Chlorine in PDB 3l25: Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna

The structure of Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna, PDB code: 3l25 was solved by D.W.Leung, K.C.Prins, D.M.Borek, M.Farahbakhsh, J.M.Tufariello, P.Ramanan, J.C.Nix, L.A.Helgeson, Z.Otwinowski, R.B.Honzatko, C.F.Basler, G.K.Amarasinghe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	44.68 / 2.00
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	78.947, 84.571, 89.316, 90.00, 90.00, 90.00
R / Rfree (%)	16.9 / 20.7

The structure of Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna also contains other interesting chemical elements:

Magnesium	(Mg)	1 atom
Sodium	(Na)	8 atoms

The binding sites of Chlorine atom in the Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna (pdb code 3l25). This binding sites where shown within 5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna, PDB code: 3l25:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 1 of Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl2 b:64.9 occ:1.00 NH1 A:ARG300 3.2 42.2 1.0 CD1 A:LEU330 3.7 28.1 1.0 O A:HOH366 4.0 34.7 1.0 CG A:ARG300 4.3 29.1 1.0 CB A:ARG300 4.4 26.6 1.0 CD A:ARG300 4.4 34.8 1.0 CZ A:ARG300 4.4 40.1 1.0 CD1 A:LEU336 4.7 22.3 1.0 NE A:ARG300 4.9 37.4 1.0 CG A:LEU330 5.0 25.8 1.0

Chlorine binding site 2 out of 4 in the Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 2 of Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna within 5.0Å range: probe atom residue distance (Å) B Occ B:Cl5 b:77.2 occ:1.00 CG B:GLN264 3.2 23.6 1.0 CB B:GLN264 3.7 19.0 1.0 CE1 B:HIS260 4.0 26.9 1.0 O B:HOH353 4.1 35.9 1.0 ND1 B:HIS260 4.2 26.5 1.0 NE2 B:HIS260 4.3 24.2 1.0 O B:HIS260 4.3 15.6 1.0 CD B:GLN264 4.4 30.0 1.0 O B:HOH174 4.4 16.8 1.0 CG B:HIS260 4.6 20.7 1.0 CD2 B:HIS260 4.6 21.6 1.0 CA B:ALA261 4.6 16.7 1.0 C B:HIS260 4.8 15.7 1.0 NE2 B:GLN264 4.8 31.4 1.0 N B:ALA261 4.9 16.1 1.0

Chlorine binding site 3 out of 4 in the Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 3 of Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna within 5.0Å range: probe atom residue distance (Å) B Occ D:Cl4 b:58.3 occ:1.00 NE2 D:HIS231 3.6 23.7 1.0 CE1 D:HIS231 3.6 21.7 1.0 CB D:ASP230 3.8 22.5 1.0 CD2 D:HIS231 4.0 21.4 1.0 ND1 D:HIS231 4.0 21.1 1.0 O D:ASP230 4.1 20.6 1.0 C D:ASP230 4.2 19.2 1.0 CG D:HIS231 4.2 20.1 1.0 N D:HIS231 4.6 17.3 1.0 CA D:ASP230 4.6 19.9 1.0 CG D:ASP230 4.7 28.6 1.0 OD2 D:ASP230 4.8 33.1 1.0 CA D:HIS231 4.9 17.3 1.0 O D:ILE227 5.0 15.6 1.0

Chlorine binding site 4 out of 4 in the Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna


Mono view


Stereo pair view

A full contact list of Chlorine with other atoms in the Cl binding site number 4 of Crystal Structure of Zaire Ebola VP35 Interferon Inhibitory Domain Bound to 8 Bp Dsrna within 5.0Å range: probe atom residue distance (Å) B Occ E:Cl3 b:63.5 occ:1.00 N E:ARG300 2.8 28.7 1.0 CA E:SER299 3.4 31.1 1.0 CB E:SER299 3.5 34.9 1.0 C E:SER299 3.6 28.0 1.0 CB E:ARG300 3.7 29.0 1.0 CA E:ARG300 3.8 27.1 1.0 CD2 E:LEU330 4.2 22.4 1.0 CD1 E:LEU330 4.6 22.4 1.0 N E:GLY301 4.8 30.2 1.0 OG E:SER299 4.8 35.6 1.0 N E:SER299 4.8 30.8 1.0 O E:SER299 4.8 24.9 1.0 C E:ARG300 4.9 27.3 1.0 O E:ARG298 4.9 35.1 1.0

D.W.Leung, K.C.Prins, D.M.Borek, M.Farahbakhsh, J.M.Tufariello, P.Ramanan, J.C.Nix, L.A.Helgeson, Z.Otwinowski, R.B.Honzatko, C.F.Basler, G.K.Amarasinghe. Structural Basis For Dsrna Recognition and Interferon Antagonism By Ebola VP35. Nat.Struct.Mol.Biol. V. 17 165 2010.
ISSN: ISSN 1545-9993
PubMed: 20081868
DOI: 10.1038/NSMB.1765