Calcium in PDB 1c8f: Feline Panleukopenia Virus Empty Capsid Structure

The structure of Feline Panleukopenia Virus Empty Capsid Structure, PDB code: 1c8f was solved by M.G.Rossmann, A.A.Simpson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	9.00 / 3.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	380.120, 379.250, 350.820, 90.00, 90.00, 90.00
R / Rfree (%)	28.5 / n/a

The binding sites of Calcium atom in the Feline Panleukopenia Virus Empty Capsid Structure (pdb code 1c8f). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 3 binding sites of Calcium where determined in the Feline Panleukopenia Virus Empty Capsid Structure, PDB code: 1c8f:
Jump to Calcium binding site number: 1; 2; 3;

Calcium binding site 1 out of 3 in the Feline Panleukopenia Virus Empty Capsid Structure


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Feline Panleukopenia Virus Empty Capsid Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca585 b:20.0 occ:0.88 NH2 A:ARG361 3.4 75.2 1.0 CG A:GLN365 4.0 81.5 1.0 OE1 A:GLN365 4.1 83.3 1.0 ND1 A:HIS403 4.3 27.3 1.0 CZ A:ARG361 4.4 74.8 1.0 CD A:GLN365 4.5 83.6 1.0 CE1 A:HIS403 4.6 27.8 1.0 CA A:CA586 4.6 20.0 0.9 NE A:ARG361 4.9 72.3 1.0

Calcium binding site 2 out of 3 in the Feline Panleukopenia Virus Empty Capsid Structure


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Feline Panleukopenia Virus Empty Capsid Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca586 b:20.0 occ:0.93 OD1 A:ASP405 2.7 18.3 1.0 OD2 A:ASP405 3.3 19.8 1.0 CG A:ASP405 3.4 19.6 1.0 O A:HIS403 4.0 22.9 1.0 NE A:ARG361 4.4 72.3 1.0 CG A:ARG361 4.5 63.0 1.0 CA A:CA585 4.6 20.0 0.9 CD A:ARG361 4.8 68.2 1.0 CB A:ASP405 4.9 19.4 1.0

Calcium binding site 3 out of 3 in the Feline Panleukopenia Virus Empty Capsid Structure


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 3 of Feline Panleukopenia Virus Empty Capsid Structure within 5.0Å range: probe atom residue distance (Å) B Occ A:Ca587 b:30.0 occ:0.67 OD2 A:ASP373 3.2 48.9 1.0 OD2 A:ASP375 3.3 30.6 1.0 O A:ARG361 3.6 57.7 1.0 OD1 A:ASP373 3.6 49.1 1.0 OD1 A:ASP375 3.8 32.5 1.0 CB A:GLU368 3.8 76.2 1.0 CG A:ASP373 3.8 49.6 1.0 CG A:ASP375 3.9 30.4 1.0 CA A:GLU368 3.9 74.0 1.0 N A:ASN369 4.1 68.9 1.0 C A:GLU368 4.3 72.4 1.0 C A:ARG361 4.3 56.2 1.0 CA A:ARG361 4.5 55.3 1.0 O A:GLY360 4.6 46.4 1.0 O A:GLY362 4.6 58.6 1.0 C A:ASN369 4.7 62.5 1.0 N A:GLN370 4.8 60.8 1.0 O A:ASN369 4.9 62.0 1.0 CG A:GLU368 4.9 78.7 1.0

A.A.Simpson, V.Chandrasekar, B.Hebert, G.M.Sullivan, M.G.Rossmann, C.R.Parrish. Host Range and Variability of Calcium Binding By Surface Loops in the Capsids of Canine and Feline Parvoviruses. J.Mol.Biol. V. 300 597 2000.
ISSN: ISSN 0022-2836
PubMed: 10884355
DOI: 10.1006/JMBI.2000.3868