Chlorine in PDB 6qgi: Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2

The structure of Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2, PDB code: 6qgi was solved by K.El Omari, T.S.Walter, K.Harlos, J.M.Grimes, D.I.Stuart, E.Roine, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.60 / 2.46
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	48.080, 93.220, 121.820, 90.00, 90.00, 90.00
R / Rfree (%)	22.4 / 24.1

The binding sites of Chlorine atom in the Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2 (pdb code 6qgi). 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 VP5 From Haloarchaeal Pleomorphic Virus 2, PDB code: 6qgi:
Jump to Chlorine binding site number: 1; 2; 3; 4;

Chlorine binding site 1 out of 4 in the Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2


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 VP5 From Haloarchaeal Pleomorphic Virus 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl602 b:27.9 occ:1.00 N A:MET145 3.2 19.8 1.0 N A:THR212 3.4 20.2 1.0 N A:LEU144 3.7 16.8 1.0 CA A:MET145 3.8 20.9 1.0 CA A:PRO211 3.8 20.9 1.0 CB A:PHE143 3.9 20.4 1.0 CD2 A:LEU206 4.0 31.2 1.0 O A:THR212 4.0 20.3 1.0 CD2 A:LEU156 4.1 26.4 1.0 C A:PRO211 4.1 23.2 1.0 C A:LEU144 4.2 22.1 1.0 CB A:LEU144 4.2 15.7 1.0 O A:HOH726 4.2 19.3 1.0 CA A:LEU144 4.2 16.6 1.0 CA A:THR212 4.3 19.0 1.0 CB A:PRO211 4.3 22.9 1.0 C A:PHE143 4.3 21.3 1.0 CD1 A:PHE143 4.4 22.9 1.0 CB A:THR212 4.4 23.2 1.0 CA A:PHE143 4.5 18.5 1.0 CG A:PHE143 4.6 20.9 1.0 C A:THR212 4.6 22.3 1.0 SD A:MET145 4.6 30.9 1.0 N A:LEU146 4.6 23.5 1.0 C A:MET145 4.8 26.4 1.0 CG A:MET145 4.8 26.9 1.0 CB A:MET145 4.9 23.9 1.0 OG1 A:THR212 5.0 23.9 1.0

Chlorine binding site 2 out of 4 in the Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2


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 VP5 From Haloarchaeal Pleomorphic Virus 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl603 b:40.7 occ:1.00 N A:LEU199 3.2 27.2 1.0 OG A:SER226 3.4 36.0 1.0 CA A:SER226 3.8 23.4 1.0 CB A:LEU199 3.9 27.0 1.0 CA A:GLY198 4.0 26.3 1.0 CA A:LEU199 4.1 27.5 1.0 C A:GLY198 4.1 31.0 1.0 CG A:LEU199 4.2 30.7 1.0 CB A:SER226 4.2 26.1 1.0 O A:LEU199 4.2 33.4 1.0 CB A:LYS229 4.3 26.5 1.0 N A:SER226 4.4 24.2 1.0 CG A:LYS229 4.5 40.1 1.0 C A:LEU199 4.6 33.0 1.0 O A:ALA225 4.7 28.7 1.0 C A:ALA225 4.8 28.7 1.0 C A:SER226 4.9 26.6 1.0 CD1 A:LEU199 4.9 30.9 1.0 O A:SER226 5.0 26.4 1.0

Chlorine binding site 3 out of 4 in the Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2


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 VP5 From Haloarchaeal Pleomorphic Virus 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl604 b:32.9 occ:1.00 O A:HOH713 3.0 16.8 1.0 O A:HOH749 3.1 22.0 1.0 ND2 A:ASN55 3.1 20.6 1.0 N A:LEU223 3.2 21.4 1.0 CB A:ASN55 3.6 19.2 1.0 NE1 A:TRP228 3.8 19.7 1.0 CG A:ASN55 3.8 28.5 1.0 CA A:LEU223 4.0 22.0 1.0 CA A:TYR222 4.1 19.1 1.0 CB A:TYR222 4.1 19.6 1.0 C A:TYR222 4.1 24.2 1.0 CA A:LYS52 4.2 22.2 1.0 CZ2 A:TRP228 4.3 19.9 1.0 CE2 A:TRP228 4.4 21.0 1.0 CG2 A:VAL60 4.4 23.4 1.0 CD2 A:TYR222 4.5 22.5 1.0 CG A:LYS52 4.7 36.1 1.0 O A:LYS52 4.7 25.2 1.0 CG A:TYR222 4.8 21.7 1.0 N A:ASN224 4.8 24.0 1.0 O A:ARG51 4.8 26.2 1.0 CB A:LYS52 4.8 24.9 1.0 CD2 A:LEU223 4.9 28.2 1.0 N A:LYS52 4.9 22.5 1.0 CD1 A:TRP228 5.0 20.6 1.0 C A:LEU223 5.0 27.4 1.0 CG A:LEU223 5.0 26.6 1.0

Chlorine binding site 4 out of 4 in the Crystal Structure of VP5 From Haloarchaeal Pleomorphic Virus 2


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 VP5 From Haloarchaeal Pleomorphic Virus 2 within 5.0Å range: probe atom residue distance (Å) B Occ A:Cl605 b:50.0 occ:1.00 O A:HOH704 2.9 21.8 1.0 CB A:ALA286 3.6 24.1 1.0 N A:ALA286 3.6 24.3 1.0 CB A:SER284 3.9 31.9 1.0 N A:THR436 4.0 26.3 1.0 CA A:GLU435 4.1 28.4 1.0 N A:GLN285 4.1 25.7 1.0 CA A:ALA286 4.3 23.8 1.0 O A:HOH729 4.3 25.2 1.0 C A:SER284 4.4 30.1 1.0 CA A:SER284 4.5 28.7 1.0 CB A:GLU435 4.5 29.5 1.0 C A:GLU435 4.5 30.8 1.0 O A:TYR434 4.6 33.5 1.0 C A:GLN285 4.7 27.5 1.0 O A:HOH737 4.7 41.9 1.0 O A:VAL14 4.8 30.6 1.0 CA A:GLN285 4.8 24.5 1.0 OG A:SER284 4.8 40.4 1.0 CG A:GLU435 4.8 41.9 1.0 OG1 A:THR436 4.9 32.2 1.0 CB A:THR436 4.9 31.9 1.0

K.El Omari, S.Li, A.Kotecha, T.S.Walter, E.A.Bignon, K.Harlos, P.Somerharju, F.De Haas, D.K.Clare, M.Molin, F.Hurtado, M.Li, J.M.Grimes, D.H.Bamford, N.D.Tischler, J.T.Huiskonen, D.I.Stuart, E.Roine. The Structure of A Prokaryotic Viral Envelope Protein Expands the Landscape of Membrane Fusion Proteins. Nat Commun V. 10 846 2019.
ISSN: ESSN 2041-1723
PubMed: 30783086
DOI: 10.1038/S41467-019-08728-7