Potassium in PDB 4x15: Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide

The structure of Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide, PDB code: 4x15 was solved by L.J.Stroh, T.Stehle, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 2.11
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	150.490, 95.680, 129.720, 90.00, 110.30, 90.00
R / Rfree (%)	17.2 / 20.5

The binding sites of Potassium atom in the Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide (pdb code 4x15). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide, PDB code: 4x15:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide within 5.0Å range: probe atom residue distance (Å) B Occ A:K306 b:36.3 occ:0.80 O E:HOH564 2.6 42.2 1.0 OE2 A:GLU208 2.6 40.2 1.0 O A:THR205 2.6 24.3 1.0 O A:HOH522 2.6 23.5 1.0 OE2 E:GLU40 2.7 34.3 1.0 O A:HOH562 2.8 49.3 1.0 OE1 E:GLU40 3.0 35.6 1.0 CD E:GLU40 3.3 33.6 1.0 C A:THR205 3.5 23.8 1.0 CD A:GLU208 3.8 38.1 1.0 CA A:THR205 4.3 23.6 1.0 N A:ARG206 4.4 23.5 1.0 CG A:GLU208 4.5 34.3 1.0 OH E:TYR277 4.5 23.7 1.0 CA A:ARG206 4.5 24.2 1.0 CG E:GLU40 4.8 31.3 1.0 O A:ARG206 4.8 23.1 1.0 OE1 A:GLU208 4.8 38.4 1.0 O A:PRO204 4.9 22.5 1.0

Potassium binding site 2 out of 2 in the Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Jc Mad-1 Polyomavirus VP1 in Complex with GM2 Oligosaccharide within 5.0Å range: probe atom residue distance (Å) B Occ D:K309 b:27.3 occ:0.50 O E:HOH428 2.3 44.8 1.0 O E:HOH507 2.5 34.5 1.0 O E:THR205 2.6 21.9 1.0 OE2 E:GLU208 2.6 36.7 1.0 OE2 D:GLU40 2.6 33.8 1.0 OE1 D:GLU40 2.9 34.8 1.0 CD D:GLU40 3.1 33.2 1.0 C E:THR205 3.5 21.7 1.0 CD E:GLU208 3.8 35.5 1.0 CA E:THR205 4.1 21.0 1.0 N E:ARG206 4.4 22.0 1.0 CG E:GLU208 4.5 32.0 1.0 CA E:ARG206 4.6 22.5 1.0 OH D:TYR277 4.6 22.8 1.0 CG D:GLU40 4.6 31.3 1.0 OE1 E:GLU208 4.8 35.7 1.0 O E:PRO204 4.8 19.7 1.0 O E:ARG206 4.9 21.9 1.0 CB E:THR205 4.9 21.7 1.0

L.J.Stroh, M.S.Maginnis, B.S.Blaum, C.D.Nelson, U.Neu, G.V.Gee, B.A.O'hara, N.Motamedi, D.Dimaio, W.J.Atwood, T.Stehle. The Greater Affinity of Jc Polyomavirus Capsid For Alpha 2,6-Linked Lactoseries Tetrasaccharide C Than For Other Sialylated Glycans Is A Major Determinant of Infectivity. J.Virol. V. 89 6364 2015.
ISSN: ESSN 1098-5514
PubMed: 25855729
DOI: 10.1128/JVI.00489-15