.0 C C:PHE199 3.6 15.8 1.0 OD2 B:ASP138 3.7 20.4 1.0 CD C:LYS200 3.9 15.9 1.0 CA C:LEU260 4.1 21.9 1.0 N C:PHE199 4.1 16.4 1.0 CB B:ASP138 4.1 21.4 1.0 OXT C:LEU260 4.2 24.6 1.0 ND2 C:ASN259 4.2 22.8 1.0 CE C:LYS200 4.3 16.2 1.0 C C:ASN259 4.3 21.4 1.0 CA C:PHE199 4.3 15.9 1.0 CA C:ASN259 4.3 21.1 1.0 CB C:ASN259 4.4 21.2 1.0 CB C:PHE199 4.5 16.0 1.0 CB B:ASP141 4.5 24.8 1.0 N C:LYS200 4.7 16.1 1.0 CB C:PRO198 4.7 16.6 1.0 O C:SER108 4.7 15.0 1.0 CA C:LYS200 4.8 15.9 1.0 CD2 C:PHE199 4.9 15.0 1.0 C C:PRO198 4.9 16.9 1.0 CB C:LEU260 5.0 20.7 1.0

Calcium binding site 3 out of 3 in the The Refinement of Southern Bean Mosaic Virus in Reciprocal Space


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of The Refinement of Southern Bean Mosaic Virus in Reciprocal Space within 5.0Å range: probe atom residue distance (Å) B Occ C:Ca261 b:20.9 occ:1.00 OD1 A:ASN259 2.1 19.9 1.0 OD1 C:ASP138 2.1 18.0 1.0 O A:LEU260 2.4 18.1 1.0 O A:PHE199 2.5 20.7 1.0 OD2 C:ASP141 2.6 24.2 1.0 CG C:ASP138 3.1 17.7 1.0 OD1 C:ASP141 3.2 24.4 1.0 CG C:ASP141 3.2 24.2 1.0 CG A:ASN259 3.2 19.4 1.0 CB C:ASP138 3.4 17.6 1.0 C A:LEU260 3.6 18.9 1.0 C A:PHE199 3.6 20.0 1.0 N A:LEU260 3.8 18.2 1.0 CB A:PHE199 3.8 22.2 1.0 ND2 A:ASN259 4.0 20.2 1.0 CA A:PHE199 4.1 20.7 1.0 N A:PHE199 4.1 20.8 1.0 C A:ASN259 4.2 17.6 1.0 CD A:LYS200 4.2 15.9 1.0 CA A:ASN259 4.3 17.5 1.0 OD2 C:ASP138 4.3 16.8 1.0 CB A:ASN259 4.4 18.1 1.0 O A:SER108 4.4 19.9 1.0 CE A:LYS200 4.4 15.9 1.0 CA A:LEU260 4.4 18.6 1.0 CB C:ASP141 4.6 24.2 1.0 OXT A:LEU260 4.6 19.9 1.0 N A:LYS200 4.7 19.2 1.0 CA C:ASP138 4.8 17.8 1.0 CG A:PHE199 4.9 23.9 1.0 O A:ASN259 4.9 17.4 1.0 CA A:LYS200 4.9 18.6 1.0

A.M.Silva, M.G.Rossmann. The Refinement of Southern Bean Mosaic Virus in Reciprocal Space Acta Crystallogr.,Sect.B V. 41 147 1985.
ISSN: ISSN 0108-7681